locus-tag	class	description
PhaeoP54_00001	COG0593	it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box) 5'-TTATC CA A CA A-3'. DnaA binds to ATP and to acidic phospholipids
PhaeoP54_00002	COG0592	DNA-directed DNA polymerase activity
PhaeoP54_00003	COG1195	it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP
PhaeoP54_00006	COG0431	NADPH-dependent FMN reductase
PhaeoP54_00007	COG0187	DNA topoisomerase II activity
PhaeoP54_00011	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PhaeoP54_00012	COG0473	3-isopropylmalate dehydrogenase activity
PhaeoP54_00013	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_00014	COG1522	sequence-specific DNA binding
PhaeoP54_00027	COG0277	FAD linked oxidase domain protein
PhaeoP54_00038	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
PhaeoP54_00043	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_00044	COG5441	Belongs to the UPF0261 family
PhaeoP54_00046	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_00048	COG0179	Fumarylacetoacetate (FAA) hydrolase
PhaeoP54_00049	COG3971	2-oxopent-4-enoate hydratase activity
PhaeoP54_00053	COG1335	isochorismatase
PhaeoP54_00055	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
PhaeoP54_00063	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
PhaeoP54_00064	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
PhaeoP54_00065	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
PhaeoP54_00067	COG1443	Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP)
PhaeoP54_00068	COG3474	cytochrome
PhaeoP54_00069	COG3191	aminopeptidase activity
PhaeoP54_00074	COG3770	Murein endopeptidase that cleaves the D-alanyl-meso-2,6- diamino-pimelyl amide bond that connects peptidoglycan strands. Likely plays a role in the removal of murein from the sacculus
PhaeoP54_00075	COG2270	Major facilitator Superfamily
PhaeoP54_00078	COG0514	ATP-dependent DNA helicase (RecQ)
PhaeoP54_00079	COG3022	response to hydroperoxide
PhaeoP54_00080	COG2205	protein histidine kinase activity
PhaeoP54_00080	COG0784	Response regulator, receiver
PhaeoP54_00080	COG5002	protein histidine kinase activity
PhaeoP54_00081	COG2373	Large extracellular alpha-helical protein
PhaeoP54_00082	COG4953	penicillin-binding protein 1C
PhaeoP54_00086	COG0714	Associated with various cellular activities
PhaeoP54_00088	COG3622	Belongs to the hyi family
PhaeoP54_00090	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
PhaeoP54_00090	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
PhaeoP54_00091	COG3300	MHYT domain
PhaeoP54_00091	COG5001	Diguanylate cyclase
PhaeoP54_00093	COG1131	(ABC) transporter
PhaeoP54_00099	COG0777	Component of the acetyl coenzyme A carboxylase (ACC) complex. Biotin carboxylase (BC) catalyzes the carboxylation of biotin on its carrier protein (BCCP) and then the CO(2) group is transferred by the transcarboxylase to acetyl-CoA to form malonyl- CoA
PhaeoP54_00101	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
PhaeoP54_00102	COG2271	Major facilitator Superfamily
PhaeoP54_00103	COG2423	ornithine cyclodeaminase activity
PhaeoP54_00106	COG1671	Belongs to the UPF0178 family
PhaeoP54_00108	COG0627	Serine hydrolase involved in the detoxification of formaldehyde
PhaeoP54_00110	COG1309	transcriptional regulator
PhaeoP54_00114	COG0791	NLP P60 protein
PhaeoP54_00115	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
PhaeoP54_00117	COG0288	reversible hydration of carbon dioxide
PhaeoP54_00120	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
PhaeoP54_00125	COG0410	ABC transporter
PhaeoP54_00126	COG0411	ABC transporter
PhaeoP54_00131	COG2379	hydroxypyruvate reductase
PhaeoP54_00133	COG1349	DNA-binding transcription factor activity
PhaeoP54_00134	COG1283	sodium-dependent phosphate transmembrane transporter activity
PhaeoP54_00137	COG3842	ATPase activity
PhaeoP54_00146	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
PhaeoP54_00154	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
PhaeoP54_00155	COG0361	One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre- initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initation complex
PhaeoP54_00157	COG1530	ribonuclease E activity
PhaeoP54_00158	COG3024	Inhibits all the catalytic activities of DNA gyrase by preventing its interaction with DNA. Acts by binding directly to the C-terminal domain of GyrB, which probably disrupts DNA binding by the gyrase
PhaeoP54_00167	COG2207	Transcriptional regulator
PhaeoP54_00170	COG3239	Fatty acid desaturase
PhaeoP54_00172	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
PhaeoP54_00178	COG0330	HflC and HflK could
PhaeoP54_00186	COG1802	Transcriptional regulator
PhaeoP54_00187	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
PhaeoP54_00190	COG3473	Maleate cis-trans isomerase
PhaeoP54_00192	COG1881	PFAM PEBP family protein
PhaeoP54_00193	COG1881	PFAM PEBP family protein
PhaeoP54_00196	COG2801	Transposase and inactivated derivatives
PhaeoP54_00200	COG0463	Glycosyl transferase, family 2
PhaeoP54_00204	COG0668	transmembrane transport
PhaeoP54_00205	COG2116	formate transmembrane transporter activity
PhaeoP54_00210	COG0789	Transcriptional regulator
PhaeoP54_00211	COG2814	Major facilitator Superfamily
PhaeoP54_00212	COG3591	Belongs to the peptidase S1B family
PhaeoP54_00213	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
PhaeoP54_00214	COG4618	COG4618 ABC-type protease lipase transport system, ATPase and permease components
PhaeoP54_00217	COG2766	serine protein kinase
PhaeoP54_00218	COG2718	Belongs to the UPF0229 family
PhaeoP54_00219	COG2719	SpoVR family
PhaeoP54_00220	COG1802	Transcriptional regulator
PhaeoP54_00221	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
PhaeoP54_00225	COG3485	protocatechuate 3,4-dioxygenase
PhaeoP54_00226	COG3485	protocatechuate 3,4-dioxygenase
PhaeoP54_00227	COG0599	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
PhaeoP54_00228	COG0583	DNA-binding transcription factor activity
PhaeoP54_00229	COG0559	Belongs to the binding-protein-dependent transport system permease family
PhaeoP54_00230	COG4214	carbohydrate transport
PhaeoP54_00233	COG1022	Amp-dependent synthetase and ligase
PhaeoP54_00237	COG0604	alcohol dehydrogenase
PhaeoP54_00241	COG1609	Transcriptional regulator
PhaeoP54_00242	COG1653	transport
PhaeoP54_00244	COG0395	ABC-type sugar transport system, permease component
PhaeoP54_00245	COG3842	ATPase activity
PhaeoP54_00247	COG0350	Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
PhaeoP54_00247	COG2169	Transcriptional regulator
PhaeoP54_00248	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
PhaeoP54_00250	COG0793	Belongs to the peptidase S41A family
PhaeoP54_00254	COG1131	(ABC) transporter
PhaeoP54_00255	COG0842	Transport permease protein
PhaeoP54_00259	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_00260	COG0322	excinuclease ABC activity
PhaeoP54_00261	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
PhaeoP54_00263	COG0314	molybdopterin synthase activity
PhaeoP54_00265	COG2885	chlorophyll binding
PhaeoP54_00267	COG1385	rRNA (uridine-N3-)-methyltransferase activity
PhaeoP54_00273	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
PhaeoP54_00277	COG0540	Belongs to the ATCase OTCase family
PhaeoP54_00278	COG1573	uracil-dna glycosylase
PhaeoP54_00279	COG0521	Mo-molybdopterin cofactor biosynthetic process
PhaeoP54_00281	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
PhaeoP54_00282	COG0494	nUDIX hydrolase
PhaeoP54_00284	COG1678	Uncharacterized ACR, COG1678
PhaeoP54_00285	COG0009	L-threonylcarbamoyladenylate synthase
PhaeoP54_00286	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_00293	COG1526	Required for formate dehydrogenase (FDH) activity. Acts as a sulfur carrier protein that transfers sulfur from IscS to the molybdenum cofactor prior to its insertion into FDH
PhaeoP54_00294	COG0746	molybdenum cofactor guanylyltransferase activity
PhaeoP54_00295	COG1763	Mo-molybdopterin cofactor biosynthetic process
PhaeoP54_00297	COG0303	'Molybdopterin
PhaeoP54_00299	COG0782	Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus
PhaeoP54_00302	COG0789	Transcriptional regulator
PhaeoP54_00304	COG4785	May be involved in cell division
PhaeoP54_00305	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
PhaeoP54_00306	COG0142	geranyltranstransferase activity
PhaeoP54_00311	COG0583	DNA-binding transcription factor activity
PhaeoP54_00312	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_00317	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
PhaeoP54_00318	COG0165	Argininosuccinate lyase
PhaeoP54_00320	COG0019	diaminopimelate decarboxylase activity
PhaeoP54_00323	COG2884	Cell division ATP-binding protein ftsE
PhaeoP54_00330	COG0508	dehydrogenase complex catalyzes the overall conversion of
PhaeoP54_00333	COG0045	succinate-CoA ligase (ADP-forming) activity
PhaeoP54_00335	COG0039	L-malate dehydrogenase activity
PhaeoP54_00338	COG2301	Belongs to the HpcH HpaI aldolase family
PhaeoP54_00341	COG2030	dehydratase
PhaeoP54_00351	COG0019	diaminopimelate decarboxylase activity
PhaeoP54_00353	COG0813	purine-nucleoside phosphorylase activity
PhaeoP54_00356	COG2755	lipolytic protein G-D-S-L family
PhaeoP54_00356	COG1835	transferase activity, transferring acyl groups other than amino-acyl groups
PhaeoP54_00357	COG2937	Belongs to the GPAT DAPAT family
PhaeoP54_00362	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_00364	COG0730	response to heat
PhaeoP54_00370	COG1214	PFAM Peptidase M22, glycoprotease
PhaeoP54_00371	COG0694	Involved in iron-sulfur cluster biogenesis. Binds a 4Fe- 4S cluster, can transfer this cluster to apoproteins, and thereby intervenes in the maturation of Fe S proteins. Could also act as a scaffold chaperone for damaged Fe S proteins
PhaeoP54_00375	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
PhaeoP54_00376	COG2151	metal-sulfur cluster biosynthetic enzyme
PhaeoP54_00377	COG3396	Phenylacetate-CoA oxygenase
PhaeoP54_00378	COG3460	Phenylacetate-CoA oxygenase
PhaeoP54_00379	COG3396	Phenylacetate-CoA oxygenase
PhaeoP54_00382	COG1024	Enoyl-CoA hydratase
PhaeoP54_00382	COG1250	3-hydroxyacyl-CoA dehydrogenase
PhaeoP54_00383	COG0183	Belongs to the thiolase family
PhaeoP54_00384	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_00385	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_00387	COG0318	PFAM AMP-dependent synthetase and ligase
PhaeoP54_00389	COG3638	Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system
PhaeoP54_00390	COG3221	ABC-type phosphate phosphonate transport system periplasmic component
PhaeoP54_00391	COG3639	organic phosphonate transmembrane transporter activity
PhaeoP54_00392	COG3639	organic phosphonate transmembrane transporter activity
PhaeoP54_00395	COG3624	Phosphonate C-P lyase system protein PhnG
PhaeoP54_00397	COG3626	phosphonate metabolism
PhaeoP54_00399	COG3627	carbon phosphorus lyase activity
PhaeoP54_00400	COG4107	phosphonate C-P lyase system protein PhnK
PhaeoP54_00401	COG4778	phosphonate C-P lyase system protein PhnL
PhaeoP54_00404	COG3454	Phosphonate metabolism
PhaeoP54_00409	COG0438	transferase activity, transferring glycosyl groups
PhaeoP54_00412	COG0668	transmembrane transport
PhaeoP54_00413	COG1804	L-carnitine dehydratase bile acid-inducible protein F
PhaeoP54_00414	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PhaeoP54_00415	COG0601	transmembrane transport
PhaeoP54_00422	COG1522	sequence-specific DNA binding
PhaeoP54_00424	COG1132	(ABC) transporter
PhaeoP54_00426	COG4948	Mandelate Racemase Muconate Lactonizing
PhaeoP54_00429	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
PhaeoP54_00432	COG0596	Alpha beta hydrolase
PhaeoP54_00434	COG1047	Peptidyl-prolyl cis-trans
PhaeoP54_00435	COG2070	2-Nitropropane dioxygenase
PhaeoP54_00436	COG0623	enoyl-[acyl-carrier-protein] reductase (NADH) activity
PhaeoP54_00437	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
PhaeoP54_00438	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
PhaeoP54_00440	COG0583	DNA-binding transcription factor activity
PhaeoP54_00443	COG0621	Catalyzes the methylthiolation of N6- (dimethylallyl)adenosine (i(6)A), leading to the formation of 2- methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine
PhaeoP54_00446	COG1702	phosphate starvation-inducible protein PhoH
PhaeoP54_00447	COG0319	Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA
PhaeoP54_00448	COG1253	flavin adenine dinucleotide binding
PhaeoP54_00449	COG0815	Transfers the fatty acyl group on membrane lipoproteins
PhaeoP54_00451	COG0192	Catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP. The overall synthetic reaction is composed of two sequential steps, AdoMet formation and the subsequent tripolyphosphate hydrolysis which occurs prior to release of AdoMet from the enzyme
PhaeoP54_00453	COG0220	tRNA (guanine-N7-)-methyltransferase activity
PhaeoP54_00454	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
PhaeoP54_00455	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
PhaeoP54_00456	COG0539	negative regulation of cytoplasmic translation
PhaeoP54_00457	COG0776	regulation of translation
PhaeoP54_00459	COG0135	phosphoribosylanthranilate isomerase activity
PhaeoP54_00460	COG0133	tryptophan synthase activity
PhaeoP54_00463	COG0193	aminoacyl-tRNA hydrolase activity
PhaeoP54_00464	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
PhaeoP54_00466	COG0159	tryptophan synthase activity
PhaeoP54_00468	COG0012	GTP binding
PhaeoP54_00472	COG4638	Rieske (2fe-2S)
PhaeoP54_00481	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
PhaeoP54_00483	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_00485	COG0840	transmembrane signaling receptor activity
PhaeoP54_00489	COG0395	ABC-type sugar transport system, permease component
PhaeoP54_00490	COG1175	transmembrane transport
PhaeoP54_00491	COG3842	ATPase activity
PhaeoP54_00499	COG2244	polysaccharide biosynthetic process
PhaeoP54_00500	COG0438	transferase activity, transferring glycosyl groups
PhaeoP54_00500	COG0297	glycogen (starch) synthase activity
PhaeoP54_00509	COG1922	lipopolysaccharide N-acetylmannosaminouronosyltransferase activity
PhaeoP54_00512	COG0837	glucose binding
PhaeoP54_00517	COG2351	hydroxyisourate hydrolase activity
PhaeoP54_00519	COG3194	Catalyzes the catabolism of the allantoin degradation intermediate (S)-ureidoglycolate, generating urea and glyoxylate. Involved in the utilization of allantoin as nitrogen source
PhaeoP54_00523	COG3257	ureidoglycine aminohydrolase activity
PhaeoP54_00528	COG0509	glycine decarboxylation via glycine cleavage system
PhaeoP54_00529	COG0403	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
PhaeoP54_00529	COG1003	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
PhaeoP54_00531	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
PhaeoP54_00532	COG0720	synthase
PhaeoP54_00533	COG0602	queuosine metabolic process
PhaeoP54_00534	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
PhaeoP54_00536	COG0101	tRNA pseudouridine synthase activity
PhaeoP54_00537	COG3106	COG3106 Predicted ATPase
PhaeoP54_00539	COG3768	UPF0283 membrane protein
PhaeoP54_00542	COG0060	amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile)
PhaeoP54_00544	COG0350	Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
PhaeoP54_00545	COG1183	phosphatidylcholine synthase activity
PhaeoP54_00547	COG4974	Belongs to the 'phage' integrase family
PhaeoP54_00549	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
PhaeoP54_00551	COG2391	methyltransferase activity
PhaeoP54_00553	COG2264	protein methyltransferase activity
PhaeoP54_00556	COG0817	Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group
PhaeoP54_00557	COG0632	four-way junction helicase activity
PhaeoP54_00558	COG2255	four-way junction helicase activity
PhaeoP54_00560	COG0824	Thioesterase
PhaeoP54_00564	COG0823	Involved in the tonB-independent uptake of proteins
PhaeoP54_00565	COG2885	chlorophyll binding
PhaeoP54_00567	COG0037	tRNA processing
PhaeoP54_00568	COG0465	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins
PhaeoP54_00570	COG2759	Belongs to the formate--tetrahydrofolate ligase family
PhaeoP54_00571	COG1605	Chorismate mutase
PhaeoP54_00571	COG0287	Prephenate dehydrogenase
PhaeoP54_00572	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
PhaeoP54_00575	COG1201	RNA secondary structure unwinding
PhaeoP54_00584	COG2885	chlorophyll binding
PhaeoP54_00585	COG4964	Belongs to the GSP D family
PhaeoP54_00589	COG0741	lytic transglycosylase activity
PhaeoP54_00593	COG0550	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone
PhaeoP54_00594	COG0758	DNA mediated transformation
PhaeoP54_00595	COG0312	modulator of DNA gyrase
PhaeoP54_00597	COG0109	protoheme IX farnesyltransferase activity
PhaeoP54_00599	COG3175	Exerts its effect at some terminal stage of cytochrome c oxidase synthesis, probably by being involved in the insertion of the copper B into subunit I
PhaeoP54_00603	COG0612	Peptidase, M16
PhaeoP54_00606	COG2271	Major facilitator Superfamily
PhaeoP54_00607	COG2335	COG2335, Secreted and surface protein containing fasciclin-like repeats
PhaeoP54_00608	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
PhaeoP54_00609	COG0005	The purine nucleoside phosphorylases catalyze the phosphorolytic breakdown of the N-glycosidic bond in the beta- (deoxy)ribonucleoside molecules, with the formation of the corresponding free purine bases and pentose-1-phosphate
PhaeoP54_00610	COG0659	secondary active sulfate transmembrane transporter activity
PhaeoP54_00612	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
PhaeoP54_00618	COG0752	glycyl-tRNA synthetase alpha subunit
PhaeoP54_00620	COG0786	glutamate:sodium symporter activity
PhaeoP54_00621	COG0751	glycine-tRNA ligase activity
PhaeoP54_00622	COG0574	Belongs to the PEP-utilizing enzyme family
PhaeoP54_00622	COG1080	General (non sugar-specific) component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (sugar PTS). This major carbohydrate active-transport system catalyzes the phosphorylation of incoming sugar substrates concomitantly with their translocation across the cell membrane. Enzyme I transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr)
PhaeoP54_00623	COG3773	Cell wall hydrolase
PhaeoP54_00623	COG3409	Peptidoglycan-binding domain 1 protein
PhaeoP54_00624	COG1539	Catalyzes the conversion of 7,8-dihydroneopterin to 6- hydroxymethyl-7,8-dihydropterin
PhaeoP54_00625	COG0294	Catalyzes the condensation of para-aminobenzoate (pABA) with 6-hydroxymethyl-7,8-dihydropterin diphosphate (DHPt-PP) to form 7,8-dihydropteroate (H2Pte), the immediate precursor of folate derivatives
PhaeoP54_00626	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
PhaeoP54_00629	COG0059	Involved in the biosynthesis of branched-chain amino acids (BCAA). Catalyzes an alkyl-migration followed by a ketol- acid reduction of (S)-2-acetolactate (S2AL) to yield (R)-2,3- dihydroxy-isovalerate. In the isomerase reaction, S2AL is rearranged via a Mg-dependent methyl migration to produce 3- hydroxy-3-methyl-2-ketobutyrate (HMKB). In the reductase reaction, this 2-ketoacid undergoes a metal-dependent reduction by NADPH to yield (R)-2,3-dihydroxy-isovalerate
PhaeoP54_00631	COG1522	sequence-specific DNA binding
PhaeoP54_00636	COG1802	Transcriptional regulator
PhaeoP54_00638	COG0505	Belongs to the CarA family
PhaeoP54_00643	COG0537	adenosine 5'-monophosphoramidase activity
PhaeoP54_00645	COG0321	lipoyl(octanoyl) transferase activity
PhaeoP54_00651	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PhaeoP54_00652	COG0444	Belongs to the ABC transporter superfamily
PhaeoP54_00653	COG4608	Belongs to the ABC transporter superfamily
PhaeoP54_00654	COG2220	Zn-dependent hydrolases of the beta-lactamase fold
PhaeoP54_00656	COG2801	Transposase and inactivated derivatives
PhaeoP54_00661	COG0469	pyruvate kinase activity
PhaeoP54_00663	COG0291	Belongs to the bacterial ribosomal protein bL35 family
PhaeoP54_00664	COG0292	Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit
PhaeoP54_00665	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
PhaeoP54_00667	COG0072	phenylalanine-tRNA ligase activity
PhaeoP54_00667	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PhaeoP54_00672	COG0668	transmembrane transport
PhaeoP54_00673	COG1970	mechanosensitive ion channel activity
PhaeoP54_00675	COG1115	amino acid carrier protein
PhaeoP54_00678	COG1858	cytochrome C peroxidase
PhaeoP54_00680	COG3391	amine dehydrogenase activity
PhaeoP54_00685	COG0673	inositol 2-dehydrogenase activity
PhaeoP54_00688	COG0524	Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5- phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway
PhaeoP54_00689	COG3962	Belongs to the TPP enzyme family
PhaeoP54_00690	COG0673	inositol 2-dehydrogenase activity
PhaeoP54_00692	COG0673	inositol 2-dehydrogenase activity
PhaeoP54_00695	COG4214	carbohydrate transport
PhaeoP54_00699	COG0800	Aldolase
PhaeoP54_00701	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_00702	COG0129	dihydroxy-acid dehydratase activity
PhaeoP54_00705	COG1175	transmembrane transport
PhaeoP54_00711	COG1734	Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters
PhaeoP54_00717	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
PhaeoP54_00719	COG1329	Transcriptional regulator
PhaeoP54_00721	COG0368	Joins adenosylcobinamide-GDP and alpha-ribazole to generate adenosylcobalamin (Ado-cobalamin). Also synthesizes adenosylcobalamin 5'-phosphate from adenosylcobinamide-GDP and alpha-ribazole 5'-phosphate
PhaeoP54_00722	COG2038	nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity
PhaeoP54_00733	COG3916	Acyl-homoserine-lactone synthase
PhaeoP54_00738	COG1063	alcohol dehydrogenase
PhaeoP54_00739	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_00742	COG3090	Trap-type c4-dicarboxylate transport system, small permease component
PhaeoP54_00746	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
PhaeoP54_00747	COG0006	proline dipeptidase activity
PhaeoP54_00749	COG2723	6-phospho-beta-galactosidase activity
PhaeoP54_00750	COG1609	Transcriptional regulator
PhaeoP54_00751	COG1653	transport
PhaeoP54_00752	COG1175	transmembrane transport
PhaeoP54_00753	COG0395	ABC-type sugar transport system, permease component
PhaeoP54_00754	COG0366	Alpha amylase catalytic
PhaeoP54_00755	COG3842	ATPase activity
PhaeoP54_00757	COG0642	Histidine kinase
PhaeoP54_00763	COG1234	tRNA 3'-trailer cleavage
PhaeoP54_00764	COG0084	hydrolase, TatD family'
PhaeoP54_00766	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
PhaeoP54_00767	COG1686	Belongs to the peptidase S11 family
PhaeoP54_00774	COG1648	precorrin-2 dehydrogenase activity
PhaeoP54_00774	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
PhaeoP54_00775	COG1797	cobyrinic acid a,c-diamide synthase activity
PhaeoP54_00776	COG2875	Belongs to the precorrin methyltransferase family
PhaeoP54_00779	COG2099	Precorrin-6x reductase
PhaeoP54_00801	COG0583	DNA-binding transcription factor activity
PhaeoP54_00803	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PhaeoP54_00807	COG0667	Aldo Keto reductase
PhaeoP54_00809	COG3246	L-lysine catabolic process to acetate
PhaeoP54_00811	COG1250	3-hydroxyacyl-CoA dehydrogenase
PhaeoP54_00811	COG0824	Thioesterase
PhaeoP54_00812	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_00820	COG1595	DNA-templated transcription, initiation
PhaeoP54_00823	COG3706	GGDEF domain
PhaeoP54_00827	COG3449	Inhibits the supercoiling activity of DNA gyrase. Acts by inhibiting DNA gyrase at an early step, prior to (or at the step of) binding of DNA by the gyrase. It protects cells against toxins that target DNA gyrase, by inhibiting activity of these toxins and reducing the formation of lethal double-strand breaks in the cell
PhaeoP54_00832	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
PhaeoP54_00837	COG1741	Belongs to the pirin family
PhaeoP54_00842	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
PhaeoP54_00844	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
PhaeoP54_00846	COG0404	The glycine cleavage system catalyzes the degradation of glycine
PhaeoP54_00846	COG0446	pyridine nucleotide-disulphide oxidoreductase
PhaeoP54_00849	COG0358	DNA primase activity
PhaeoP54_00850	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
PhaeoP54_00852	COG4221	oxidoreductase activity
PhaeoP54_00855	COG0432	Pfam Uncharacterised protein family UPF0047
PhaeoP54_00856	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
PhaeoP54_00857	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
PhaeoP54_00857	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
PhaeoP54_00863	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
PhaeoP54_00864	COG0781	Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons
PhaeoP54_00870	COG0564	pseudouridine synthase activity
PhaeoP54_00871	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
PhaeoP54_00872	COG0840	transmembrane signaling receptor activity
PhaeoP54_00873	COG0351	phosphomethylpyrimidine kinase
PhaeoP54_00874	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
PhaeoP54_00879	COG0422	Catalyzes the synthesis of the hydroxymethylpyrimidine phosphate (HMP-P) moiety of thiamine from aminoimidazole ribotide (AIR) in a radical S-adenosyl-L-methionine (SAM)-dependent reaction
PhaeoP54_00881	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
PhaeoP54_00886	COG4106	trans-aconitate 2-methyltransferase activity
PhaeoP54_00887	COG4148	Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system
PhaeoP54_00887	COG1618	nucleotide phosphatase activity, acting on free nucleotides
PhaeoP54_00890	COG1832	CoA-binding protein
PhaeoP54_00891	COG0140	phosphoribosyl-ATP diphosphatase activity
PhaeoP54_00892	COG0107	imidazoleglycerol-phosphate synthase activity
PhaeoP54_00895	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
PhaeoP54_00900	COG0118	IGPS catalyzes the conversion of PRFAR and glutamine to IGP, AICAR and glutamate. The HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of IGP and AICAR
PhaeoP54_00901	COG0131	Imidazoleglycerol-phosphate dehydratase
PhaeoP54_00903	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
PhaeoP54_00910	COG1038	Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second
PhaeoP54_00912	COG1304	FMN binding
PhaeoP54_00914	COG0210	DNA helicase
PhaeoP54_00917	COG0489	protein tyrosine kinase activity
PhaeoP54_00918	COG2001	Belongs to the MraZ family
PhaeoP54_00919	COG0275	rRNA processing
PhaeoP54_00922	COG0769	Catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanyl-D-glutamate (UMAG) in the biosynthesis of bacterial cell-wall peptidoglycan
PhaeoP54_00923	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
PhaeoP54_00924	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
PhaeoP54_00925	COG2066	Belongs to the glutaminase family
PhaeoP54_00926	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
PhaeoP54_00927	COG1846	Transcriptional regulator
PhaeoP54_00929	COG2081	HI0933 family
PhaeoP54_00931	COG0707	Cell wall formation. Catalyzes the transfer of a GlcNAc subunit on undecaprenyl-pyrophosphoryl-MurNAc-pentapeptide (lipid intermediate I) to form undecaprenyl-pyrophosphoryl-MurNAc- (pentapeptide)GlcNAc (lipid intermediate II)
PhaeoP54_00932	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
PhaeoP54_00935	COG0812	UDP-N-acetylmuramate dehydrogenase activity
PhaeoP54_00936	COG1181	Belongs to the D-alanine--D-alanine ligase family
PhaeoP54_00937	COG1589	Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic. May control correct divisome assembly
PhaeoP54_00938	COG0849	cell division
PhaeoP54_00939	COG0206	Essential cell division protein that forms a contractile ring structure (Z ring) at the future cell division site. The regulation of the ring assembly controls the timing and the location of cell division. One of the functions of the FtsZ ring is to recruit other cell division proteins to the septum to produce a new cell wall between the dividing cells. Binds GTP and shows GTPase activity
PhaeoP54_00941	COG4105	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
PhaeoP54_00946	COG0006	proline dipeptidase activity
PhaeoP54_00954	COG0064	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
PhaeoP54_00955	COG2183	response to ionizing radiation
PhaeoP54_00958	COG0308	aminopeptidase N
PhaeoP54_00960	COG2225	Involved in the glycolate utilization. Catalyzes the condensation and subsequent hydrolysis of acetyl-coenzyme A (acetyl-CoA) and glyoxylate to form malate and CoA
PhaeoP54_00962	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
PhaeoP54_00963	COG2010	Cytochrome c
PhaeoP54_00963	COG1529	Aldehyde oxidase and xanthine dehydrogenase
PhaeoP54_00965	COG1309	transcriptional regulator
PhaeoP54_00966	COG3483	tryptophan 2,3-dioxygenase activity
PhaeoP54_00969	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_00974	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
PhaeoP54_00979	COG2391	methyltransferase activity
PhaeoP54_00980	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PhaeoP54_00981	COG0601	transmembrane transport
PhaeoP54_00983	COG4172	Belongs to the ABC transporter superfamily
PhaeoP54_00984	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
PhaeoP54_00985	COG1473	amidohydrolase
PhaeoP54_00986	COG1473	amidohydrolase
PhaeoP54_00987	COG1473	amidohydrolase
PhaeoP54_00989	COG1519	Transferase
PhaeoP54_00990	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
PhaeoP54_00994	COG1207	Catalyzes the last two sequential reactions in the de novo biosynthetic pathway for UDP-N-acetylglucosamine (UDP- GlcNAc). The C-terminal domain catalyzes the transfer of acetyl group from acetyl coenzyme A to glucosamine-1-phosphate (GlcN-1-P) to produce N-acetylglucosamine-1-phosphate (GlcNAc-1-P), which is converted into UDP-GlcNAc by the transfer of uridine 5- monophosphate (from uridine 5-triphosphate), a reaction catalyzed by the N-terminal domain
PhaeoP54_00995	COG0546	phosphoglycolate phosphatase activity
PhaeoP54_00998	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_00999	COG3047	cAMP biosynthetic process
PhaeoP54_01000	COG0365	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA
PhaeoP54_01002	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
PhaeoP54_01006	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
PhaeoP54_01008	COG0377	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
PhaeoP54_01009	COG0852	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
PhaeoP54_01010	COG0649	NAD binding
PhaeoP54_01018	COG1005	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient. This subunit may bind ubiquinone
PhaeoP54_01019	COG1143	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient
PhaeoP54_01022	COG0713	ATP synthesis coupled electron transport
PhaeoP54_01027	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
PhaeoP54_01030	COG0513	Belongs to the DEAD box helicase family
PhaeoP54_01033	COG4108	Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF- 1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP
PhaeoP54_01036	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_01037	COG4335	DNA alkylation repair
PhaeoP54_01039	COG3842	ATPase activity
PhaeoP54_01042	COG1826	Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes
PhaeoP54_01043	COG1826	Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes
PhaeoP54_01044	COG0805	protein transport
PhaeoP54_01045	COG0698	ribose 5-phosphate isomerase
PhaeoP54_01048	COG2518	Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and or degradation of damaged proteins
PhaeoP54_01049	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
PhaeoP54_01050	COG4221	oxidoreductase activity
PhaeoP54_01054	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
PhaeoP54_01060	COG1127	ABC transporter
PhaeoP54_01061	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
PhaeoP54_01062	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
PhaeoP54_01063	COG0305	Participates in initiation and elongation during chromosome replication
PhaeoP54_01064	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
PhaeoP54_01065	COG0418	dihydroorotase activity
PhaeoP54_01071	COG1162	GTPase activity
PhaeoP54_01078	COG0542	response to heat
PhaeoP54_01079	COG1734	Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters
PhaeoP54_01080	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
PhaeoP54_01082	COG1278	Cold shock
PhaeoP54_01087	COG0316	Belongs to the HesB IscA family
PhaeoP54_01088	COG0232	Belongs to the dGTPase family. Type 2 subfamily
PhaeoP54_01090	COG0018	arginyl-trna synthetase
PhaeoP54_01093	COG1354	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpB that pull DNA away from mid-cell into both cell halves
PhaeoP54_01094	COG1386	Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpA that pull DNA away from mid-cell into both cell halves
PhaeoP54_01099	COG0776	regulation of translation
PhaeoP54_01100	COG0332	Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. Catalyzes the first condensation reaction which initiates fatty acid synthesis and may therefore play a role in governing the total rate of fatty acid production. Possesses both acetoacetyl-ACP synthase and acetyl transacylase activities. Its substrate specificity determines the biosynthesis of branched- chain and or straight-chain of fatty acids
PhaeoP54_01101	COG0416	fatty acid biosynthetic process
PhaeoP54_01102	COG0333	Belongs to the bacterial ribosomal protein bL32 family
PhaeoP54_01111	COG0162	Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction tyrosine is first activated by ATP to form Tyr- AMP and then transferred to the acceptor end of tRNA(Tyr)
PhaeoP54_01112	COG2377	Catalyzes the specific phosphorylation of 1,6-anhydro-N- acetylmuramic acid (anhMurNAc) with the simultaneous cleavage of the 1,6-anhydro ring, generating MurNAc-6-P. Is required for the utilization of anhMurNAc either imported from the medium or derived from its own cell wall murein, and thus plays a role in cell wall recycling
PhaeoP54_01114	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
PhaeoP54_01117	COG0513	Belongs to the DEAD box helicase family
PhaeoP54_01119	COG0697	spore germination
PhaeoP54_01120	COG0148	phosphopyruvate hydratase activity
PhaeoP54_01126	COG2320	Catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A
PhaeoP54_01126	COG0456	acetyltransferase
PhaeoP54_01127	COG1957	nucleoside hydrolase
PhaeoP54_01128	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
PhaeoP54_01129	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
PhaeoP54_01130	COG0174	glutamine synthetase
PhaeoP54_01131	COG0519	Catalyzes the synthesis of GMP from XMP
PhaeoP54_01131	COG0518	GMP synthase (glutamine-hydrolyzing) activity
PhaeoP54_01132	COG0174	glutamine synthetase
PhaeoP54_01133	COG4160	amino acid transport
PhaeoP54_01134	COG4215	(ABC) transporter
PhaeoP54_01141	COG0525	valine-tRNA ligase activity
PhaeoP54_01147	COG0305	Participates in initiation and elongation during chromosome replication
PhaeoP54_01149	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
PhaeoP54_01150	COG0583	DNA-binding transcription factor activity
PhaeoP54_01151	COG0483	inositol monophosphate 1-phosphatase activity
PhaeoP54_01155	COG1522	sequence-specific DNA binding
PhaeoP54_01168	COG0112	Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF- independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism
PhaeoP54_01169	COG0061	Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP
PhaeoP54_01170	COG0154	amidase activity
PhaeoP54_01172	COG0280	phosphate acetyltransferase
PhaeoP54_01172	COG0281	malic enzyme
PhaeoP54_01174	COG0295	cytidine deaminase activity
PhaeoP54_01175	COG0213	The enzymes which catalyze the reversible phosphorolysis of pyrimidine nucleosides are involved in the degradation of these compounds and in their utilization as carbon and energy sources, or in the rescue of pyrimidine bases for nucleotide synthesis
PhaeoP54_01176	COG1015	Phosphotransfer between the C1 and C5 carbon atoms of pentose
PhaeoP54_01177	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
PhaeoP54_01180	COG0318	PFAM AMP-dependent synthetase and ligase
PhaeoP54_01183	COG1250	3-hydroxyacyl-CoA dehydrogenase
PhaeoP54_01183	COG1024	Enoyl-CoA hydratase
PhaeoP54_01184	COG0183	Belongs to the thiolase family
PhaeoP54_01185	COG0625	glutathione transferase activity
PhaeoP54_01186	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_01188	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_01189	COG0789	Transcriptional regulator
PhaeoP54_01193	COG0534	Mate efflux family protein
PhaeoP54_01197	COG0737	Belongs to the 5'-nucleotidase family
PhaeoP54_01200	COG2603	Catalyzes the transfer of selenium from selenophosphate for conversion of 2-thiouridine to 2-selenouridine at the wobble position in tRNA
PhaeoP54_01201	COG0709	Synthesizes selenophosphate from selenide and ATP
PhaeoP54_01202	COG1320	monovalent cation:proton antiporter activity
PhaeoP54_01203	COG2212	antiporter activity
PhaeoP54_01205	COG0651	ATP synthesis coupled electron transport
PhaeoP54_01206	COG1006	Multisubunit Na H antiporter MnhC subunit
PhaeoP54_01207	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
PhaeoP54_01207	COG2111	Na H antiporter
PhaeoP54_01210	COG2943	transferase activity, transferring hexosyl groups
PhaeoP54_01211	COG3131	Involved in the biosynthesis of osmoregulated periplasmic glucans (OPGs)
PhaeoP54_01214	COG1804	L-carnitine dehydratase bile acid-inducible protein F
PhaeoP54_01217	COG2391	methyltransferase activity
PhaeoP54_01220	COG0785	Cytochrome C biogenesis protein
PhaeoP54_01225	COG3258	Cytochrome c
PhaeoP54_01226	COG0737	Belongs to the 5'-nucleotidase family
PhaeoP54_01232	COG0740	serine-type endopeptidase activity
PhaeoP54_01233	COG1219	ATP-dependent specificity component of the Clp protease. It directs the protease to specific substrates. Can perform chaperone functions in the absence of ClpP
PhaeoP54_01239	COG2360	Functions in the N-end rule pathway of protein degradation where it conjugates Leu, Phe and, less efficiently, Met from aminoacyl-tRNAs to the N-termini of proteins containing an N-terminal arginine or lysine
PhaeoP54_01240	COG0439	Biotin carboxylase
PhaeoP54_01243	COG0410	ABC transporter
PhaeoP54_01246	COG0559	Belongs to the binding-protein-dependent transport system permease family
PhaeoP54_01249	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_01255	COG2391	methyltransferase activity
PhaeoP54_01259	COG3750	Belongs to the UPF0335 family
PhaeoP54_01263	COG1309	transcriptional regulator
PhaeoP54_01266	COG1116	anion transmembrane transporter activity
PhaeoP54_01267	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
PhaeoP54_01268	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
PhaeoP54_01269	COG0715	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems periplasmic components
PhaeoP54_01273	COG0563	adenylate kinase activity
PhaeoP54_01274	COG0365	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA
PhaeoP54_01280	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_01281	COG2205	protein histidine kinase activity
PhaeoP54_01285	COG2205	protein histidine kinase activity
PhaeoP54_01286	COG0673	inositol 2-dehydrogenase activity
PhaeoP54_01287	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PhaeoP54_01289	COG4989	oxidoreductase activity
PhaeoP54_01293	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
PhaeoP54_01300	COG1175	transmembrane transport
PhaeoP54_01302	COG1609	Transcriptional regulator
PhaeoP54_01304	COG0583	DNA-binding transcription factor activity
PhaeoP54_01306	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
PhaeoP54_01307	COG0299	Catalyzes the transfer of a formyl group from 10- formyltetrahydrofolate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR) and tetrahydrofolate
PhaeoP54_01309	COG0349	Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides
PhaeoP54_01311	COG2166	iron-sulfur cluster assembly
PhaeoP54_01315	COG5012	cobalamin binding
PhaeoP54_01317	COG1410	methionine synthase
PhaeoP54_01317	COG0646	methionine synthase
PhaeoP54_01320	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
PhaeoP54_01321	COG1828	Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL
PhaeoP54_01322	COG0047	phosphoribosylformylglycinamidine synthase activity
PhaeoP54_01324	COG2204	response regulator
PhaeoP54_01325	COG1530	ribonuclease E activity
PhaeoP54_01327	COG0425	Belongs to the sulfur carrier protein TusA family
PhaeoP54_01328	COG0785	Cytochrome C biogenesis protein
PhaeoP54_01330	COG2124	cytochrome p450
PhaeoP54_01333	COG0114	fumarate hydratase activity
PhaeoP54_01336	COG2059	Chromate
PhaeoP54_01340	COG1136	(ABC) transporter
PhaeoP54_01340	COG0577	efflux transmembrane transporter activity
PhaeoP54_01353	COG0318	PFAM AMP-dependent synthetase and ligase
PhaeoP54_01355	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
PhaeoP54_01357	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
PhaeoP54_01358	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
PhaeoP54_01360	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_01361	COG2091	lysine biosynthetic process via aminoadipic acid
PhaeoP54_01363	COG2207	Transcriptional regulator
PhaeoP54_01363	COG1917	Cupin 2, conserved barrel domain protein
PhaeoP54_01366	COG2186	Transcriptional regulator
PhaeoP54_01367	COG0604	alcohol dehydrogenase
PhaeoP54_01368	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
PhaeoP54_01370	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
PhaeoP54_01371	COG0415	Belongs to the DNA photolyase family
PhaeoP54_01372	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
PhaeoP54_01374	COG0494	nUDIX hydrolase
PhaeoP54_01376	COG3096	Plays a central role in chromosome condensation, segregation and cell cycle progression. Functions as a homodimer, which is essential for chromosome partition. Involved in negative DNA supercoiling in vivo, and by this means organize and compact chromosomes. May achieve or facilitate chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division
PhaeoP54_01376	COG3264	Mechanosensitive ion channel
PhaeoP54_01377	COG0013	Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain
PhaeoP54_01380	COG2115	Belongs to the xylose isomerase family
PhaeoP54_01381	COG1070	Carbohydrate kinase
PhaeoP54_01385	COG4536	flavin adenine dinucleotide binding
PhaeoP54_01386	COG4974	Belongs to the 'phage' integrase family
PhaeoP54_01389	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
PhaeoP54_01390	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
PhaeoP54_01391	COG0840	transmembrane signaling receptor activity
PhaeoP54_01392	COG0629	single-stranded DNA binding
PhaeoP54_01393	COG0739	heme binding
PhaeoP54_01393	COG0741	lytic transglycosylase activity
PhaeoP54_01393	COG1196	nuclear chromosome segregation
PhaeoP54_01395	COG4172	Belongs to the ABC transporter superfamily
PhaeoP54_01397	COG0601	transmembrane transport
PhaeoP54_01400	COG0324	Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A)
PhaeoP54_01401	COG0528	UMP kinase activity
PhaeoP54_01402	COG0233	cytoplasmic translational termination
PhaeoP54_01403	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
PhaeoP54_01404	COG0575	Belongs to the CDS family
PhaeoP54_01405	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
PhaeoP54_01406	COG0750	zinc metalloprotease
PhaeoP54_01408	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
PhaeoP54_01410	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
PhaeoP54_01411	COG1043	involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
PhaeoP54_01412	COG3494	Protein of unknown function (DUF1009)
PhaeoP54_01413	COG0763	Condensation of UDP-2,3-diacylglucosamine and 2,3- diacylglucosamine-1-phosphate to form lipid A disaccharide, a precursor of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
PhaeoP54_01414	COG0482	sulfurtransferase activity
PhaeoP54_01417	COG0272	DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA
PhaeoP54_01421	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
PhaeoP54_01422	COG0008	Catalyzes the attachment of glutamate to tRNA(Glu) in a two-step reaction glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu)
PhaeoP54_01424	COG1206	Catalyzes the folate-dependent formation of 5-methyl- uridine at position 54 (M-5-U54) in all tRNAs
PhaeoP54_01425	COG0447	Converts o-succinylbenzoyl-CoA (OSB-CoA) to 1,4- dihydroxy-2-naphthoyl-CoA (DHNA-CoA)
PhaeoP54_01427	COG0688	phosphatidylethanolamine metabolic process
PhaeoP54_01428	COG0421	Catalyzes the irreversible transfer of a propylamine group from the amino donor S-adenosylmethioninamine (decarboxy- AdoMet) to putrescine (1,4-diaminobutane) to yield spermidine
PhaeoP54_01429	COG1586	Catalyzes the decarboxylation of S-adenosylmethionine to S-adenosylmethioninamine (dcAdoMet), the propylamine donor required for the synthesis of the polyamines spermine and spermidine from the diamine putrescine
PhaeoP54_01431	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PhaeoP54_01438	COG0102	This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly
PhaeoP54_01440	COG1309	transcriptional regulator
PhaeoP54_01441	COG2326	polyphosphate kinase activity
PhaeoP54_01443	COG1897	L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine
PhaeoP54_01448	COG0518	GMP synthase (glutamine-hydrolyzing) activity
PhaeoP54_01448	COG0519	Catalyzes the synthesis of GMP from XMP
PhaeoP54_01449	COG5598	trimethylamine methyltransferase
PhaeoP54_01453	COG0320	Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives
PhaeoP54_01454	COG1473	amidohydrolase
PhaeoP54_01458	COG2867	negative regulation of translational initiation
PhaeoP54_01459	COG0004	ammonium transporteR
PhaeoP54_01460	COG1546	Belongs to the CinA family
PhaeoP54_01460	COG1058	Belongs to the CinA family
PhaeoP54_01461	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
PhaeoP54_01462	COG0245	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
PhaeoP54_01462	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
PhaeoP54_01463	COG0042	Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines
PhaeoP54_01464	COG3852	Histidine kinase
PhaeoP54_01465	COG2204	response regulator
PhaeoP54_01466	COG5000	phosphorelay sensor kinase activity
PhaeoP54_01467	COG2204	response regulator
PhaeoP54_01469	COG0569	domain protein
PhaeoP54_01470	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
PhaeoP54_01471	COG1923	regulation of RNA biosynthetic process
PhaeoP54_01472	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
PhaeoP54_01473	COG2366	antibiotic biosynthetic process
PhaeoP54_01474	COG2084	Dehydrogenase
PhaeoP54_01478	COG1197	Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site
PhaeoP54_01479	COG2814	Major facilitator Superfamily
PhaeoP54_01487	COG4166	transmembrane transport
PhaeoP54_01488	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_01491	COG2313	pseudouridylate synthase activity
PhaeoP54_01497	COG1612	heme a metabolic process
PhaeoP54_01500	COG0188	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner
PhaeoP54_01501	COG5425	PFAM Usg family protein
PhaeoP54_01502	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
PhaeoP54_01507	COG1804	L-carnitine dehydratase bile acid-inducible protein F
PhaeoP54_01508	COG0517	IMP dehydrogenase activity
PhaeoP54_01508	COG0516	GMP reductase activity
PhaeoP54_01512	COG0468	Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage
PhaeoP54_01513	COG0013	Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain
PhaeoP54_01520	COG2945	thiolester hydrolase activity
PhaeoP54_01524	COG0719	Fe-S assembly protein
PhaeoP54_01526	COG0393	Putative heavy-metal-binding
PhaeoP54_01527	COG0396	ATPase activity
PhaeoP54_01528	COG0719	Fe-S assembly protein
PhaeoP54_01531	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
PhaeoP54_01535	COG3743	rRNA binding
PhaeoP54_01535	COG0261	This protein binds to 23S rRNA in the presence of protein L20
PhaeoP54_01536	COG0211	Belongs to the bacterial ribosomal protein bL27 family
PhaeoP54_01538	COG0536	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control
PhaeoP54_01539	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
PhaeoP54_01540	COG0014	Catalyzes the NADPH-dependent reduction of L-glutamate 5-phosphate into L-glutamate 5-semialdehyde and phosphate. The product spontaneously undergoes cyclization to form 1-pyrroline-5- carboxylate
PhaeoP54_01545	COG0052	Belongs to the universal ribosomal protein uS2 family
PhaeoP54_01546	COG0264	Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome
PhaeoP54_01547	COG2771	luxR family
PhaeoP54_01548	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
PhaeoP54_01553	COG1024	Enoyl-CoA hydratase
PhaeoP54_01554	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
PhaeoP54_01555	COG1946	Acyl-CoA thioesterase
PhaeoP54_01556	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_01558	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_01559	COG0583	DNA-binding transcription factor activity
PhaeoP54_01560	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_01561	COG0704	Plays a role in the regulation of phosphate uptake
PhaeoP54_01562	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
PhaeoP54_01564	COG0573	inorganic phosphate transmembrane transporter activity
PhaeoP54_01566	COG5002	protein histidine kinase activity
PhaeoP54_01567	COG0626	cystathionine gamma-synthase activity
PhaeoP54_01569	COG0194	GDP metabolic process
PhaeoP54_01570	COG1561	YicC-like family, N-terminal region
PhaeoP54_01572	COG3200	phospho-2-dehydro-3-deoxyheptonate aldolase
PhaeoP54_01574	COG2133	pyrroloquinoline quinone binding
PhaeoP54_01580	COG0433	COG0433 Predicted ATPase
PhaeoP54_01583	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
PhaeoP54_01584	COG1044	Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
PhaeoP54_01585	COG2989	Protein conserved in bacteria
PhaeoP54_01586	COG3108	Peptidase M15
PhaeoP54_01589	COG0685	methylenetetrahydrofolate reductase (NAD(P)H) activity
PhaeoP54_01591	COG0248	Ppx GppA phosphatase
PhaeoP54_01592	COG0293	Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit
PhaeoP54_01598	COG1136	(ABC) transporter
PhaeoP54_01601	COG0589	response to stress
PhaeoP54_01604	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
PhaeoP54_01608	COG0182	Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)
PhaeoP54_01611	COG0747	negative chemotaxis
PhaeoP54_01612	COG0601	transmembrane transport
PhaeoP54_01613	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PhaeoP54_01614	COG0444	Belongs to the ABC transporter superfamily
PhaeoP54_01615	COG4608	Belongs to the ABC transporter superfamily
PhaeoP54_01616	COG2206	PFAM metal-dependent phosphohydrolase, HD sub domain
PhaeoP54_01618	COG1238	metal cluster binding
PhaeoP54_01628	COG2814	Major facilitator Superfamily
PhaeoP54_01630	COG0119	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)
PhaeoP54_01631	COG0215	cysteine-tRNA ligase activity
PhaeoP54_01637	COG0411	ABC transporter
PhaeoP54_01639	COG0559	Belongs to the binding-protein-dependent transport system permease family
PhaeoP54_01646	COG1522	sequence-specific DNA binding
PhaeoP54_01652	COG3842	ATPase activity
PhaeoP54_01653	COG0395	ABC-type sugar transport system, permease component
PhaeoP54_01658	COG0004	ammonium transporteR
PhaeoP54_01659	COG0738	Major facilitator superfamily
PhaeoP54_01660	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
PhaeoP54_01663	COG1278	Cold shock
PhaeoP54_01664	COG0259	pyridoxamine-phosphate oxidase activity
PhaeoP54_01665	COG0623	enoyl-[acyl-carrier-protein] reductase (NADH) activity
PhaeoP54_01667	COG2236	Acts on guanine, xanthine and to a lesser extent hypoxanthine
PhaeoP54_01670	COG0147	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia
PhaeoP54_01673	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
PhaeoP54_01674	COG0692	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
PhaeoP54_01675	COG0134	indole-3-glycerol-phosphate synthase activity
PhaeoP54_01676	COG0315	cyclic pyranopterin monophosphate synthase activity
PhaeoP54_01677	COG0303	'Molybdopterin
PhaeoP54_01678	COG1974	Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair
PhaeoP54_01679	COG2333	competence protein COMEC
PhaeoP54_01679	COG0658	competence protein
PhaeoP54_01680	COG0008	Catalyzes the attachment of glutamate to tRNA(Glu) in a two-step reaction glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu)
PhaeoP54_01681	COG0372	Belongs to the citrate synthase family
PhaeoP54_01683	COG1024	Enoyl-CoA hydratase
PhaeoP54_01684	COG3088	subunit of a heme lyase
PhaeoP54_01685	COG1138	Cytochrome C-type biogenesis protein
PhaeoP54_01688	COG2332	Heme chaperone required for the biogenesis of c-type cytochromes. Transiently binds heme delivered by CcmC and transfers the heme to apo-cytochromes in a process facilitated by CcmF and CcmH
PhaeoP54_01689	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
PhaeoP54_01690	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
PhaeoP54_01693	COG0583	DNA-binding transcription factor activity
PhaeoP54_01695	COG0046	Part of the phosphoribosylformylglycinamidine synthase complex involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate. The FGAM synthase complex is composed of three subunits. PurQ produces an ammonia molecule by converting glutamine to glutamate. PurL transfers the ammonia molecule to FGAR to form FGAM in an ATP-dependent manner. PurS interacts with PurQ and PurL and is thought to assist in the transfer of the ammonia molecule from PurQ to PurL
PhaeoP54_01696	COG1357	PFAM Pentapeptide repeats (8 copies)
PhaeoP54_01699	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
PhaeoP54_01704	COG0021	Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate
PhaeoP54_01708	COG0410	ABC transporter
PhaeoP54_01709	COG1137	ATPase activity
PhaeoP54_01715	COG1733	regulation of RNA biosynthetic process
PhaeoP54_01717	COG2353	YceI-like domain
PhaeoP54_01718	COG2354	Protein conserved in bacteria
PhaeoP54_01721	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
PhaeoP54_01722	COG0516	GMP reductase activity
PhaeoP54_01722	COG0517	IMP dehydrogenase activity
PhaeoP54_01725	COG3239	Fatty acid desaturase
PhaeoP54_01728	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_01731	COG0178	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate
PhaeoP54_01733	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
PhaeoP54_01736	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
PhaeoP54_01738	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
PhaeoP54_01739	COG2833	Protein of unknown function (DUF455)
PhaeoP54_01740	COG0739	heme binding
PhaeoP54_01745	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
PhaeoP54_01746	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
PhaeoP54_01747	COG0126	phosphoglycerate kinase activity
PhaeoP54_01748	COG2919	Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic
PhaeoP54_01749	COG1071	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor
PhaeoP54_01750	COG0022	dehydrogenase e1 component
PhaeoP54_01750	COG0508	dehydrogenase complex catalyzes the overall conversion of
PhaeoP54_01751	COG0508	dehydrogenase complex catalyzes the overall conversion of
PhaeoP54_01754	COG3457	Alanine racemase
PhaeoP54_01760	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
PhaeoP54_01779	COG4695	Portal protein
PhaeoP54_01782	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
PhaeoP54_01783	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
PhaeoP54_01785	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
PhaeoP54_01786	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
PhaeoP54_01789	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
PhaeoP54_01792	COG2353	YceI-like domain
PhaeoP54_01795	COG0360	Binds together with S18 to 16S ribosomal RNA
PhaeoP54_01796	COG0238	Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit
PhaeoP54_01797	COG0359	binds to the 23S rRNA
PhaeoP54_01800	COG0737	Belongs to the 5'-nucleotidase family
PhaeoP54_01802	COG0544	peptidyl-prolyl cis-trans isomerase activity
PhaeoP54_01804	COG0840	transmembrane signaling receptor activity
PhaeoP54_01806	COG0062	Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration
PhaeoP54_01811	COG0006	proline dipeptidase activity
PhaeoP54_01814	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
PhaeoP54_01821	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
PhaeoP54_01823	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
PhaeoP54_01824	COG2386	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
PhaeoP54_01825	COG4133	protoheme IX ABC transporter activity
PhaeoP54_01826	COG3737	Protein of unknown function (DUF498/DUF598)
PhaeoP54_01827	COG0341	Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA
PhaeoP54_01828	COG0342	Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA
PhaeoP54_01831	COG0172	Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec)
PhaeoP54_01833	COG3239	Fatty acid desaturase
PhaeoP54_01834	COG1160	GTP binding
PhaeoP54_01838	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
PhaeoP54_01840	COG5265	(ABC) transporter
PhaeoP54_01849	COG0404	The glycine cleavage system catalyzes the degradation of glycine
PhaeoP54_01849	COG0446	pyridine nucleotide-disulphide oxidoreductase
PhaeoP54_01851	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
PhaeoP54_01852	COG4235	cytochrome complex assembly
PhaeoP54_01853	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
PhaeoP54_01857	COG0730	response to heat
PhaeoP54_01858	COG0042	Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines
PhaeoP54_01864	COG2197	response regulator
PhaeoP54_01866	COG1294	oxidase, subunit
PhaeoP54_01867	COG1271	oxidase subunit
PhaeoP54_01875	COG0105	UTP biosynthetic process
PhaeoP54_01876	COG0488	(ABC) transporter
PhaeoP54_01877	COG2095	MarC family integral membrane protein
PhaeoP54_01880	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
PhaeoP54_01884	COG0760	Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation
PhaeoP54_01885	COG1995	Catalyzes the NAD(P)-dependent oxidation of 4- (phosphohydroxy)-L-threonine (HTP) into 2-amino-3-oxo-4- (phosphohydroxy)butyric acid which spontaneously decarboxylates to form 3-amino-2-oxopropyl phosphate (AHAP)
PhaeoP54_01886	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
PhaeoP54_01889	COG2890	protein-(glutamine-N5) methyltransferase activity
PhaeoP54_01890	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
PhaeoP54_01894	COG0010	Belongs to the arginase family
PhaeoP54_01895	COG1473	amidohydrolase
PhaeoP54_01896	COG3956	TIGRFAM MazG family protein
PhaeoP54_01898	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
PhaeoP54_01900	COG1092	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA
PhaeoP54_01902	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
PhaeoP54_01903	COG0523	cobalamin synthesis protein
PhaeoP54_01906	COG0583	DNA-binding transcription factor activity
PhaeoP54_01907	COG3842	ATPase activity
PhaeoP54_01909	COG1176	ABC-type spermidine putrescine transport system, permease component I
PhaeoP54_01910	COG1177	transmembrane transport
PhaeoP54_01911	COG0277	FAD linked oxidase domain protein
PhaeoP54_01912	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
PhaeoP54_01914	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
PhaeoP54_01925	COG2935	proteasome-mediated ubiquitin-dependent protein catabolic process
PhaeoP54_01926	COG0346	lactoylglutathione lyase activity
PhaeoP54_01927	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
PhaeoP54_01932	COG0028	Belongs to the TPP enzyme family
PhaeoP54_01933	COG0440	acetolactate synthase activity
PhaeoP54_01938	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
PhaeoP54_01939	COG5009	serine-type D-Ala-D-Ala carboxypeptidase activity
PhaeoP54_01940	COG0860	N-Acetylmuramoyl-L-alanine amidase
PhaeoP54_01945	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
PhaeoP54_01947	COG0156	8-amino-7-oxononanoate synthase activity
PhaeoP54_01954	COG0406	alpha-ribazole phosphatase activity
PhaeoP54_01956	COG1522	sequence-specific DNA binding
PhaeoP54_01962	COG0466	ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner
PhaeoP54_01966	COG0343	queuine tRNA-ribosyltransferase activity
PhaeoP54_01970	COG0523	cobalamin synthesis protein
PhaeoP54_01971	COG2151	metal-sulfur cluster biosynthetic enzyme
PhaeoP54_01973	COG0316	Belongs to the HesB IscA family
PhaeoP54_01974	COG0149	triose-phosphate isomerase activity
PhaeoP54_01975	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
PhaeoP54_01976	COG3090	Trap-type c4-dicarboxylate transport system, small permease component
PhaeoP54_01977	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
PhaeoP54_01978	COG2204	response regulator
PhaeoP54_01982	COG1522	sequence-specific DNA binding
PhaeoP54_01983	COG0007	Multifunctional enzyme that catalyzes the SAM-dependent methylations of uroporphyrinogen III at position C-2 and C-7 to form precorrin-2 via precorrin-1. Then it catalyzes the NAD- dependent ring dehydrogenation of precorrin-2 to yield sirohydrochlorin. Finally, it catalyzes the ferrochelation of sirohydrochlorin to yield siroheme
PhaeoP54_01983	COG1648	precorrin-2 dehydrogenase activity
PhaeoP54_01985	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
PhaeoP54_01986	COG0175	sulfate reduction
PhaeoP54_01991	COG3443	Belongs to the bacterial solute-binding protein 9 family
PhaeoP54_01993	COG0290	IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins
PhaeoP54_01994	COG0840	transmembrane signaling receptor activity
PhaeoP54_01999	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
PhaeoP54_02002	COG3243	poly(R)-hydroxyalkanoic acid synthase
PhaeoP54_02009	COG0441	Catalyzes the attachment of threonine to tRNA(Thr) in a two-step reaction L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr)
PhaeoP54_02011	COG3220	belongs to the UPF0276 family
PhaeoP54_02015	COG1393	Belongs to the ArsC family
PhaeoP54_02016	COG1278	Cold shock
PhaeoP54_02017	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_02018	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
PhaeoP54_02020	COG2267	carboxylic ester hydrolase activity
PhaeoP54_02022	COG1802	Transcriptional regulator
PhaeoP54_02028	COG0207	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor and reductant in the reaction, yielding dihydrofolate (DHF) as a by-product. This enzymatic reaction provides an intracellular de novo source of dTMP, an essential precursor for DNA biosynthesis
PhaeoP54_02031	COG0346	lactoylglutathione lyase activity
PhaeoP54_02032	COG1846	Transcriptional regulator
PhaeoP54_02041	COG0583	DNA-binding transcription factor activity
PhaeoP54_02043	COG0534	Mate efflux family protein
PhaeoP54_02047	COG0187	DNA topoisomerase II activity
PhaeoP54_02051	COG0243	molybdopterin cofactor binding
PhaeoP54_02053	COG1136	(ABC) transporter
PhaeoP54_02055	COG0442	prolyl-tRNA aminoacylation
PhaeoP54_02056	COG0628	permease
PhaeoP54_02058	COG0248	Ppx GppA phosphatase
PhaeoP54_02061	COG1076	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA
PhaeoP54_02068	COG0439	Biotin carboxylase
PhaeoP54_02073	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
PhaeoP54_02074	COG2931	calcium- and calmodulin-responsive adenylate cyclase activity
PhaeoP54_02076	COG1396	sequence-specific DNA binding
PhaeoP54_02076	COG3800	Transcriptional regulator
PhaeoP54_02081	COG3119	arylsulfatase activity
PhaeoP54_02083	COG1309	transcriptional regulator
PhaeoP54_02085	COG0697	spore germination
PhaeoP54_02089	COG0456	acetyltransferase
PhaeoP54_02090	COG0217	transcriptional regulatory protein
PhaeoP54_02091	COG0471	metal ion transport
PhaeoP54_02091	COG3273	potassium ion transport
PhaeoP54_02093	COG0471	metal ion transport
PhaeoP54_02093	COG3273	potassium ion transport
PhaeoP54_02094	COG1692	metallophosphoesterase
PhaeoP54_02095	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
PhaeoP54_02096	COG2239	Acts as a magnesium transporter
PhaeoP54_02097	COG0402	S-adenosylhomocysteine deaminase activity
PhaeoP54_02099	COG0483	inositol monophosphate 1-phosphatase activity
PhaeoP54_02100	COG1396	sequence-specific DNA binding
PhaeoP54_02102	COG0583	DNA-binding transcription factor activity
PhaeoP54_02105	COG0670	Belongs to the BI1 family
PhaeoP54_02107	COG0267	Belongs to the bacterial ribosomal protein bL33 family
PhaeoP54_02111	COG0154	amidase activity
PhaeoP54_02112	COG0721	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)
PhaeoP54_02113	COG2220	Zn-dependent hydrolases of the beta-lactamase fold
PhaeoP54_02114	COG2818	Glycosylase
PhaeoP54_02115	COG0590	tRNA wobble adenosine to inosine editing
PhaeoP54_02116	COG1187	pseudouridine synthase activity
PhaeoP54_02118	COG3853	Toxic anion resistance protein (TelA)
PhaeoP54_02124	COG1490	D-aminoacyl-tRNA deacylase activity
PhaeoP54_02126	COG0601	transmembrane transport
PhaeoP54_02127	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PhaeoP54_02132	COG0318	PFAM AMP-dependent synthetase and ligase
PhaeoP54_02133	COG1132	(ABC) transporter
PhaeoP54_02139	COG0784	Response regulator, receiver
PhaeoP54_02140	COG3920	Histidine kinase
PhaeoP54_02178	COG0592	DNA-directed DNA polymerase activity
PhaeoP54_02187	COG5002	protein histidine kinase activity
PhaeoP54_02187	COG0784	Response regulator, receiver
PhaeoP54_02187	COG2198	Histidine kinase
PhaeoP54_02191	COG1349	DNA-binding transcription factor activity
PhaeoP54_02192	COG2113	Glycine betaine
PhaeoP54_02193	COG3448	diguanylate cyclase activity
PhaeoP54_02193	COG4175	Glycine betaine
PhaeoP54_02200	COG0174	glutamine synthetase
PhaeoP54_02208	COG1349	DNA-binding transcription factor activity
PhaeoP54_02214	COG1024	Enoyl-CoA hydratase
PhaeoP54_02216	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_02218	COG1080	General (non sugar-specific) component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (sugar PTS). This major carbohydrate active-transport system catalyzes the phosphorylation of incoming sugar substrates concomitantly with their translocation across the cell membrane. Enzyme I transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr)
PhaeoP54_02219	COG0527	aspartate kinase activity
PhaeoP54_02220	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
PhaeoP54_02222	COG1469	GTP cyclohydrolase I activity
PhaeoP54_02225	COG2917	probably involved in intracellular septation
PhaeoP54_02227	COG0552	protein localization to endoplasmic reticulum
PhaeoP54_02230	COG1570	exodeoxyribonuclease VII activity
PhaeoP54_02232	COG3781	membrane
PhaeoP54_02240	COG0330	HflC and HflK could
PhaeoP54_02244	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
PhaeoP54_02246	COG0625	glutathione transferase activity
PhaeoP54_02247	COG1760	l-serine dehydratase
PhaeoP54_02252	COG0104	Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP
PhaeoP54_02255	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_02266	COG0583	DNA-binding transcription factor activity
PhaeoP54_02273	COG0504	CTP synthase activity
PhaeoP54_02274	COG3588	fructose-bisphosphate aldolase
PhaeoP54_02275	COG1024	Enoyl-CoA hydratase
PhaeoP54_02276	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
PhaeoP54_02277	COG0075	2-aminoethylphosphonate-pyruvate transaminase activity
PhaeoP54_02278	COG1132	(ABC) transporter
PhaeoP54_02279	COG0404	The glycine cleavage system catalyzes the degradation of glycine
PhaeoP54_02281	COG0231	Involved in peptide bond synthesis. Stimulates efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase
PhaeoP54_02283	COG1492	cobalamin metabolic process
PhaeoP54_02286	COG2518	Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and or degradation of damaged proteins
PhaeoP54_02287	COG2824	Alkylphosphonate utilization operon protein PhnA
PhaeoP54_02288	COG1734	Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters
PhaeoP54_02289	COG5510	response to toxic substance
PhaeoP54_02292	COG0481	GTPase activity
PhaeoP54_02296	COG0583	DNA-binding transcription factor activity
PhaeoP54_02297	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
PhaeoP54_02300	COG0227	Belongs to the bacterial ribosomal protein bL28 family
PhaeoP54_02301	COG1703	isobutyryl-CoA mutase activity
PhaeoP54_02302	COG1643	Atp-dependent helicase
PhaeoP54_02304	COG0306	phosphate transporter
PhaeoP54_02305	COG0078	Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline
PhaeoP54_02306	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
PhaeoP54_02308	COG0842	Transport permease protein
PhaeoP54_02311	COG0625	glutathione transferase activity
PhaeoP54_02316	COG2877	3-deoxy-8-phosphooctulonate synthase activity
PhaeoP54_02319	COG0621	Catalyzes the methylthiolation of N6- (dimethylallyl)adenosine (i(6)A), leading to the formation of 2- methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine
PhaeoP54_02320	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
PhaeoP54_02325	COG1739	Uncharacterized protein family UPF0029
PhaeoP54_02328	COG1872	DUF167
PhaeoP54_02329	COG0778	Nitroreductase
PhaeoP54_02338	COG0173	Aspartyl-tRNA synthetase with relaxed tRNA specificity since it is able to aspartylate not only its cognate tRNA(Asp) but also tRNA(Asn). Reaction proceeds in two steps L-aspartate is first activated by ATP to form Asp-AMP and then transferred to the acceptor end of tRNA(Asp Asn)
PhaeoP54_02340	COG0147	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia
PhaeoP54_02340	COG0512	Glutamine amidotransferase of anthranilate synthase
PhaeoP54_02341	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
PhaeoP54_02343	COG0112	Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF- independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism
PhaeoP54_02344	COG3591	Belongs to the peptidase S1B family
PhaeoP54_02347	COG1846	Transcriptional regulator
PhaeoP54_02349	COG0431	NADPH-dependent FMN reductase
PhaeoP54_02351	COG1435	thymidine kinase activity
PhaeoP54_02353	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
PhaeoP54_02357	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
PhaeoP54_02362	COG1522	sequence-specific DNA binding
PhaeoP54_02363	COG0492	ferredoxin-NADP+ reductase activity
PhaeoP54_02365	COG2046	Belongs to the sulfate adenylyltransferase family
PhaeoP54_02365	COG0529	Catalyzes the synthesis of activated sulfate
PhaeoP54_02367	COG0384	phenazine biosynthesis protein PhzF
PhaeoP54_02369	COG0071	Belongs to the small heat shock protein (HSP20) family
PhaeoP54_02371	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
PhaeoP54_02372	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
PhaeoP54_02373	COG3454	Phosphonate metabolism
PhaeoP54_02377	COG0459	protein refolding
PhaeoP54_02378	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
PhaeoP54_02380	COG1227	inorganic diphosphatase activity
PhaeoP54_02383	COG2030	dehydratase
PhaeoP54_02384	COG0196	riboflavin kinase activity
PhaeoP54_02385	COG2983	Belongs to the UPF0260 family
PhaeoP54_02389	COG0596	Alpha beta hydrolase
PhaeoP54_02393	COG0355	proton-transporting ATP synthase activity, rotational mechanism
PhaeoP54_02394	COG0055	Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits
PhaeoP54_02395	COG0224	Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is believed to be important in regulating ATPase activity and the flow of protons through the CF(0) complex
PhaeoP54_02396	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
PhaeoP54_02397	COG0712	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
PhaeoP54_02399	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
PhaeoP54_02405	COG3703	Catalyzes the cleavage of glutathione into 5-oxo-L- proline and a Cys-Gly dipeptide. Acts specifically on glutathione, but not on other gamma-glutamyl peptides
PhaeoP54_02408	COG0287	Prephenate dehydrogenase
PhaeoP54_02409	COG0079	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily
PhaeoP54_02410	COG1522	sequence-specific DNA binding
PhaeoP54_02412	COG0522	One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit
PhaeoP54_02416	COG2116	formate transmembrane transporter activity
PhaeoP54_02419	COG0843	Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1- 3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B
PhaeoP54_02421	COG1959	2 iron, 2 sulfur cluster binding
PhaeoP54_02431	COG1846	Transcriptional regulator
PhaeoP54_02433	COG0753	catalase activity
PhaeoP54_02434	COG1846	Transcriptional regulator
PhaeoP54_02435	COG3048	D-serine ammonia-lyase activity
PhaeoP54_02441	COG0747	negative chemotaxis
PhaeoP54_02443	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PhaeoP54_02444	COG4172	Belongs to the ABC transporter superfamily
PhaeoP54_02446	COG1126	abc transporter atp-binding protein
PhaeoP54_02447	COG0765	amino acid transport
PhaeoP54_02448	COG4597	amino acid ABC transporter
PhaeoP54_02449	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
PhaeoP54_02450	COG0583	DNA-binding transcription factor activity
PhaeoP54_02452	COG2963	transposase activity
PhaeoP54_02453	COG0318	PFAM AMP-dependent synthetase and ligase
PhaeoP54_02454	COG0633	Ferredoxin
PhaeoP54_02454	COG0543	2 iron, 2 sulfur cluster binding
PhaeoP54_02456	COG1902	pentaerythritol trinitrate reductase activity
PhaeoP54_02456	COG0446	pyridine nucleotide-disulphide oxidoreductase
PhaeoP54_02457	COG0385	Bile acid
PhaeoP54_02460	COG3713	MltA-interacting MipA family protein
PhaeoP54_02466	COG0179	Fumarylacetoacetate (FAA) hydrolase
PhaeoP54_02473	COG1902	pentaerythritol trinitrate reductase activity
PhaeoP54_02473	COG0446	pyridine nucleotide-disulphide oxidoreductase
PhaeoP54_02476	COG3383	formate dehydrogenase (NAD+) activity
PhaeoP54_02477	COG1894	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain
PhaeoP54_02478	COG0583	DNA-binding transcription factor activity
PhaeoP54_02480	COG0840	transmembrane signaling receptor activity
PhaeoP54_02486	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
PhaeoP54_02487	COG4779	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
PhaeoP54_02488	COG1120	ATPase activity
PhaeoP54_02490	COG0811	peptide transport
PhaeoP54_02495	COG4774	siderophore transport
PhaeoP54_02496	COG1018	Is involved in NO detoxification in an aerobic process, termed nitric oxide dioxygenase (NOD) reaction that utilizes O(2) and NAD(P)H to convert NO to nitrate, which protects the bacterium from various noxious nitrogen compounds. Therefore, plays a central role in the inducible response to nitrosative stress
PhaeoP54_02497	COG1846	Transcriptional regulator
PhaeoP54_02511	COG0556	nucleotide-excision repair
PhaeoP54_02520	COG1384	Belongs to the class-I aminoacyl-tRNA synthetase family
PhaeoP54_02525	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
PhaeoP54_02534	COG1376	ErfK ybiS ycfS ynhG family protein
PhaeoP54_02535	COG1278	Cold shock
PhaeoP54_02537	COG4181	ATPase activity
PhaeoP54_02539	COG1959	2 iron, 2 sulfur cluster binding
PhaeoP54_02541	COG4325	translation initiation factor activity
PhaeoP54_02542	COG0008	Catalyzes the attachment of glutamate to tRNA(Glu) in a two-step reaction glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu)
PhaeoP54_02543	COG3706	GGDEF domain
PhaeoP54_02546	COG0119	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)
PhaeoP54_02547	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
PhaeoP54_02548	COG2957	Belongs to the agmatine deiminase family
PhaeoP54_02552	COG0768	penicillin binding
PhaeoP54_02553	COG0772	Belongs to the SEDS family
PhaeoP54_02554	COG0583	DNA-binding transcription factor activity
PhaeoP54_02556	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
PhaeoP54_02558	COG0339	signal peptide processing
PhaeoP54_02559	COG0765	amino acid transport
PhaeoP54_02560	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
PhaeoP54_02561	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
PhaeoP54_02562	COG0756	dUTP diphosphatase activity
PhaeoP54_02563	COG0452	Catalyzes two steps in the biosynthesis of coenzyme A. In the first step cysteine is conjugated to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, in the latter compound is decarboxylated to form 4'-phosphopantotheine
PhaeoP54_02565	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
PhaeoP54_02567	COG0406	alpha-ribazole phosphatase activity
PhaeoP54_02567	COG0328	RNA-DNA hybrid ribonuclease activity
PhaeoP54_02569	COG0606	chelatase, subunit chli
PhaeoP54_02571	COG0792	nuclease activity
PhaeoP54_02572	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
PhaeoP54_02574	COG2844	Modifies, by uridylylation and deuridylylation, the PII regulatory proteins (GlnB and homologs), in response to the nitrogen status of the cell that GlnD senses through the glutamine level. Under low glutamine levels, catalyzes the conversion of the PII proteins and UTP to PII-UMP and PPi, while under higher glutamine levels, GlnD hydrolyzes PII-UMP to PII and UMP (deuridylylation). Thus, controls uridylylation state and activity of the PII proteins, and plays an important role in the regulation of nitrogen
PhaeoP54_02577	COG0180	Tryptophanyl-tRNA synthetase
PhaeoP54_02578	COG1278	Cold shock
PhaeoP54_02579	COG1309	transcriptional regulator
PhaeoP54_02581	COG2050	protein possibly involved in aromatic compounds catabolism
PhaeoP54_02582	COG1024	Enoyl-CoA hydratase
PhaeoP54_02583	COG2030	dehydratase
PhaeoP54_02583	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_02584	COG3327	negative regulation of DNA-templated transcription, initiation
PhaeoP54_02587	COG1120	ATPase activity
PhaeoP54_02589	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
PhaeoP54_02590	COG0251	oxidation-reduction process
PhaeoP54_02595	COG0402	S-adenosylhomocysteine deaminase activity
PhaeoP54_02602	COG3237	CsbD-like
PhaeoP54_02607	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
PhaeoP54_02611	COG0784	Response regulator, receiver
PhaeoP54_02620	COG0174	glutamine synthetase
PhaeoP54_02624	COG2175	clavaminate synthase activity
PhaeoP54_02625	COG0583	DNA-binding transcription factor activity
PhaeoP54_02627	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_02628	COG5002	protein histidine kinase activity
PhaeoP54_02632	COG2197	response regulator
PhaeoP54_02635	COG3842	ATPase activity
PhaeoP54_02638	COG3833	ABC-type maltose transport systems, permease component
PhaeoP54_02642	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_02643	COG1609	Transcriptional regulator
PhaeoP54_02646	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
PhaeoP54_02649	COG0840	transmembrane signaling receptor activity
PhaeoP54_02652	COG3806	Anti-sigma factor
PhaeoP54_02653	COG1595	DNA-templated transcription, initiation
PhaeoP54_02656	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
PhaeoP54_02661	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_02662	COG3852	Histidine kinase
PhaeoP54_02663	COG2204	response regulator
PhaeoP54_02667	COG0437	4 iron, 4 sulfur cluster binding
PhaeoP54_02668	COG0243	molybdopterin cofactor binding
PhaeoP54_02668	COG3383	formate dehydrogenase (NAD+) activity
PhaeoP54_02675	COG0489	protein tyrosine kinase activity
PhaeoP54_02679	COG3842	ATPase activity
PhaeoP54_02681	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
PhaeoP54_02682	COG0029	Catalyzes the oxidation of L-aspartate to iminoaspartate
PhaeoP54_02687	COG0463	Glycosyl transferase, family 2
PhaeoP54_02689	COG1804	L-carnitine dehydratase bile acid-inducible protein F
PhaeoP54_02690	COG1820	Belongs to the metallo-dependent hydrolases superfamily. NagA family
PhaeoP54_02691	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
PhaeoP54_02694	COG2103	Specifically catalyzes the cleavage of the D-lactyl ether substituent of MurNAc 6-phosphate, producing GlcNAc 6- phosphate and D-lactate
PhaeoP54_02697	COG0395	ABC-type sugar transport system, permease component
PhaeoP54_02698	COG0673	inositol 2-dehydrogenase activity
PhaeoP54_02700	COG0166	Belongs to the GPI family
PhaeoP54_02701	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
PhaeoP54_02702	COG0129	dihydroxy-acid dehydratase activity
PhaeoP54_02703	COG0800	Aldolase
PhaeoP54_02706	COG1072	(Pantothenic acid kinase))
PhaeoP54_02713	COG0587	DNA-directed DNA polymerase activity
PhaeoP54_02715	COG1529	Aldehyde oxidase and xanthine dehydrogenase
PhaeoP54_02722	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
PhaeoP54_02728	COG0277	FAD linked oxidase domain protein
PhaeoP54_02729	COG0405	Gamma-glutamyltransferase
PhaeoP54_02737	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
PhaeoP54_02739	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
PhaeoP54_02745	COG0444	Belongs to the ABC transporter superfamily
PhaeoP54_02747	COG0601	transmembrane transport
PhaeoP54_02751	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_02752	COG4191	Histidine kinase
PhaeoP54_02752	COG0784	Response regulator, receiver
PhaeoP54_02753	COG1309	transcriptional regulator
PhaeoP54_02755	COG1942	4-Oxalocrotonate Tautomerase
PhaeoP54_02757	COG0625	glutathione transferase activity
PhaeoP54_02758	COG0583	DNA-binding transcription factor activity
PhaeoP54_02766	COG4251	negative regulation of phosphorylation
PhaeoP54_02768	COG1540	5-oxoprolinase (ATP-hydrolyzing) activity
PhaeoP54_02769	COG1984	allophanate hydrolase subunit 2
PhaeoP54_02771	COG0121	glutamine amidotransferase
PhaeoP54_02773	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
PhaeoP54_02775	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
PhaeoP54_02779	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PhaeoP54_02780	COG0028	Belongs to the TPP enzyme family
PhaeoP54_02782	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
PhaeoP54_02784	COG0372	Belongs to the citrate synthase family
PhaeoP54_02785	COG0243	molybdopterin cofactor binding
PhaeoP54_02786	COG0437	4 iron, 4 sulfur cluster binding
PhaeoP54_02787	COG3302	dmso reductase anchor subunit
PhaeoP54_02788	COG2128	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity
PhaeoP54_02790	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
PhaeoP54_02791	COG0741	lytic transglycosylase activity
PhaeoP54_02801	COG0177	DNA repair enzyme that has both DNA N-glycosylase activity and AP-lyase activity. The DNA N-glycosylase activity releases various damaged pyrimidines from DNA by cleaving the N- glycosidic bond, leaving an AP (apurinic apyrimidinic) site. The AP-lyase activity cleaves the phosphodiester bond 3' to the AP site by a beta-elimination, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate
PhaeoP54_02802	COG0524	Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5- phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway
PhaeoP54_02803	COG1846	Transcriptional regulator
PhaeoP54_02804	COG0697	spore germination
PhaeoP54_02806	COG1051	belongs to the nudix hydrolase family
PhaeoP54_02807	COG0446	pyridine nucleotide-disulphide oxidoreductase
PhaeoP54_02807	COG1902	pentaerythritol trinitrate reductase activity
PhaeoP54_02808	COG0693	protein deglycase activity
PhaeoP54_02810	COG2329	Antibiotic biosynthesis monooxygenase
PhaeoP54_02813	COG0583	DNA-binding transcription factor activity
PhaeoP54_02814	COG2885	chlorophyll binding
PhaeoP54_02817	COG1546	Belongs to the CinA family
PhaeoP54_02817	COG1058	Belongs to the CinA family
PhaeoP54_02818	COG1489	DNA binding
PhaeoP54_02819	COG0668	transmembrane transport
PhaeoP54_02820	COG0024	Methionine aminopeptidase
PhaeoP54_02821	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
PhaeoP54_02822	COG0742	ribosomal rna small subunit methyltransferase
PhaeoP54_02824	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
PhaeoP54_02824	COG0678	peroxiredoxin activity
PhaeoP54_02825	COG2154	pterin-4-alpha-carbinolamine dehydratase
PhaeoP54_02829	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
PhaeoP54_02834	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
PhaeoP54_02835	COG0347	Belongs to the P(II) protein family
PhaeoP54_02836	COG0004	ammonium transporteR
PhaeoP54_02838	COG2897	thiosulfate sulfurtransferase activity
PhaeoP54_02840	COG0691	Required for rescue of stalled ribosomes mediated by trans-translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene
PhaeoP54_02842	COG1396	sequence-specific DNA binding
PhaeoP54_02843	COG3135	benzoate transporter
PhaeoP54_02844	COG0129	dihydroxy-acid dehydratase activity
PhaeoP54_02856	COG1183	phosphatidylcholine synthase activity
PhaeoP54_02861	COG0071	Belongs to the small heat shock protein (HSP20) family
PhaeoP54_02862	COG3591	Belongs to the peptidase S1B family
PhaeoP54_02863	COG3591	Belongs to the peptidase S1B family
PhaeoP54_02864	COG0247	lactate metabolic process
PhaeoP54_02865	COG0277	FAD linked oxidase domain protein
PhaeoP54_02866	COG0277	FAD linked oxidase domain protein
PhaeoP54_02869	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
PhaeoP54_02870	COG0799	negative regulation of ribosome biogenesis
PhaeoP54_02871	COG3096	Plays a central role in chromosome condensation, segregation and cell cycle progression. Functions as a homodimer, which is essential for chromosome partition. Involved in negative DNA supercoiling in vivo, and by this means organize and compact chromosomes. May achieve or facilitate chromosome segregation by condensation DNA from both sides of a centrally located replisome during cell division
PhaeoP54_02871	COG3264	Mechanosensitive ion channel
PhaeoP54_02872	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
PhaeoP54_02873	COG0066	3-isopropylmalate dehydratase activity
PhaeoP54_02877	COG0473	3-isopropylmalate dehydrogenase activity
PhaeoP54_02878	COG0697	spore germination
PhaeoP54_02881	COG0040	Catalyzes the condensation of ATP and 5-phosphoribose 1- diphosphate to form N'-(5'-phosphoribosyl)-ATP (PR-ATP). Has a crucial role in the pathway because the rate of histidine biosynthesis seems to be controlled primarily by regulation of hisG enzymatic activity
PhaeoP54_02883	COG0124	histidyl-tRNA synthetase
PhaeoP54_02886	COG1804	L-carnitine dehydratase bile acid-inducible protein F
PhaeoP54_02888	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
PhaeoP54_02889	COG0181	hydroxymethylbilane synthase activity
PhaeoP54_02891	COG0408	coproporphyrinogen oxidase activity
PhaeoP54_02894	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
PhaeoP54_02897	COG1686	Belongs to the peptidase S11 family
PhaeoP54_02901	COG0348	domain, Protein
PhaeoP54_02903	COG2010	Cytochrome c
PhaeoP54_02908	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
PhaeoP54_02909	COG4172	Belongs to the ABC transporter superfamily
PhaeoP54_02910	COG4239	(ABC) transporter, permease
PhaeoP54_02911	COG4174	ABC transporter (Permease)
PhaeoP54_02912	COG4166	transmembrane transport
PhaeoP54_02914	COG1605	Chorismate mutase
PhaeoP54_02914	COG0077	Prephenate dehydratase
PhaeoP54_02916	COG2816	NAD+ diphosphatase activity
PhaeoP54_02917	COG0737	Belongs to the 5'-nucleotidase family
PhaeoP54_02924	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
PhaeoP54_02925	COG0353	May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO
PhaeoP54_02932	COG0828	Belongs to the bacterial ribosomal protein bS21 family
PhaeoP54_02933	COG2326	polyphosphate kinase activity
PhaeoP54_02935	COG1522	sequence-specific DNA binding
PhaeoP54_02936	COG0686	Belongs to the AlaDH PNT family
PhaeoP54_02937	COG1309	transcriptional regulator
PhaeoP54_02938	COG2130	NADP-dependent
PhaeoP54_02941	COG4948	Mandelate Racemase Muconate Lactonizing
PhaeoP54_02943	COG2301	Belongs to the HpcH HpaI aldolase family
PhaeoP54_02945	COG1522	sequence-specific DNA binding
PhaeoP54_02948	COG0825	malonyl-CoA metabolic process
PhaeoP54_02956	COG2207	Transcriptional regulator
PhaeoP54_02958	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_02962	COG0411	ABC transporter
PhaeoP54_02964	COG0410	ABC transporter
PhaeoP54_02965	COG0559	Belongs to the binding-protein-dependent transport system permease family
PhaeoP54_02970	COG0189	ligase activity
PhaeoP54_02971	COG0189	ligase activity
PhaeoP54_02971	COG4067	protein conserved in archaea
PhaeoP54_02973	COG0477	Major facilitator Superfamily
PhaeoP54_02975	COG4191	Histidine kinase
PhaeoP54_02978	COG0230	Belongs to the bacterial ribosomal protein bL34 family
PhaeoP54_02979	COG0594	ribonuclease P activity
PhaeoP54_02980	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
PhaeoP54_02982	COG0037	tRNA processing
PhaeoP54_02984	COG0706	membrane insertase activity
PhaeoP54_02986	COG0218	Necessary for normal cell division and for the maintenance of normal septation
PhaeoP54_02987	COG1028	Short-chain dehydrogenase reductase Sdr
PhaeoP54_02988	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
PhaeoP54_02992	COG1126	abc transporter atp-binding protein
PhaeoP54_02993	COG0765	amino acid transport
PhaeoP54_02994	COG4597	amino acid ABC transporter
PhaeoP54_02995	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
PhaeoP54_02997	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
PhaeoP54_02999	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
PhaeoP54_03000	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
PhaeoP54_03001	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
PhaeoP54_03002	COG0203	ribosomal protein L17
PhaeoP54_03003	COG0202	RNA polymerase activity
PhaeoP54_03004	COG0100	Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome
PhaeoP54_03005	COG0099	Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits
PhaeoP54_03007	COG0201	protein transport
PhaeoP54_03008	COG0200	Binds to the 23S rRNA
PhaeoP54_03011	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
PhaeoP54_03013	COG1841	ribosomal large subunit assembly
PhaeoP54_03014	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
PhaeoP54_03015	COG0256	This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance
PhaeoP54_03016	COG0097	This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7 L12 stalk, and near the tRNA binding site of the peptidyltransferase center
PhaeoP54_03017	COG0096	One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
PhaeoP54_03018	COG0199	Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site
PhaeoP54_03019	COG0094	This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits
PhaeoP54_03020	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
PhaeoP54_03021	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
PhaeoP54_03022	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
PhaeoP54_03023	COG0255	Belongs to the universal ribosomal protein uL29 family
PhaeoP54_03028	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
PhaeoP54_03029	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
PhaeoP54_03030	COG0091	The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome
PhaeoP54_03031	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
PhaeoP54_03032	COG0090	One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity
PhaeoP54_03034	COG0089	rRNA binding
PhaeoP54_03035	COG0088	Forms part of the polypeptide exit tunnel
PhaeoP54_03036	COG0087	One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit
PhaeoP54_03037	COG0051	transcription antitermination factor activity, RNA binding
PhaeoP54_03039	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
PhaeoP54_03040	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
PhaeoP54_03041	COG0049	tRNA binding
PhaeoP54_03042	COG0048	Interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone. Located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit
PhaeoP54_03046	COG0583	DNA-binding transcription factor activity
PhaeoP54_03048	COG1335	isochorismatase
PhaeoP54_03049	COG0435	Glutathione S-transferase
PhaeoP54_03052	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
PhaeoP54_03053	COG0085	RNA polymerase activity
PhaeoP54_03054	COG0222	ribosome binding
PhaeoP54_03055	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
PhaeoP54_03056	COG0081	regulation of translation
PhaeoP54_03057	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
PhaeoP54_03059	COG0250	Participates in transcription elongation, termination and antitermination
PhaeoP54_03064	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
PhaeoP54_03066	COG0188	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner
PhaeoP54_03068	COG0300	oxidoreductase activity
PhaeoP54_03070	COG2096	Adenosyltransferase
PhaeoP54_03074	COG1250	3-hydroxyacyl-CoA dehydrogenase
PhaeoP54_03076	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
PhaeoP54_03078	COG1660	Displays ATPase and GTPase activities
PhaeoP54_03080	COG2205	protein histidine kinase activity
PhaeoP54_03081	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_03082	COG1866	Involved in the gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA
PhaeoP54_03083	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
PhaeoP54_03087	COG1381	Involved in DNA repair and RecF pathway recombination
PhaeoP54_03089	COG1159	An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism
PhaeoP54_03090	COG0571	ribonuclease III activity
PhaeoP54_03091	COG0681	Belongs to the peptidase S26 family
PhaeoP54_03092	COG0736	holo-[acyl-carrier-protein] synthase activity
PhaeoP54_03093	COG0854	Catalyzes the complicated ring closure reaction between the two acyclic compounds 1-deoxy-D-xylulose-5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate (1-amino-acetone-3-phosphate or AAP) to form pyridoxine 5'-phosphate (PNP) and inorganic phosphate
PhaeoP54_03095	COG0317	In eubacteria ppGpp (guanosine 3'-diphosphate 5-' diphosphate) is a mediator of the stringent response that coordinates a variety of cellular activities in response to changes in nutritional abundance
PhaeoP54_03096	COG1758	RNA polymerase activity
PhaeoP54_03097	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
PhaeoP54_03099	COG0761	Catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)- butenyl 4-diphosphate (HMBPP) into a mixture of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Acts in the terminal step of the DOXP MEP pathway for isoprenoid precursor biosynthesis
PhaeoP54_03103	COG0328	RNA-DNA hybrid ribonuclease activity
PhaeoP54_03104	COG2860	membrane
PhaeoP54_03106	COG0223	Attaches a formyl group to the free amino group of methionyl-tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus
PhaeoP54_03107	COG0242	peptide deformylase activity
PhaeoP54_03108	COG0242	peptide deformylase activity
PhaeoP54_03109	COG0242	peptide deformylase activity
PhaeoP54_03110	COG1168	Bifunctional PLP-dependent enzyme with beta-cystaTHIonase and maltose regulon repressor activities
PhaeoP54_03112	COG0435	Glutathione S-transferase
PhaeoP54_03114	COG1270	Converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group
PhaeoP54_03120	COG2186	Transcriptional regulator
PhaeoP54_03122	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
PhaeoP54_03123	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
PhaeoP54_03124	COG0636	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
PhaeoP54_03125	COG0356	it plays a direct role in the translocation of protons across the membrane
PhaeoP54_03132	COG0480	Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post- translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome
PhaeoP54_03135	COG0541	Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY
PhaeoP54_03137	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
PhaeoP54_03140	COG0228	four-way junction DNA binding
PhaeoP54_03141	COG0778	Nitroreductase
PhaeoP54_03142	COG0806	An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes
PhaeoP54_03144	COG0336	Belongs to the RNA methyltransferase TrmD family
PhaeoP54_03145	COG0335	large ribosomal subunit rRNA binding
PhaeoP54_03146	COG0254	rRNA binding
PhaeoP54_03147	COG0489	protein tyrosine kinase activity
PhaeoP54_03147	COG2151	metal-sulfur cluster biosynthetic enzyme
PhaeoP54_03152	COG3508	Involved in the catabolism of homogentisate (2,5- dihydroxyphenylacetate or 2,5-OH-PhAc), a central intermediate in the degradation of phenylalanine and tyrosine. Catalyzes the oxidative ring cleavage of the aromatic ring of homogentisate to yield maleylacetoacetate
PhaeoP54_03153	COG0179	Fumarylacetoacetate (FAA) hydrolase
PhaeoP54_03157	COG0346	lactoylglutathione lyase activity
PhaeoP54_03158	COG0625	glutathione transferase activity
PhaeoP54_03160	COG0635	Involved in the biosynthesis of porphyrin-containing compound
PhaeoP54_03161	COG3046	protein related to deoxyribodipyrimidine photolyase
PhaeoP54_03163	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
PhaeoP54_03164	COG0587	DNA-directed DNA polymerase activity
PhaeoP54_03167	COG4176	ABC-type proline glycine betaine transport system permease component
PhaeoP54_03168	COG4175	Glycine betaine
PhaeoP54_03168	COG3448	diguanylate cyclase activity
PhaeoP54_03177	COG2717	Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. MsrQ provides electrons for reduction to the reductase catalytic subunit MsrP, using the quinone pool of the respiratory chain
PhaeoP54_03178	COG2041	Part of the MsrPQ system that repairs oxidized periplasmic proteins containing methionine sulfoxide residues (Met-O), using respiratory chain electrons. Thus protects these proteins from oxidative-stress damage caused by reactive species of oxygen and chlorine generated by the host defense mechanisms. MsrPQ is essential for the maintenance of envelope integrity under bleach stress, rescuing a wide series of structurally unrelated periplasmic proteins from methionine oxidation. The catalytic subunit MsrP is non-stereospecific, being able to reduce both (R-) and (S-) diastereoisomers of methionine sulfoxide
PhaeoP54_03179	COG0069	glutamate synthase activity
PhaeoP54_03182	COG0542	response to heat
PhaeoP54_03183	COG0284	orotidine-5'-phosphate decarboxylase activity
PhaeoP54_03185	COG0389	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII
PhaeoP54_03188	COG0257	Belongs to the bacterial ribosomal protein bL36 family
PhaeoP54_03189	COG1840	ABC-type Fe3 transport system, periplasmic component
PhaeoP54_03191	COG0523	cobalamin synthesis protein
PhaeoP54_03192	COG1178	ABC-type Fe3 transport system permease component
PhaeoP54_03193	COG1541	Catalyzes the activation of phenylacetic acid (PA) to phenylacetyl-CoA (PA-CoA)
PhaeoP54_03199	COG0559	Belongs to the binding-protein-dependent transport system permease family
PhaeoP54_03200	COG0411	ABC transporter
PhaeoP54_03201	COG0318	PFAM AMP-dependent synthetase and ligase
PhaeoP54_03202	COG4191	Histidine kinase
PhaeoP54_03203	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_03206	COG0625	glutathione transferase activity
PhaeoP54_03211	COG1322	Protein conserved in bacteria
PhaeoP54_03212	COG0323	This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a molecular matchmaker , a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex
PhaeoP54_03213	COG1108	ABC-type Mn2 Zn2 transport systems permease components
PhaeoP54_03214	COG1321	iron dependent repressor
PhaeoP54_03214	COG1108	ABC-type Mn2 Zn2 transport systems permease components
PhaeoP54_03215	COG1121	(ABC) transporter
PhaeoP54_03216	COG0803	Belongs to the bacterial solute-binding protein 9 family
PhaeoP54_03218	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_03219	COG0612	Peptidase, M16
PhaeoP54_03220	COG0612	Peptidase, M16
PhaeoP54_03222	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
PhaeoP54_03223	COG0138	bifunctional purine biosynthesis protein purh
PhaeoP54_03225	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
PhaeoP54_03228	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
PhaeoP54_03229	COG0858	One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Required for efficient processing of 16S rRNA. May interact with the 5'-terminal helix region of 16S rRNA
PhaeoP54_03231	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
PhaeoP54_03234	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
PhaeoP54_03235	COG0500	methyltransferase
PhaeoP54_03236	COG1185	polyribonucleotide nucleotidyltransferase activity
PhaeoP54_03238	COG0450	alkyl hydroperoxide reductase
PhaeoP54_03243	COG0564	pseudouridine synthase activity
PhaeoP54_03252	COG1280	lysine exporter protein (LysE YggA)
PhaeoP54_03255	COG0183	Belongs to the thiolase family
PhaeoP54_03257	COG2172	sigma factor antagonist activity
PhaeoP54_03258	COG0405	Gamma-glutamyltransferase
PhaeoP54_03260	COG3118	belongs to the thioredoxin family
PhaeoP54_03262	COG2835	tetraacyldisaccharide 4'-kinase activity
PhaeoP54_03263	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
PhaeoP54_03264	COG0154	amidase activity
PhaeoP54_03265	COG0436	Aminotransferase
PhaeoP54_03266	COG1674	ftsk spoiiie
PhaeoP54_03269	COG0708	Exodeoxyribonuclease III
PhaeoP54_03270	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_03276	COG0495	leucyl-tRNA aminoacylation
PhaeoP54_03279	COG0625	glutathione transferase activity
PhaeoP54_03280	COG2081	HI0933 family
PhaeoP54_03282	COG1250	3-hydroxyacyl-CoA dehydrogenase
PhaeoP54_03282	COG1024	Enoyl-CoA hydratase
PhaeoP54_03285	COG0312	modulator of DNA gyrase
PhaeoP54_03288	COG1663	tetraacyldisaccharide 4'-kinase activity
PhaeoP54_03291	COG1194	a g-specific adenine glycosylase
PhaeoP54_03292	COG3239	Fatty acid desaturase
PhaeoP54_03294	COG2189	Belongs to the N(4) N(6)-methyltransferase family
PhaeoP54_03295	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
PhaeoP54_03301	COG0022	dehydrogenase e1 component
PhaeoP54_03302	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
PhaeoP54_03303	COG0410	ABC transporter
PhaeoP54_03305	COG1172	Belongs to the binding-protein-dependent transport system permease family
PhaeoP54_03306	COG0559	Belongs to the binding-protein-dependent transport system permease family
PhaeoP54_03308	COG0829	nickel cation binding
PhaeoP54_03309	COG0831	urea catabolic process
PhaeoP54_03311	COG0832	Belongs to the urease beta subunit family
PhaeoP54_03312	COG0804	urea catabolic process
PhaeoP54_03313	COG2371	Involved in urease metallocenter assembly. Binds nickel. Probably functions as a nickel donor during metallocenter assembly
PhaeoP54_03314	COG0830	nickel cation binding
PhaeoP54_03315	COG0378	Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG
PhaeoP54_03317	COG2994	toxin metabolic process
PhaeoP54_03321	COG1609	Transcriptional regulator
PhaeoP54_03322	COG3214	Protein conserved in bacteria
PhaeoP54_03326	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
PhaeoP54_03329	COG0253	Catalyzes the stereoinversion of LL-2,6- diaminoheptanedioate (L,L-DAP) to meso-diaminoheptanedioate (meso- DAP), a precursor of L-lysine and an essential component of the bacterial peptidoglycan
PhaeoP54_03330	COG0621	Catalyzes the methylthiolation of N6- (dimethylallyl)adenosine (i(6)A), leading to the formation of 2- methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine
PhaeoP54_03335	COG0625	glutathione transferase activity
PhaeoP54_03338	COG3840	Part of the ABC transporter complex ThiBPQ involved in thiamine import. Responsible for energy coupling to the transport system
PhaeoP54_03339	COG1178	ABC-type Fe3 transport system permease component
PhaeoP54_03340	COG4143	(ABC) transporter
PhaeoP54_03342	COG0082	Catalyzes the anti-1,4-elimination of the C-3 phosphate and the C-6 proR hydrogen from 5-enolpyruvylshikimate-3-phosphate (EPSP) to yield chorismate, which is the branch point compound that serves as the starting substrate for the three terminal pathways of aromatic amino acid biosynthesis. This reaction introduces a second double bond into the aromatic ring system
PhaeoP54_03343	COG0318	PFAM AMP-dependent synthetase and ligase
PhaeoP54_03344	COG0697	spore germination
PhaeoP54_03345	COG1846	Transcriptional regulator
PhaeoP54_03346	COG1764	response to oxidative stress
PhaeoP54_03347	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
PhaeoP54_03348	COG1846	Transcriptional regulator
PhaeoP54_03349	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_03351	COG1722	exodeoxyribonuclease VII activity
PhaeoP54_03352	COG0142	geranyltranstransferase activity
PhaeoP54_03353	COG1154	Catalyzes the acyloin condensation reaction between C atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D-xylulose-5-phosphate (DXP)
PhaeoP54_03358	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_03359	COG4977	sequence-specific DNA binding
PhaeoP54_03360	COG1001	Belongs to the metallo-dependent hydrolases superfamily. Adenine deaminase family
PhaeoP54_03361	COG0775	Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S- adenosylhomocysteine (SAH AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively
PhaeoP54_03362	COG0776	regulation of translation
PhaeoP54_03364	COG0229	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
PhaeoP54_03365	COG0225	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
PhaeoP54_03367	COG1600	Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr)
PhaeoP54_03368	COG1063	alcohol dehydrogenase
PhaeoP54_03369	COG0156	8-amino-7-oxononanoate synthase activity
PhaeoP54_03370	COG1396	sequence-specific DNA binding
PhaeoP54_03371	COG0183	Belongs to the thiolase family
PhaeoP54_03373	COG1176	ABC-type spermidine putrescine transport system, permease component I
PhaeoP54_03375	COG3842	ATPase activity
PhaeoP54_03377	COG1802	Transcriptional regulator
PhaeoP54_03379	COG3842	ATPase activity
PhaeoP54_03380	COG1176	ABC-type spermidine putrescine transport system, permease component I
PhaeoP54_03381	COG1177	transmembrane transport
PhaeoP54_03383	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
PhaeoP54_03385	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
PhaeoP54_03386	COG1218	3'(2'),5'-bisphosphate nucleotidase
PhaeoP54_03388	COG3145	DNA-N1-methyladenine dioxygenase activity
PhaeoP54_03389	COG0443	Heat shock 70 kDa protein
PhaeoP54_03390	COG0484	heat shock protein binding
PhaeoP54_03391	COG2003	Belongs to the UPF0758 family
PhaeoP54_03394	COG0653	protein targeting
PhaeoP54_03395	COG0760	Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation
PhaeoP54_03396	COG1364	Catalyzes two activities which are involved in the cyclic version of arginine biosynthesis the synthesis of N- acetylglutamate from glutamate and acetyl-CoA as the acetyl donor, and of ornithine by transacetylation between N(2)-acetylornithine and glutamate
PhaeoP54_03397	COG0494	nUDIX hydrolase
PhaeoP54_03399	COG0532	One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
PhaeoP54_03402	COG0779	Required for maturation of 30S ribosomal subunits
PhaeoP54_03405	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
PhaeoP54_03407	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
PhaeoP54_03409	COG1040	competence protein
PhaeoP54_03412	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
PhaeoP54_03416	COG3034	peptidoglycan biosynthetic process
PhaeoP54_03418	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
PhaeoP54_03419	COG1132	(ABC) transporter
PhaeoP54_03420	COG1132	(ABC) transporter
PhaeoP54_03421	COG0617	tRNA 3'-terminal CCA addition
PhaeoP54_03422	COG0494	nUDIX hydrolase
PhaeoP54_03423	COG1281	Redox regulated molecular chaperone. Protects both thermally unfolding and oxidatively damaged proteins from irreversible aggregation. Plays an important role in the bacterial defense system toward oxidative stress
PhaeoP54_03425	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_03427	COG1171	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA
PhaeoP54_03429	COG0137	argininosuccinate synthase activity
PhaeoP54_03434	COG0225	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine
PhaeoP54_03436	COG0280	phosphate acetyltransferase
PhaeoP54_03436	COG0281	malic enzyme
PhaeoP54_03437	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
PhaeoP54_03438	COG0576	Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ
PhaeoP54_03440	COG0689	Phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates
PhaeoP54_03441	COG0127	Pyrophosphatase that catalyzes the hydrolysis of nucleoside triphosphates to their monophosphate derivatives, with a high preference for the non-canonical purine nucleotides XTP (xanthosine triphosphate), dITP (deoxyinosine triphosphate) and ITP. Seems to function as a house-cleaning enzyme that removes non-canonical purine nucleotides from the nucleotide pool, thus preventing their incorporation into DNA RNA and avoiding chromosomal lesions
PhaeoP54_03442	COG0635	Involved in the biosynthesis of porphyrin-containing compound
PhaeoP54_03444	COG1475	DNA binding
PhaeoP54_03445	COG1192	Involved in chromosome partitioning
PhaeoP54_03446	COG0357	Ribosomal RNA small subunit methyltransferase G
PhaeoP54_03447	COG0445	tRNA wobble uridine modification
PhaeoP54_03448	COG0486	Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34
PhaeoP54_03449	COG1158	Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template
PhaeoP54_03451	COG0424	maF-like protein
PhaeoP54_03452	COG0169	Involved in the biosynthesis of the chorismate, which leads to the biosynthesis of aromatic amino acids. Catalyzes the reversible NADPH linked reduction of 3-dehydroshikimate (DHSA) to yield shikimate (SA)
PhaeoP54_03453	COG0237	dephospho-CoA kinase activity
PhaeoP54_03454	COG0847	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'-5' exonuclease
PhaeoP54_03455	COG1952	One of the proteins required for the normal export of preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA
PhaeoP54_03456	COG3030	protein affecting phage T7 exclusion by the F plasmid
PhaeoP54_03461	COG1220	this subunit has chaperone activity. The binding of ATP and its subsequent hydrolysis by HslU are essential for unfolding of protein substrates subsequently hydrolyzed by HslV. HslU recognizes the N-terminal part of its protein substrates and unfolds these before they are guided to HslV for hydrolysis
PhaeoP54_03463	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
PhaeoP54_03469	COG1074	ATP-dependent DNA helicase activity
PhaeoP54_03471	COG1208	COG1208 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis translation initiation factor 2B, gamma epsilon subunits eIF-2Bgamma eIF-2Bepsilon
PhaeoP54_03472	COG3178	'Phosphotransferase
PhaeoP54_03473	COG0802	atpase or kinase
PhaeoP54_03476	COG1999	signal sequence binding
PhaeoP54_03477	COG4567	Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain
PhaeoP54_03478	COG1896	Catalyzes the strictly specific dephosphorylation of 2'- deoxyribonucleoside 5'-monophosphates
PhaeoP54_03480	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
PhaeoP54_03486	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
PhaeoP54_03487	COG0533	Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Is involved in the transfer of the threonylcarbamoyl moiety of threonylcarbamoyl-AMP (TC-AMP) to the N6 group of A37, together with TsaE and TsaB. TsaD likely plays a direct catalytic role in this reaction
PhaeoP54_03493	COG0318	PFAM AMP-dependent synthetase and ligase
PhaeoP54_03496	COG1256	bacterial-type flagellum assembly
PhaeoP54_03498	COG1706	bacterial-type flagellum-dependent cell motility
PhaeoP54_03499	COG1338	Plays a role in the flagellum-specific transport system
PhaeoP54_03500	COG1886	FliN is one of three proteins (FliG, FliN, FliM) that form the rotor-mounted switch complex (C ring), located at the base of the basal body. This complex interacts with the CheY and CheZ chemotaxis proteins, in addition to contacting components of the motor that determine the direction of flagellar rotation
PhaeoP54_03502	COG1766	The M ring may be actively involved in energy transduction
PhaeoP54_03506	COG1291	archaeal or bacterial-type flagellum-dependent cell motility
PhaeoP54_03509	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
PhaeoP54_03511	COG1377	Required for formation of the rod structure in the basal body of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
PhaeoP54_03514	COG2063	Assembles around the rod to form the L-ring and probably protects the motor basal body from shearing forces during rotation
PhaeoP54_03516	COG4786	Flagellar basal body rod
PhaeoP54_03517	COG4786	Flagellar basal body rod
PhaeoP54_03518	COG1987	bacterial-type flagellum assembly
PhaeoP54_03519	COG1677	Flagellar hook-basal body complex protein FliE
PhaeoP54_03520	COG1558	bacterial-type flagellum-dependent cell motility
PhaeoP54_03521	COG1815	bacterial-type flagellum-dependent cell motility
PhaeoP54_03522	COG1157	protein secretion by the type III secretion system
PhaeoP54_03523	COG5443	negative regulation of bacterial-type flagellum assembly
PhaeoP54_03525	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
PhaeoP54_03529	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
PhaeoP54_03534	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
PhaeoP54_03535	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
PhaeoP54_03536	COG1137	ATPase activity
PhaeoP54_03539	COG0794	Belongs to the SIS family. GutQ KpsF subfamily
PhaeoP54_03539	COG0517	IMP dehydrogenase activity
PhaeoP54_03540	COG0349	Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides
PhaeoP54_03546	COG1968	undecaprenyl-diphosphatase activity
PhaeoP54_03549	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
PhaeoP54_03551	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
PhaeoP54_03552	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
PhaeoP54_03553	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
PhaeoP54_03555	COG0560	Phosphoserine phosphatase
PhaeoP54_03555	COG3830	Belongs to the UPF0237 family
PhaeoP54_03563	COG0820	rRNA (adenine-C2-)-methyltransferase activity
PhaeoP54_03567	COG1171	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA
PhaeoP54_03569	COG2171	N-acyltransferase activity
PhaeoP54_03570	COG2987	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate
PhaeoP54_03572	COG2986	histidine ammonia-lyase
PhaeoP54_03573	COG1228	amidohydrolase
PhaeoP54_03577	COG4623	carbon-oxygen lyase activity, acting on polysaccharides
PhaeoP54_03580	COG0624	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls
PhaeoP54_03581	COG0557	exoribonuclease II activity
PhaeoP54_03584	COG2951	lytic endotransglycosylase activity
PhaeoP54_03586	COG2226	methyltransferase
PhaeoP54_03587	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
PhaeoP54_03589	COG0268	Binds directly to 16S ribosomal RNA
PhaeoP54_03591	COG1192	Involved in chromosome partitioning
PhaeoP54_03592	COG1475	DNA binding
PhaeoP54_03595	COG1215	transferase activity, transferring glycosyl groups
PhaeoP54_03596	COG1215	transferase activity, transferring glycosyl groups
PhaeoP54_03600	COG1215	transferase activity, transferring glycosyl groups
PhaeoP54_03601	COG1215	transferase activity, transferring glycosyl groups
PhaeoP54_03602	COG0438	transferase activity, transferring glycosyl groups
PhaeoP54_03605	COG0840	transmembrane signaling receptor activity
PhaeoP54_03608	COG1522	sequence-specific DNA binding
PhaeoP54_03612	COG4948	Mandelate Racemase Muconate Lactonizing
PhaeoP54_03613	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_03615	COG0783	Belongs to the Dps family
PhaeoP54_03617	COG1802	Transcriptional regulator
PhaeoP54_03618	COG3938	Belongs to the proline racemase family
PhaeoP54_03620	COG0747	negative chemotaxis
PhaeoP54_03621	COG0601	transmembrane transport
PhaeoP54_03624	COG4608	Belongs to the ABC transporter superfamily
PhaeoP54_03626	COG0840	transmembrane signaling receptor activity
PhaeoP54_03627	COG2244	polysaccharide biosynthetic process
PhaeoP54_03629	COG2017	converts alpha-aldose to the beta-anomer
PhaeoP54_03630	COG1858	cytochrome C peroxidase
PhaeoP54_03633	COG4213	ABC transporter substrate-binding protein
PhaeoP54_03634	COG4214	carbohydrate transport
PhaeoP54_03635	COG1129	ABC transporter
PhaeoP54_03636	COG0789	Transcriptional regulator
PhaeoP54_03640	COG1793	dna ligase
PhaeoP54_03642	COG0534	Mate efflux family protein
PhaeoP54_03644	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_03650	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
PhaeoP54_03651	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
PhaeoP54_03655	COG2951	lytic endotransglycosylase activity
PhaeoP54_03656	COG0740	serine-type endopeptidase activity
PhaeoP54_03658	COG1285	pathogenesis
PhaeoP54_03659	COG1366	Belongs to the anti-sigma-factor antagonist family
PhaeoP54_03660	COG1366	Belongs to the anti-sigma-factor antagonist family
PhaeoP54_03662	COG2172	sigma factor antagonist activity
PhaeoP54_03664	COG1473	amidohydrolase
PhaeoP54_03665	COG0133	tryptophan synthase activity
PhaeoP54_03666	COG1522	sequence-specific DNA binding
PhaeoP54_03669	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_03675	COG1720	tRNA m6t6A37 methyltransferase activity
PhaeoP54_03676	COG0747	negative chemotaxis
PhaeoP54_03677	COG0601	transmembrane transport
PhaeoP54_03679	COG0444	Belongs to the ABC transporter superfamily
PhaeoP54_03680	COG3703	Catalyzes the cleavage of glutathione into 5-oxo-L- proline and a Cys-Gly dipeptide. Acts specifically on glutathione, but not on other gamma-glutamyl peptides
PhaeoP54_03683	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_03687	COG0583	DNA-binding transcription factor activity
PhaeoP54_03688	COG0583	DNA-binding transcription factor activity
PhaeoP54_03689	COG4608	Belongs to the ABC transporter superfamily
PhaeoP54_03690	COG0444	Belongs to the ABC transporter superfamily
PhaeoP54_03691	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
PhaeoP54_03692	COG0601	transmembrane transport
PhaeoP54_03693	COG0747	negative chemotaxis
PhaeoP54_03703	COG0583	DNA-binding transcription factor activity
PhaeoP54_03706	COG0395	ABC-type sugar transport system, permease component
PhaeoP54_03707	COG1653	transport
PhaeoP54_03708	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
PhaeoP54_03717	COG0687	Required for the activity of the bacterial periplasmic transport system of putrescine
PhaeoP54_03718	COG1176	ABC-type spermidine putrescine transport system, permease component I
PhaeoP54_03721	COG0588	phosphoglycerate mutase activity
PhaeoP54_03727	COG0435	Glutathione S-transferase
PhaeoP54_03735	COG0714	Associated with various cellular activities
PhaeoP54_03737	COG2010	Cytochrome c
PhaeoP54_03740	COG2132	Multicopper oxidase
PhaeoP54_03741	COG1262	PFAM Formylglycine-generating sulfatase enzyme
PhaeoP54_03743	COG2207	Transcriptional regulator
PhaeoP54_03750	COG0583	DNA-binding transcription factor activity
PhaeoP54_03755	COG2055	Belongs to the LDH2 MDH2 oxidoreductase family
PhaeoP54_03758	COG1292	Belongs to the BCCT transporter (TC 2.A.15) family
PhaeoP54_03760	COG1012	belongs to the aldehyde dehydrogenase family
PhaeoP54_03762	COG2207	Transcriptional regulator
PhaeoP54_03764	COG0404	The glycine cleavage system catalyzes the degradation of glycine
PhaeoP54_03764	COG0446	pyridine nucleotide-disulphide oxidoreductase
PhaeoP54_03765	COG4311	Sarcosine oxidase, delta subunit
PhaeoP54_03766	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
PhaeoP54_03768	COG1024	Enoyl-CoA hydratase
PhaeoP54_03769	COG1960	acyl-CoA dehydrogenase activity
PhaeoP54_03772	COG0735	belongs to the Fur family
PhaeoP54_03774	COG0577	efflux transmembrane transporter activity
PhaeoP54_03774	COG1136	(ABC) transporter
PhaeoP54_03775	COG0577	efflux transmembrane transporter activity
PhaeoP54_03775	COG1136	(ABC) transporter
PhaeoP54_03779	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_03780	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
PhaeoP54_03783	COG0745	RESPONSE REGULATOR receiver
PhaeoP54_03785	COG0840	transmembrane signaling receptor activity
PhaeoP54_03786	COG2201	protein-glutamate methylesterase activity
PhaeoP54_03788	COG0725	ABC transporter, periplasmic molybdate-binding protein
PhaeoP54_03789	COG4149	molybdate abc transporter
PhaeoP54_03790	COG4148	Part of the ABC transporter complex ModABC involved in molybdenum import. Responsible for energy coupling to the transport system
PhaeoP54_03791	COG1053	succinate dehydrogenase
PhaeoP54_03793	COG0735	belongs to the Fur family
PhaeoP54_03795	COG1108	ABC-type Mn2 Zn2 transport systems permease components
PhaeoP54_03798	COG3848	Pyruvate phosphate dikinase
PhaeoP54_03798	COG0574	Belongs to the PEP-utilizing enzyme family
PhaeoP54_03800	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
PhaeoP54_03806	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
PhaeoP54_03809	COG1192	Involved in chromosome partitioning
PhaeoP54_03810	COG1475	DNA binding
PhaeoP54_03811	COG1414	Transcriptional regulator
PhaeoP54_03816	COG4974	Belongs to the 'phage' integrase family
PhaeoP54_03817	COG0582	viral genome integration into host DNA
PhaeoP54_03818	COG4974	Belongs to the 'phage' integrase family
PhaeoP54_03824	COG3077	Addiction module antitoxin, RelB DinJ family
PhaeoP54_03832	COG1742	UPF0060 membrane protein
PhaeoP54_03857	COG4962	Type ii secretion system protein e
PhaeoP54_03858	COG2948	multi-organism process
PhaeoP54_03862	COG0739	heme binding
PhaeoP54_03862	COG1196	nuclear chromosome segregation
PhaeoP54_03862	COG0741	lytic transglycosylase activity
PhaeoP54_03867	COG0739	heme binding
PhaeoP54_03867	COG0741	lytic transglycosylase activity
PhaeoP54_03867	COG1196	nuclear chromosome segregation
PhaeoP54_03875	COG0785	Cytochrome C biogenesis protein
PhaeoP54_03876	COG1742	UPF0060 membrane protein
PhaeoP54_03877	COG0789	Transcriptional regulator
PhaeoP54_03878	COG1999	signal sequence binding
PhaeoP54_03882	COG1999	signal sequence binding
PhaeoP54_03886	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
PhaeoP54_03887	COG0815	Transfers the fatty acyl group on membrane lipoproteins
PhaeoP54_03889	COG2366	antibiotic biosynthetic process
PhaeoP54_03891	COG1321	iron dependent repressor
PhaeoP54_03894	COG3638	Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system
PhaeoP54_03896	COG3034	peptidoglycan biosynthetic process
PhaeoP54_03900	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
PhaeoP54_03902	COG1192	Involved in chromosome partitioning
PhaeoP54_03903	COG1475	DNA binding
PhaeoP54_03914	COG2197	response regulator
PhaeoP54_03915	COG3177	Filamentation induced by cAMP protein fic
PhaeoP54_03917	COG1132	(ABC) transporter
PhaeoP54_03918	COG1082	Xylose isomerase domain protein TIM barrel
PhaeoP54_03919	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
PhaeoP54_03920	COG0318	PFAM AMP-dependent synthetase and ligase
PhaeoP54_03921	COG4264	IucA IucC family
PhaeoP54_03924	COG4607	ABC-type enterochelin transport system periplasmic component
PhaeoP54_03925	COG4606	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
PhaeoP54_03926	COG4605	iron ion homeostasis
PhaeoP54_03927	COG4604	ABC transporter, ATP-binding protein
PhaeoP54_03928	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
PhaeoP54_03932	COG1003	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
PhaeoP54_03932	COG0403	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
PhaeoP54_03933	COG0509	glycine decarboxylation via glycine cleavage system
PhaeoP54_03934	COG0404	The glycine cleavage system catalyzes the degradation of glycine
PhaeoP54_03935	COG1115	amino acid carrier protein
PhaeoP54_03936	COG0320	Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives
PhaeoP54_03939	COG3002	Belongs to the UPF0753 family
PhaeoP54_03940	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
PhaeoP54_03942	COG0673	inositol 2-dehydrogenase activity
PhaeoP54_03944	COG3842	ATPase activity
PhaeoP54_03947	COG1653	transport
PhaeoP54_03950	COG0673	inositol 2-dehydrogenase activity
PhaeoP54_03959	COG0583	DNA-binding transcription factor activity
PhaeoP54_03960	COG2132	Multicopper oxidase
PhaeoP54_03961	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
PhaeoP54_03962	COG0640	Transcriptional regulator
PhaeoP54_03968	COG0782	Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus
PhaeoP54_03970	COG1062	S-(hydroxymethyl)glutathione dehydrogenase activity
PhaeoP54_03971	COG0583	DNA-binding transcription factor activity
PhaeoP54_03972	COG3781	membrane
PhaeoP54_03980	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
PhaeoP54_03981	COG0210	DNA helicase
PhaeoP54_03986	COG0739	heme binding
PhaeoP54_03986	COG0741	lytic transglycosylase activity
PhaeoP54_03986	COG1196	nuclear chromosome segregation
PhaeoP54_03989	COG3451	type IV secretory pathway VirB4
PhaeoP54_03991	COG0739	heme binding
PhaeoP54_03991	COG0741	lytic transglycosylase activity
PhaeoP54_03991	COG1196	nuclear chromosome segregation
PhaeoP54_03994	COG3504	Conjugal transfer protein
PhaeoP54_03995	COG2948	multi-organism process
PhaeoP54_03996	COG4962	Type ii secretion system protein e
PhaeoP54_04009	COG4227	nucleotidyltransferase activity
PhaeoP54_04027	COG3742	Toxic component of a toxin-antitoxin (TA) module. An RNase
PhaeoP54_04035	COG1192	Involved in chromosome partitioning
PhaeoP54_04037	COG1004	Belongs to the UDP-glucose GDP-mannose dehydrogenase family
PhaeoP54_04038	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
PhaeoP54_04039	COG1216	Glycosyl transferase, family 2
PhaeoP54_04050	COG4618	COG4618 ABC-type protease lipase transport system, ATPase and permease components
PhaeoP54_04051	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
PhaeoP54_04053	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
PhaeoP54_04057	COG2931	calcium- and calmodulin-responsive adenylate cyclase activity
PhaeoP54_04066	COG1086	Polysaccharide biosynthesis protein
PhaeoP54_04067	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
PhaeoP54_04070	COG1126	abc transporter atp-binding protein