locus-tag	class	description
APS55_00015	COG1131	(ABC) transporter
APS55_00020	COG1464	Belongs to the NlpA lipoprotein family
APS55_00025	COG2011	ABC-type metal ion transport system permease component
APS55_00030	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
APS55_00035	COG0772	Belongs to the SEDS family
APS55_00045	COG1077	Cell shape determining protein MreB Mrl
APS55_00050	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
APS55_00060	COG0355	proton-transporting ATP synthase activity, rotational mechanism
APS55_00065	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
APS55_00070	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
APS55_00075	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
APS55_00080	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
APS55_00085	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
APS55_00090	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
APS55_00095	COG0356	it plays a direct role in the translocation of protons across the membrane
APS55_00100	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
APS55_00105	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
APS55_00110	COG0009	L-threonylcarbamoyladenylate synthase
APS55_00115	COG2890	protein-(glutamine-N5) methyltransferase activity
APS55_00125	COG1435	thymidine kinase activity
APS55_00130	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
APS55_00135	COG3442	glutamine amidotransferase
APS55_00140	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
APS55_00145	COG1132	(ABC) transporter
APS55_00165	COG1335	isochorismatase
APS55_00175	COG3759	membrane
APS55_00400	COG1484	DNA-dependent DNA replication
APS55_00410	COG0629	single-stranded DNA binding
APS55_00465	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
APS55_00530	COG5280	Phage tail tape measure protein TP901
APS55_00530	COG3953	SLT domain
APS55_00545	COG2801	Transposase and inactivated derivatives
APS55_00560	COG0604	alcohol dehydrogenase
APS55_00560	COG4221	oxidoreductase activity
APS55_00560	COG3321	synthase
APS55_00560	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
APS55_00565	COG1942	4-Oxalocrotonate Tautomerase
APS55_00570	COG0017	Asparaginyl-tRNA synthetase
APS55_00575	COG2249	NAD(P)H dehydrogenase (quinone) activity
APS55_00580	COG2801	Transposase and inactivated derivatives
APS55_00600	COG4975	Glucose uptake
APS55_00610	COG0477	Major facilitator Superfamily
APS55_00625	COG3158	transport of potassium into the cell
APS55_00630	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
APS55_00650	COG1705	Flagellar rod assembly protein muramidase FlgJ
APS55_00650	COG1388	LysM domain
APS55_00655	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
APS55_00660	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
APS55_00665	COG4856	YbbR-like protein
APS55_00680	COG0025	NhaP-type Na H and K H
APS55_00685	COG0812	UDP-N-acetylmuramate dehydrogenase activity
APS55_00700	COG0802	atpase or kinase
APS55_00705	COG0280	phosphate acetyltransferase
APS55_00710	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
APS55_00720	COG0557	exoribonuclease II activity
APS55_00725	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
APS55_00735	COG0148	phosphopyruvate hydratase activity
APS55_00740	COG0149	triose-phosphate isomerase activity
APS55_00760	COG0740	serine-type endopeptidase activity
APS55_00765	COG1481	regulation of sporulation
APS55_00770	COG0391	Required for morphogenesis under gluconeogenic growth conditions
APS55_00775	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
APS55_00780	COG0556	nucleotide-excision repair
APS55_00785	COG0492	ferredoxin-NADP+ reductase activity
APS55_00795	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
APS55_00800	COG0682	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins
APS55_00805	COG1493	Catalyzes the ATP- as well as the pyrophosphate- dependent phosphorylation of a specific serine residue in HPr, a phosphocarrier protein of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS). HprK P also catalyzes the pyrophosphate-producing, inorganic phosphate-dependent dephosphorylation (phosphorolysis) of seryl-phosphorylated HPr (P- Ser-HPr). The two antagonistic activities of HprK P are regulated by several intracellular metabolites, which change their concentration in response to the absence or presence of rapidly metabolisable carbon sources (glucose, fructose, etc.) in the growth medium. Therefore, by controlling the phosphorylation state of HPr, HPrK P is a sensor enzyme that plays a major role in the regulation of carbon metabolism and sugar transport it mediates carbon catabolite repression (CCR), and regulates PTS-catalyzed carbohydrate uptake and inducer exclusion
APS55_00810	COG1950	PFAM Membrane protein of
APS55_00815	COG1983	PspC domain protein
APS55_00820	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
APS55_00825	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
APS55_00830	COG0653	protein targeting
APS55_00840	COG4098	Superfamily II DNA RNA helicase required for DNA uptake (late competence protein)
APS55_00845	COG1739	Uncharacterized protein family UPF0029
APS55_00850	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
APS55_00855	COG0459	protein refolding
APS55_00860	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
APS55_00865	COG2344	Modulates transcription in response to changes in cellular NADH NAD( ) redox state
APS55_00870	COG0488	(ABC) transporter
APS55_00875	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
APS55_00885	COG1214	PFAM Peptidase M22, glycoprotease
APS55_00895	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
APS55_00900	COG4467	Involved in initiation control of chromosome replication
APS55_00905	COG0470	DNA polymerase III
APS55_00910	COG3870	Protein conserved in bacteria
APS55_00915	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
APS55_00935	COG2812	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity
APS55_00945	COG2813	Specifically methylates the guanine in position
APS55_00950	COG0695	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
APS55_00955	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
APS55_00960	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
APS55_00965	COG0392	lysyltransferase activity
APS55_00965	COG2898	Catalyzes the transfer of a lysyl group from L-lysyl- tRNA(Lys) to membrane-bound phosphatidylglycerol (PG), which produces lysylphosphatidylglycerol (LPG), a major component of the bacterial membrane with a positive net charge. LPG synthesis contributes to bacterial virulence as it is involved in the resistance mechanism against cationic antimicrobial peptides (CAMP) produces by the host's immune system (defensins, cathelicidins) and by the competing microorganisms
APS55_00970	COG0222	ribosome binding
APS55_00975	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
APS55_00980	COG0081	regulation of translation
APS55_00985	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
APS55_00990	COG0250	Participates in transcription elongation, termination and antitermination
APS55_00995	COG0690	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
APS55_01000	COG0267	Belongs to the bacterial ribosomal protein bL33 family
APS55_01010	COG3688	RNA-binding protein containing a PIN domain
APS55_01015	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
APS55_01020	COG1939	Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc)
APS55_01025	COG0215	cysteine-tRNA ligase activity
APS55_01030	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)
APS55_01035	COG4956	integral membrane protein (PIN domain superfamily)
APS55_01040	COG1066	DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function
APS55_01045	COG0756	dUTP diphosphatase activity
APS55_01050	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
APS55_01060	COG0588	phosphoglycerate mutase activity
APS55_01065	COG0697	spore germination
APS55_01070	COG1316	TRANSCRIPTIONal
APS55_01090	COG0083	homoserine kinase activity
APS55_01095	COG3091	SprT-like family
APS55_01100	COG2183	response to ionizing radiation
APS55_01115	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
APS55_01125	COG2188	Transcriptional regulator
APS55_01130	COG0345	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline
APS55_01145	COG3104	oligopeptide transport
APS55_01185	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
APS55_01190	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
APS55_01195	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
APS55_01210	COG0037	tRNA processing
APS55_01215	COG1098	S1 RNA binding domain
APS55_01225	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
APS55_01230	COG2244	polysaccharide biosynthetic process
APS55_01235	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
APS55_01240	COG0193	aminoacyl-tRNA hydrolase activity
APS55_01245	COG0039	L-malate dehydrogenase activity
APS55_01255	COG2337	Toxic component of a toxin-antitoxin (TA) module
APS55_01265	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
APS55_01275	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
APS55_01285	COG0254	rRNA binding
APS55_01290	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
APS55_01295	COG0504	CTP synthase activity
APS55_01300	COG3343	RNA polymerase activity
APS55_01310	COG1078	dGTPase activity
APS55_01315	COG0561	phosphatase activity
APS55_01325	COG0462	Involved in the biosynthesis of the central metabolite phospho-alpha-D-ribosyl-1-pyrophosphate (PRPP) via the transfer of pyrophosphoryl group from ATP to 1-hydroxyl of ribose-5-phosphate (Rib-5-P)
APS55_01330	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
APS55_01335	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
APS55_01340	COG1947	Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol
APS55_01345	COG4466	Protein conserved in bacteria
APS55_01350	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
APS55_01360	COG0084	hydrolase, TatD family'
APS55_01365	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
APS55_01365	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
APS55_01370	COG1801	Protein of unknown function DUF72
APS55_01375	COG0846	NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form
APS55_01390	COG0248	Ppx GppA phosphatase
APS55_01400	COG3973	AAA domain
APS55_01405	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
APS55_01435	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)
APS55_01445	COG2814	Major facilitator Superfamily
APS55_01470	COG0588	phosphoglycerate mutase activity
APS55_01475	COG0628	permease
APS55_01480	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
APS55_01505	COG1686	Belongs to the peptidase S11 family
APS55_01510	COG5002	protein histidine kinase activity
APS55_01520	COG0516	GMP reductase activity
APS55_01520	COG0517	IMP dehydrogenase activity
APS55_01530	COG0012	GTP binding
APS55_01535	COG4481	Protein conserved in bacteria
APS55_01540	COG1475	DNA binding
APS55_01545	COG1192	Involved in chromosome partitioning
APS55_01550	COG0357	Ribosomal RNA small subunit methyltransferase G
APS55_01560	COG1972	Belongs to the concentrative nucleoside transporter (CNT) (TC 2.A.41) family
APS55_01565	COG1015	Phosphotransfer between the C1 and C5 carbon atoms of pentose
APS55_01595	COG2801	Transposase and inactivated derivatives
APS55_01620	COG0583	DNA-binding transcription factor activity
APS55_01655	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
APS55_01675	COG0438	transferase activity, transferring glycosyl groups
APS55_01720	COG2801	Transposase and inactivated derivatives
APS55_01735	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
APS55_01740	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
APS55_01745	COG0516	GMP reductase activity
APS55_01750	COG3764	Sortase (surface protein transpeptidase)
APS55_01755	COG0167	dihydroorotate dehydrogenase activity
APS55_01760	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
APS55_01765	COG0505	Belongs to the CarA family
APS55_01775	COG0540	Belongs to the ATCase OTCase family
APS55_01780	COG1388	LysM domain
APS55_01780	COG3584	3D domain protein
APS55_01790	COG1757	Na H antiporter
APS55_01795	COG3118	belongs to the thioredoxin family
APS55_01800	COG0861	Integral membrane protein TerC family
APS55_01805	COG1705	Flagellar rod assembly protein muramidase FlgJ
APS55_01830	COG1368	sulfuric ester hydrolase activity
APS55_01840	COG0492	ferredoxin-NADP+ reductase activity
APS55_01860	COG1393	Belongs to the ArsC family
APS55_01865	COG0737	Belongs to the 5'-nucleotidase family
APS55_01870	COG1418	mRNA catabolic process
APS55_01885	COG0004	ammonium transporteR
APS55_01905	COG0564	pseudouridine synthase activity
APS55_01915	COG2188	Transcriptional regulator
APS55_01930	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
APS55_01935	COG1418	mRNA catabolic process
APS55_01945	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
APS55_01950	COG0656	L-ascorbic acid biosynthetic process
APS55_01960	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
APS55_01975	COG1268	BioY protein
APS55_01985	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
APS55_01995	COG0789	Transcriptional regulator
APS55_02015	COG0789	Transcriptional regulator
APS55_02020	COG0656	L-ascorbic acid biosynthetic process
APS55_02030	COG1131	(ABC) transporter
APS55_02060	COG0531	amino acid
APS55_02065	COG1063	alcohol dehydrogenase
APS55_02070	COG2801	Transposase and inactivated derivatives
APS55_02110	COG1695	Transcriptional regulator
APS55_02120	COG1940	carbohydrate kinase activity
APS55_02125	COG0166	Belongs to the GPI family
APS55_02150	COG0789	Transcriptional regulator
APS55_02160	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
APS55_02190	COG2801	Transposase and inactivated derivatives
APS55_02255	COG0071	Belongs to the small heat shock protein (HSP20) family
APS55_02260	COG0071	Belongs to the small heat shock protein (HSP20) family
APS55_02270	COG5002	protein histidine kinase activity
APS55_02275	COG0745	RESPONSE REGULATOR receiver
APS55_02285	COG1807	4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family
APS55_02290	COG0463	Glycosyl transferase, family 2
APS55_02310	COG1253	flavin adenine dinucleotide binding
APS55_02320	COG2814	Major facilitator Superfamily
APS55_02330	COG0362	Catalyzes the oxidative decarboxylation of 6- phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH
APS55_02335	COG2132	Multicopper oxidase
APS55_02340	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
APS55_02345	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
APS55_02350	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
APS55_02360	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
APS55_02365	COG0505	Belongs to the CarA family
APS55_02370	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
APS55_02395	COG0183	Belongs to the thiolase family
APS55_02410	COG1376	ErfK ybiS ycfS ynhG family protein
APS55_02425	COG0819	Catalyzes an amino-pyrimidine hydrolysis reaction at the C5' of the pyrimidine moiety of thiamine compounds, a reaction that is part of a thiamine salvage pathway
APS55_02430	COG0351	phosphomethylpyrimidine kinase
APS55_02435	COG0352	thiamine-phosphate diphosphorylase activity
APS55_02440	COG2145	Catalyzes the phosphorylation of the hydroxyl group of 4-methyl-5-beta-hydroxyethylthiazole (THZ)
APS55_02450	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
APS55_02460	COG2211	Major facilitator Superfamily
APS55_02475	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
APS55_02480	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
APS55_02490	COG0589	response to stress
APS55_02495	COG1914	H( )-stimulated, divalent metal cation uptake system
APS55_02525	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
APS55_02530	COG1235	May be involved in the transport of PQQ or its precursor to the periplasm
APS55_02545	COG5002	protein histidine kinase activity
APS55_02550	COG0745	RESPONSE REGULATOR receiver
APS55_02565	COG2189	Belongs to the N(4) N(6)-methyltransferase family
APS55_02605	COG1328	CTP reductase activity
APS55_02615	COG0396	ATPase activity
APS55_02620	COG0719	Fe-S assembly protein
APS55_02625	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
APS55_02635	COG0719	Fe-S assembly protein
APS55_02640	COG1027	Aspartate ammonia-lyase
APS55_02655	COG1846	Transcriptional regulator
APS55_02665	COG0436	Aminotransferase
APS55_02670	COG4166	transmembrane transport
APS55_02675	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
APS55_02685	COG0305	Participates in initiation and elongation during chromosome replication
APS55_02690	COG0359	binds to the 23S rRNA
APS55_02705	COG0629	single-stranded DNA binding
APS55_02710	COG0360	Binds together with S18 to 16S ribosomal RNA
APS55_02730	COG0187	DNA topoisomerase II activity
APS55_02735	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
APS55_02740	COG2501	S4 domain
APS55_02750	COG0592	DNA-directed DNA polymerase activity
APS55_02755	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
APS55_02760	COG0230	Belongs to the bacterial ribosomal protein bL34 family
APS55_02765	COG0594	ribonuclease P activity
APS55_02770	COG0706	membrane insertase activity
APS55_02775	COG1847	R3H domain protein
APS55_02780	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
APS55_02785	COG0445	tRNA wobble uridine modification
APS55_02795	COG0681	Belongs to the peptidase S26 family
APS55_02825	COG0137	argininosuccinate synthase activity
APS55_02830	COG0165	Argininosuccinate lyase
APS55_02835	COG0765	amino acid transport
APS55_02840	COG1126	abc transporter atp-binding protein
APS55_02860	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
APS55_02865	COG1897	L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine
APS55_02870	COG2873	o-acetylhomoserine
APS55_02880	COG0460	homoserine dehydrogenase
APS55_02890	COG2801	Transposase and inactivated derivatives
APS55_02910	COG0461	Catalyzes the transfer of a ribosyl phosphate group from 5-phosphoribose 1-diphosphate to orotate, leading to the formation of orotidine monophosphate (OMP)
APS55_02915	COG0284	orotidine-5'-phosphate decarboxylase activity
APS55_02920	COG2814	Major facilitator Superfamily
APS55_02930	COG2801	Transposase and inactivated derivatives
APS55_02950	COG4991	sh3 domain protein
APS55_02950	COG3103	Sh3 type 3 domain protein
APS55_02950	COG0860	N-Acetylmuramoyl-L-alanine amidase
APS55_02955	COG1121	(ABC) transporter
APS55_02960	COG1108	ABC-type Mn2 Zn2 transport systems permease components
APS55_02975	COG1309	transcriptional regulator
APS55_02980	COG0481	GTPase activity
APS55_02985	COG0346	lactoylglutathione lyase activity
APS55_02995	COG1940	carbohydrate kinase activity
APS55_03000	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
APS55_03005	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
APS55_03010	COG0328	RNA-DNA hybrid ribonuclease activity
APS55_03020	COG2252	PERMEase
APS55_03025	COG0667	Aldo Keto reductase
APS55_03040	COG1113	amino acid transport
APS55_03045	COG1113	amino acid transport
APS55_03070	COG3857	The heterodimer acts as both an ATP-dependent DNA helicase and an ATP-dependent, dual-direction single-stranded exonuclease. Recognizes the chi site generating a DNA molecule suitable for the initiation of homologous recombination
APS55_03075	COG1074	ATP-dependent DNA helicase activity
APS55_03085	COG4152	abc transporter atp-binding protein
APS55_03090	COG1012	belongs to the aldehyde dehydrogenase family
APS55_03090	COG1454	alcohol dehydrogenase
APS55_03100	COG2855	membrane
APS55_03110	COG2814	Major facilitator Superfamily
APS55_03120	COG1126	abc transporter atp-binding protein
APS55_03125	COG0765	amino acid transport
APS55_03155	COG0583	DNA-binding transcription factor activity
APS55_03170	COG2801	Transposase and inactivated derivatives
APS55_03180	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
APS55_03185	COG1126	abc transporter atp-binding protein
APS55_03190	COG0765	amino acid transport
APS55_03195	COG0668	transmembrane transport
APS55_03200	COG0668	transmembrane transport
APS55_03215	COG1136	(ABC) transporter
APS55_03215	COG0577	efflux transmembrane transporter activity
APS55_03245	COG0446	pyridine nucleotide-disulphide oxidoreductase
APS55_03260	COG1136	(ABC) transporter
APS55_03285	COG0584	glycerophosphoryl diester phosphodiesterase
APS55_03300	COG2801	Transposase and inactivated derivatives
APS55_03325	COG0083	homoserine kinase activity
APS55_03335	COG0460	homoserine dehydrogenase
APS55_03365	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
APS55_03370	COG1476	TRANSCRIPTIONal
APS55_03390	COG5263	repeat protein
APS55_03390	COG0366	Alpha amylase catalytic
APS55_03405	COG1686	Belongs to the peptidase S11 family
APS55_03410	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
APS55_03415	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
APS55_03420	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
APS55_03435	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
APS55_03440	COG0034	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine
APS55_03445	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
APS55_03450	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
APS55_03455	COG0138	bifunctional purine biosynthesis protein purh
APS55_03460	COG0151	Belongs to the GarS family
APS55_03470	COG2814	Major facilitator Superfamily
APS55_03480	COG1959	2 iron, 2 sulfur cluster binding
APS55_03485	COG0702	epimerase
APS55_03505	COG0028	Belongs to the TPP enzyme family
APS55_03525	COG2801	Transposase and inactivated derivatives
APS55_03570	COG0693	protein deglycase activity
APS55_03580	COG2801	Transposase and inactivated derivatives
APS55_03590	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
APS55_03595	COG3527	Alpha-acetolactate decarboxylase
APS55_03605	COG1388	LysM domain
APS55_03625	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
APS55_03630	COG4166	transmembrane transport
APS55_03655	COG3279	Response regulator of the LytR AlgR family
APS55_03680	COG0114	fumarate hydratase activity
APS55_03705	COG1704	LemA family
APS55_03715	COG1114	Component of the transport system for branched-chain amino acids
APS55_03725	COG1114	Component of the transport system for branched-chain amino acids
APS55_03735	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
APS55_03755	COG1914	H( )-stimulated, divalent metal cation uptake system
APS55_03760	COG1316	TRANSCRIPTIONal
APS55_03770	COG0489	protein tyrosine kinase activity
APS55_03775	COG4464	protein tyrosine phosphatase activity
APS55_03780	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
APS55_03785	COG0297	glycogen (starch) synthase activity
APS55_03785	COG0438	transferase activity, transferring glycosyl groups
APS55_03790	COG1215	transferase activity, transferring glycosyl groups
APS55_03825	COG4166	transmembrane transport
APS55_03835	COG0366	Alpha amylase catalytic
APS55_03835	COG5263	repeat protein
APS55_03840	COG0366	Alpha amylase catalytic
APS55_03840	COG5263	repeat protein
APS55_03850	COG0446	pyridine nucleotide-disulphide oxidoreductase
APS55_03860	COG2801	Transposase and inactivated derivatives
APS55_03870	COG0531	amino acid
APS55_03875	COG1113	amino acid transport
APS55_03880	COG1113	amino acid transport
APS55_03885	COG1846	Transcriptional regulator
APS55_03900	COG1131	(ABC) transporter
APS55_03910	COG1272	protein, Hemolysin III
APS55_03955	COG0702	epimerase
APS55_03960	COG0488	(ABC) transporter
APS55_03985	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
APS55_03990	COG0778	Nitroreductase
APS55_03995	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
APS55_04000	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
APS55_04005	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
APS55_04010	COG1028	Short-chain dehydrogenase reductase Sdr
APS55_04020	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
APS55_04025	COG0439	Biotin carboxylase
APS55_04030	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
APS55_04035	COG0825	malonyl-CoA metabolic process
APS55_04040	COG0623	enoyl-[acyl-carrier-protein] reductase (NADH) activity
APS55_04050	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
APS55_04055	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
APS55_04060	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
APS55_04065	COG0656	L-ascorbic acid biosynthetic process
APS55_04070	COG0697	spore germination
APS55_04080	COG2409	Drug exporters of the RND superfamily
APS55_04080	COG1033	growth of symbiont in host cell
APS55_04090	COG0531	amino acid
APS55_04095	COG0697	spore germination
APS55_04140	COG1278	Cold shock
APS55_04150	COG4608	Belongs to the ABC transporter superfamily
APS55_04155	COG0601	transmembrane transport
APS55_04170	COG2249	NAD(P)H dehydrogenase (quinone) activity
APS55_04185	COG2801	Transposase and inactivated derivatives
APS55_04190	COG0351	phosphomethylpyrimidine kinase
APS55_04200	COG0110	maltose O-acetyltransferase activity
APS55_04210	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
APS55_04215	COG0024	Methionine aminopeptidase
APS55_04225	COG2814	Major facilitator Superfamily
APS55_04230	COG3590	peptidase
APS55_04260	COG0823	Involved in the tonB-independent uptake of proteins
APS55_04260	COG4946	Tricorn protease homolog
APS55_04260	COG1506	peptidase
APS55_04270	COG1464	Belongs to the NlpA lipoprotein family
APS55_04275	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
APS55_04280	COG2011	ABC-type metal ion transport system permease component
APS55_04300	COG0436	Aminotransferase
APS55_04305	COG1892	Catalyzes the irreversible beta-carboxylation of phosphoenolpyruvate (PEP) to form oxaloacetate (OAA), a four- carbon dicarboxylic acid source for the tricarboxylic acid cycle
APS55_04310	COG2814	Major facilitator Superfamily
APS55_04320	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
APS55_04325	COG0527	aspartate kinase activity
APS55_04330	COG0019	diaminopimelate decarboxylase activity
APS55_04335	COG2171	N-acyltransferase activity
APS55_04340	COG1473	amidohydrolase
APS55_04345	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
APS55_04350	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
APS55_04355	COG0436	Aminotransferase
APS55_04360	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
APS55_04365	COG0735	belongs to the Fur family
APS55_04375	COG2040	homocysteine
APS55_04380	COG0833	amino acid
APS55_04385	COG2706	6-phosphogluconolactonase activity
APS55_04400	COG1307	EDD domain protein, DegV family
APS55_04425	COG2233	PERMEase
APS55_04440	COG1131	(ABC) transporter
APS55_04455	COG2801	Transposase and inactivated derivatives
APS55_04475	COG1122	ATPase activity
APS55_04480	COG4721	ABC-type cobalt transport system, permease component
APS55_04485	COG1686	Belongs to the peptidase S11 family
APS55_04495	COG0531	amino acid
APS55_04500	COG0583	DNA-binding transcription factor activity
APS55_04510	COG2801	Transposase and inactivated derivatives
APS55_04535	COG2084	Dehydrogenase
APS55_04540	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
APS55_04545	COG4120	Belongs to the binding-protein-dependent transport system permease family
APS55_04555	COG0531	amino acid
APS55_04565	COG0488	(ABC) transporter
APS55_04575	COG2267	carboxylic ester hydrolase activity
APS55_04580	COG2936	dipeptidyl-peptidase activity
APS55_04590	COG0194	GDP metabolic process
APS55_04605	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
APS55_04610	COG4166	transmembrane transport
APS55_04615	COG0601	transmembrane transport
APS55_04620	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
APS55_04625	COG0444	Belongs to the ABC transporter superfamily
APS55_04630	COG4608	Belongs to the ABC transporter superfamily
APS55_04635	COG0406	alpha-ribazole phosphatase activity
APS55_04640	COG3973	AAA domain
APS55_04645	COG1072	(Pantothenic acid kinase))
APS55_04650	COG0519	Catalyzes the synthesis of GMP from XMP
APS55_04650	COG0518	GMP synthase (glutamine-hydrolyzing) activity
APS55_04655	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
APS55_04660	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
APS55_04665	COG0697	spore germination
APS55_04670	COG1064	alcohol dehydrogenase
APS55_04675	COG3839	Belongs to the ABC transporter superfamily
APS55_04680	COG1053	succinate dehydrogenase
APS55_04690	COG3338	carbonate dehydratase activity
APS55_04695	COG0564	pseudouridine synthase activity
APS55_04745	COG0730	response to heat
APS55_04765	COG0833	amino acid
APS55_04770	COG1428	Deoxynucleoside kinase
APS55_04775	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)
APS55_04820	COG4463	regulation of RNA biosynthetic process
APS55_04825	COG0542	response to heat
APS55_04830	COG0085	RNA polymerase activity
APS55_04835	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
APS55_04845	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
APS55_04850	COG0049	tRNA binding
APS55_04855	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
APS55_04860	COG0051	transcription antitermination factor activity, RNA binding
APS55_04865	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
APS55_04870	COG0088	Forms part of the polypeptide exit tunnel
APS55_04875	COG0089	rRNA binding
APS55_04880	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
APS55_04890	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
APS55_04895	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
APS55_04900	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
APS55_04915	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
APS55_04920	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
APS55_04925	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
APS55_04930	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
APS55_04935	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
APS55_04940	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
APS55_04950	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
APS55_04955	COG1841	ribosomal large subunit assembly
APS55_04960	COG0200	Binds to the 23S rRNA
APS55_04970	COG0563	adenylate kinase activity
APS55_04975	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
APS55_04985	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
APS55_04990	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
APS55_04995	COG0202	RNA polymerase activity
APS55_05000	COG0203	ribosomal protein L17
APS55_05010	COG1122	ATPase activity
APS55_05015	COG0619	Transmembrane (T) component of an energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates
APS55_05020	COG0101	tRNA pseudouridine synthase activity
APS55_05025	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
APS55_05030	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
APS55_05035	COG4684	Psort location CytoplasmicMembrane, score
APS55_05045	COG1705	Flagellar rod assembly protein muramidase FlgJ
APS55_05050	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
APS55_05060	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
APS55_05065	COG4851	CamS sex pheromone cAM373 precursor
APS55_05070	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)
APS55_05075	COG0154	amidase activity
APS55_05080	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)
APS55_05085	COG1597	lipid kinase activity
APS55_05090	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
APS55_05125	COG0531	amino acid
APS55_05130	COG1070	Carbohydrate kinase
APS55_05135	COG3757	hydrolase, family 25
APS55_05135	COG3409	Peptidoglycan-binding domain 1 protein
APS55_05160	COG0573	inorganic phosphate transmembrane transporter activity
APS55_05165	COG0581	inorganic phosphate transmembrane transporter activity
APS55_05175	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
APS55_05180	COG0704	Plays a role in the regulation of phosphate uptake
APS55_05185	COG0745	RESPONSE REGULATOR receiver
APS55_05195	COG2610	gluconate transmembrane transporter activity
APS55_05200	COG2246	polysaccharide biosynthetic process
APS55_05205	COG0463	Glycosyl transferase, family 2
APS55_05210	COG0381	UDP-N-acetylglucosamine 2-epimerase activity
APS55_05215	COG1295	ribonuclease BN
APS55_05220	COG0716	FMN binding
APS55_05225	COG2137	regulation of response to DNA damage stimulus
APS55_05230	COG0628	permease
APS55_05235	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
APS55_05240	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
APS55_05250	COG0542	response to heat
APS55_05260	COG0438	transferase activity, transferring glycosyl groups
APS55_05265	COG0438	transferase activity, transferring glycosyl groups
APS55_05275	COG1368	sulfuric ester hydrolase activity
APS55_05425	COG1234	tRNA 3'-trailer cleavage
APS55_05430	COG4862	establishment of competence for transformation
APS55_05440	COG1164	Oligoendopeptidase f
APS55_05450	COG2357	RelA SpoT domain protein
APS55_05455	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
APS55_05460	COG0564	pseudouridine synthase activity
APS55_05465	COG0500	methyltransferase
APS55_05475	COG1674	ftsk spoiiie
APS55_05485	COG0275	rRNA processing
APS55_05495	COG0768	penicillin binding
APS55_05500	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
APS55_05510	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)
APS55_05515	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
APS55_05530	COG1799	cell septum assembly
APS55_05540	COG3599	regulation of cell shape
APS55_05545	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)
APS55_05550	COG1278	Cold shock
APS55_05555	COG0494	nUDIX hydrolase
APS55_05565	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
APS55_05570	COG1104	cysteine desulfurase activity
APS55_05580	COG0482	sulfurtransferase activity
APS55_05595	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
APS55_05600	COG0462	Involved in the biosynthesis of the central metabolite phospho-alpha-D-ribosyl-1-pyrophosphate (PRPP) via the transfer of pyrophosphoryl group from ATP to 1-hydroxyl of ribose-5-phosphate (Rib-5-P)
APS55_05605	COG0667	Aldo Keto reductase
APS55_05615	COG1597	lipid kinase activity
APS55_05625	COG5503	Protein of unknown function (DUF1447)
APS55_05635	COG0242	peptide deformylase activity
APS55_05640	COG0039	L-malate dehydrogenase activity
APS55_05650	COG0483	inositol monophosphate 1-phosphatase activity
APS55_05655	COG1217	gtp-binding protein TYPA
APS55_05665	COG4471	UPF0298 protein
APS55_05670	COG0742	ribosomal rna small subunit methyltransferase
APS55_05675	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
APS55_05680	COG3480	Lon protease (S16) C-terminal proteolytic domain
APS55_05690	COG2131	deaminase
APS55_05695	COG0658	competence protein
APS55_05695	COG2333	competence protein COMEC
APS55_05700	COG1466	dna polymerase III delta subunit
APS55_05710	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
APS55_05725	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
APS55_05730	COG0544	peptidyl-prolyl cis-trans isomerase activity
APS55_05735	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
APS55_05740	COG0218	Necessary for normal cell division and for the maintenance of normal septation
APS55_05750	COG0322	excinuclease ABC activity
APS55_05755	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
APS55_05760	COG1234	tRNA 3'-trailer cleavage
APS55_05765	COG4199	Single-strand DNA-specific exonuclease, C terminal domain
APS55_05765	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
APS55_05770	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
APS55_05790	COG3425	synthase
APS55_05800	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
APS55_05805	COG4224	UPF0291 protein
APS55_05810	COG3763	UPF0154 protein
APS55_05815	COG0204	Acyl-transferase
APS55_05820	COG4123	Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC)
APS55_05825	COG2827	Endonuclease containing a URI domain
APS55_05830	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
APS55_05835	COG0052	Belongs to the universal ribosomal protein uS2 family
APS55_05840	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
APS55_05845	COG0528	UMP kinase activity
APS55_05850	COG0233	cytoplasmic translational termination
APS55_05860	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
APS55_05865	COG4589	Belongs to the CDS family
APS55_05870	COG0750	zinc metalloprotease
APS55_05875	COG0442	prolyl-tRNA aminoacylation
APS55_05880	COG2176	DNA-directed DNA polymerase activity
APS55_05885	COG0779	Required for maturation of 30S ribosomal subunits
APS55_05890	COG0195	Participates in both transcription termination and antitermination
APS55_05895	COG2740	Nucleic-acid-binding protein implicated in transcription termination
APS55_05905	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
APS55_05910	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
APS55_05915	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
APS55_05920	COG0196	riboflavin kinase activity
APS55_05925	COG1420	regulation of RNA biosynthetic process
APS55_05940	COG0484	heat shock protein binding
APS55_05945	COG0481	GTPase activity
APS55_05955	COG1887	Glycosyl glycerophosphate transferases involved in teichoic acid biosynthesis TagF TagB EpsJ RodC
APS55_05970	COG2264	protein methyltransferase activity
APS55_05975	COG1385	rRNA (uridine-N3-)-methyltransferase activity
APS55_05980	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
APS55_05985	COG1490	D-aminoacyl-tRNA deacylase activity
APS55_05990	COG0546	phosphoglycolate phosphatase activity
APS55_05995	COG3001	Fructosamine kinase
APS55_06000	COG0124	histidyl-tRNA synthetase
APS55_06005	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)
APS55_06010	COG2801	Transposase and inactivated derivatives
APS55_06020	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
APS55_06025	COG1887	Glycosyl glycerophosphate transferases involved in teichoic acid biosynthesis TagF TagB EpsJ RodC
APS55_06030	COG1682	transport, permease protein
APS55_06035	COG1887	Glycosyl glycerophosphate transferases involved in teichoic acid biosynthesis TagF TagB EpsJ RodC
APS55_06040	COG0648	Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin
APS55_06045	COG1806	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the
APS55_06050	COG0828	Belongs to the bacterial ribosomal protein bS21 family
APS55_06055	COG1610	YqeY-like protein
APS55_06060	COG1702	phosphate starvation-inducible protein PhoH
APS55_06065	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
APS55_06070	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
APS55_06075	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
APS55_06080	COG1381	Involved in DNA repair and RecF pathway recombination
APS55_06085	COG0752	glycyl-tRNA synthetase alpha subunit
APS55_06090	COG0751	glycine-tRNA ligase activity
APS55_06095	COG0358	DNA primase activity
APS55_06100	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
APS55_06105	COG2384	SAM-dependent methyltransferase
APS55_06110	COG0327	Belongs to the GTP cyclohydrolase I type 2 NIF3 family
APS55_06120	COG0542	response to heat
APS55_06130	COG0587	DNA-directed DNA polymerase activity
APS55_06140	COG2996	Protein conserved in bacteria
APS55_06150	COG0456	acetyltransferase
APS55_06160	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
APS55_06165	COG1187	pseudouridine synthase activity
APS55_06170	COG3601	Mediates riboflavin uptake, may also transport FMN and roseoflavin. Probably a riboflavin-binding protein that interacts with the energy-coupling factor (ECF) ABC-transporter complex. Unlike classic ABC transporters this ECF transporter provides the energy necessary to transport a number of different substrates. The substrates themselves are bound by transmembrane, not extracytoplasmic soluble proteins
APS55_06180	COG0514	ATP-dependent DNA helicase (RecQ)
APS55_06190	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
APS55_06195	COG0539	negative regulation of cytoplasmic translation
APS55_06200	COG1160	GTP binding
APS55_06225	COG0488	(ABC) transporter
APS55_06230	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
APS55_06240	COG2755	lipolytic protein G-D-S-L family
APS55_06265	COG0758	DNA mediated transformation
APS55_06270	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
APS55_06285	COG0706	membrane insertase activity
APS55_06290	COG1254	Belongs to the acylphosphatase family
APS55_06295	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
APS55_06305	COG1733	regulation of RNA biosynthetic process
APS55_06310	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
APS55_06315	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
APS55_06315	COG0072	phenylalanine-tRNA ligase activity
APS55_06320	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
APS55_06325	COG0572	uridine kinase
APS55_06330	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
APS55_06340	COG2801	Transposase and inactivated derivatives
APS55_06350	COG0768	penicillin binding
APS55_06355	COG0267	Belongs to the bacterial ribosomal protein bL33 family
APS55_06360	COG0212	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family
APS55_06365	COG0705	Rhomboid family
APS55_06375	COG1940	carbohydrate kinase activity
APS55_06390	COG2801	Transposase and inactivated derivatives
APS55_06400	COG0789	Transcriptional regulator
APS55_06420	COG0261	This protein binds to 23S rRNA in the presence of protein L20
APS55_06430	COG0211	Belongs to the bacterial ribosomal protein bL27 family
APS55_06435	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
APS55_06440	COG1302	Protein conserved in bacteria
APS55_06445	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
APS55_06450	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
APS55_06455	COG1570	exodeoxyribonuclease VII activity
APS55_06460	COG1722	exodeoxyribonuclease VII activity
APS55_06470	COG1189	Ribosomal RNA methyltransferase RrmJ FtsJ
APS55_06475	COG0497	DNA recombination
APS55_06480	COG0194	GDP metabolic process
APS55_06485	COG1758	RNA polymerase activity
APS55_06490	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
APS55_06495	COG1198	Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA
APS55_06500	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
APS55_06505	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
APS55_06505	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
APS55_06510	COG0631	protein serine/threonine phosphatase activity
APS55_06515	COG2815	serine threonine protein kinase
APS55_06515	COG0515	serine threonine protein kinase
APS55_06520	COG1162	GTPase activity
APS55_06525	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
APS55_06530	COG1564	THIamine pyrophosphokinase
APS55_06535	COG0227	Belongs to the bacterial ribosomal protein bL28 family
APS55_06540	COG1302	Protein conserved in bacteria
APS55_06545	COG1461	Dihydroxyacetone kinase
APS55_06550	COG1200	Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y-DNA)
APS55_06555	COG0416	fatty acid biosynthetic process
APS55_06560	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
APS55_06565	COG0571	ribonuclease III activity
APS55_06570	COG1196	nuclear chromosome segregation
APS55_06575	COG0552	protein localization to endoplasmic reticulum
APS55_06580	COG2739	Might take part in the signal recognition particle (SRP) pathway. This is inferred from the conservation of its genetic proximity to ftsY ffh. May be a regulatory protein
APS55_06585	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
APS55_06605	COG0228	four-way junction DNA binding
APS55_06615	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
APS55_06620	COG0336	Belongs to the RNA methyltransferase TrmD family
APS55_06625	COG0335	large ribosomal subunit rRNA binding
APS55_06635	COG1942	4-Oxalocrotonate Tautomerase
APS55_06645	COG0561	phosphatase activity
APS55_06650	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
APS55_06650	COG3270	Specifically methylates the cytosine at position 1407 (m5C1407) of 16S rRNA
APS55_06665	COG1304	FMN binding
APS55_06680	COG0153	Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P)
APS55_06705	COG3331	DNA recombination
APS55_06710	COG4474	Belongs to the UPF0398 family
APS55_06720	COG0116	Belongs to the methyltransferase superfamily
APS55_06725	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
APS55_06730	COG0328	RNA-DNA hybrid ribonuclease activity
APS55_06745	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
APS55_06750	COG0564	pseudouridine synthase activity
APS55_06755	COG2065	Also displays a weak uracil phosphoribosyltransferase activity which is not physiologically significant
APS55_06760	COG0505	Belongs to the CarA family
APS55_06785	COG0386	Belongs to the glutathione peroxidase family
APS55_06800	COG1307	EDD domain protein, DegV family
APS55_06805	COG1293	RNA-binding protein homologous to eukaryotic snRNP
APS55_06825	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
APS55_06835	COG1227	inorganic diphosphatase activity
APS55_06840	COG0583	DNA-binding transcription factor activity
APS55_06845	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
APS55_06850	COG0187	DNA topoisomerase II activity
APS55_06860	COG5002	protein histidine kinase activity
APS55_06865	COG0745	RESPONSE REGULATOR receiver
APS55_06870	COG0333	Belongs to the bacterial ribosomal protein bL32 family
APS55_06880	COG1323	Belongs to the UPF0348 family
APS55_06885	COG2226	methyltransferase
APS55_06890	COG0799	negative regulation of ribosome biogenesis
APS55_06895	COG1713	HD superfamily hydrolase involved in NAD metabolism
APS55_06900	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
APS55_06910	COG1161	Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity
APS55_06920	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
APS55_06925	COG0291	Belongs to the bacterial ribosomal protein bL35 family
APS55_06930	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
APS55_06935	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)
APS55_06940	COG1484	DNA-dependent DNA replication
APS55_06945	COG3611	Membrane attachment protein
APS55_06950	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
APS55_06955	COG0237	dephospho-CoA kinase activity
APS55_06960	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
APS55_06965	COG0258	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
APS55_06965	COG0749	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity
APS55_06975	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
APS55_06985	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
APS55_06990	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
APS55_06995	COG0220	tRNA (guanine-N7-)-methyltransferase activity
APS55_07005	COG1131	(ABC) transporter
APS55_07010	COG0537	adenosine 5'-monophosphoramidase activity
APS55_07020	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
APS55_07025	COG4717	serine-type aminopeptidase activity
APS55_07030	COG0420	3'-5' exonuclease activity
APS55_07035	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
APS55_07040	COG0018	arginyl-trna synthetase
APS55_07065	COG1794	racemase activity, acting on amino acids and derivatives
APS55_07080	COG0367	asparagine synthase
APS55_07085	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
APS55_07105	COG1428	Deoxynucleoside kinase
APS55_07115	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
APS55_07125	COG2244	polysaccharide biosynthetic process
APS55_07130	COG0495	leucyl-tRNA aminoacylation
APS55_07135	COG2519	Catalyzes the S-adenosyl-L-methionine-dependent formation of N(1)-methyladenine at position 58 (m1A58) in tRNA
APS55_07140	COG0477	Major facilitator Superfamily
APS55_07145	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
APS55_07225	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
APS55_07230	COG0586	Pfam SNARE associated Golgi protein
APS55_07240	COG2801	Transposase and inactivated derivatives
APS55_07250	COG0647	UMP catabolic process
APS55_07255	COG4470	Protein conserved in bacteria
APS55_07260	COG0737	Belongs to the 5'-nucleotidase family
APS55_07270	COG1113	amino acid transport
APS55_07280	COG0827	DNA restriction-modification system
APS55_07300	COG4537	Required for transformation and DNA binding
APS55_07310	COG2804	Type II secretory pathway, ATPase PulE Tfp pilus assembly pathway, ATPase PilB
APS55_07315	COG0217	transcriptional regulatory protein
APS55_07320	COG1609	Transcriptional regulator
APS55_07335	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
APS55_07345	COG1719	4-vinyl reductase, 4VR
APS55_07350	COG3118	belongs to the thioredoxin family
APS55_07355	COG1193	negative regulation of DNA recombination
APS55_07370	COG3906	Belongs to the UPF0473 family
APS55_07380	COG4472	Bacterial protein of unknown function (DUF965)
APS55_07385	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
APS55_07390	COG0513	Belongs to the DEAD box helicase family
APS55_07395	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
APS55_07400	COG1862	Preprotein translocase
APS55_07405	COG2255	four-way junction helicase activity
APS55_07415	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
APS55_07420	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
APS55_07425	COG1692	metallophosphoesterase
APS55_07435	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
APS55_07440	COG1546	Belongs to the CinA family
APS55_07440	COG1058	Belongs to the CinA family
APS55_07445	COG0558	Belongs to the CDP-alcohol phosphatidyltransferase class-I family
APS55_07450	COG1426	Protein conserved in bacteria
APS55_07455	COG0612	Peptidase, M16
APS55_07465	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
APS55_07470	COG1126	abc transporter atp-binding protein
APS55_07475	COG0765	amino acid transport
APS55_07480	COG2894	cell division
APS55_07485	COG0850	regulation of cytokinetic process
APS55_07500	COG1077	Cell shape determining protein MreB Mrl
APS55_07505	COG0285	dihydrofolate synthase activity
APS55_07510	COG0525	valine-tRNA ligase activity
APS55_07520	COG0301	tRNA thio-modification
APS55_07525	COG1104	cysteine desulfurase activity
APS55_07530	COG4477	modulates the frequency and position of FtsZ ring formation. Inhibits FtsZ ring formation at polar sites. Interacts either with FtsZ or with one of its binding partners to promote depolymerization
APS55_07535	COG1956	GAF domain-containing protein
APS55_07540	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
APS55_07550	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
APS55_07560	COG0589	response to stress
APS55_07570	COG0519	Catalyzes the synthesis of GMP from XMP
APS55_07575	COG1181	Belongs to the D-alanine--D-alanine ligase family
APS55_07585	COG1131	(ABC) transporter
APS55_07590	COG2188	Transcriptional regulator
APS55_07595	COG1464	Belongs to the NlpA lipoprotein family
APS55_07600	COG2011	ABC-type metal ion transport system permease component
APS55_07605	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
APS55_07610	COG0772	Belongs to the SEDS family
APS55_07620	COG1077	Cell shape determining protein MreB Mrl
APS55_07625	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
APS55_07635	COG0355	proton-transporting ATP synthase activity, rotational mechanism
APS55_07640	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
APS55_07645	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