locus-tag	class	description
ALFP_0002	COG0592	DNA-directed DNA polymerase activity
ALFP_0004	COG1187	pseudouridine synthase activity
ALFP_0007	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
ALFP_0012	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
ALFP_0013	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
ALFP_0016	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
ALFP_0020	COG2070	2-Nitropropane dioxygenase
ALFP_0024	COG1804	L-carnitine dehydratase bile acid-inducible protein F
ALFP_0026	COG1804	L-carnitine dehydratase bile acid-inducible protein F
ALFP_0028	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
ALFP_0032	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
ALFP_0033	COG0583	DNA-binding transcription factor activity
ALFP_0036	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
ALFP_0038	COG0559	Belongs to the binding-protein-dependent transport system permease family
ALFP_0041	COG0318	PFAM AMP-dependent synthetase and ligase
ALFP_0043	COG0596	Alpha beta hydrolase
ALFP_0043	COG0508	dehydrogenase complex catalyzes the overall conversion of
ALFP_0044	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
ALFP_0047	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_0050	COG0697	spore germination
ALFP_0051	COG0583	DNA-binding transcription factor activity
ALFP_0053	COG3842	ATPase activity
ALFP_0057	COG0523	cobalamin synthesis protein
ALFP_0068	COG1846	Transcriptional regulator
ALFP_0072	COG0179	Fumarylacetoacetate (FAA) hydrolase
ALFP_0073	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
ALFP_0074	COG1878	Catalyzes the hydrolysis of N-formyl-L-kynurenine to L- kynurenine, the second step in the kynurenine pathway of tryptophan degradation
ALFP_0076	COG4638	Rieske (2fe-2S)
ALFP_0081	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_0088	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_0090	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
ALFP_0092	COG2207	Transcriptional regulator
ALFP_0099	COG1595	DNA-templated transcription, initiation
ALFP_0100	COG4608	Belongs to the ABC transporter superfamily
ALFP_0101	COG0444	Belongs to the ABC transporter superfamily
ALFP_0102	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
ALFP_0105	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
ALFP_0107	COG4992	N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase activity
ALFP_0109	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
ALFP_0110	COG0431	NADPH-dependent FMN reductase
ALFP_0117	COG4149	molybdate abc transporter
ALFP_0119	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
ALFP_0121	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
ALFP_0123	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
ALFP_0127	COG0028	Belongs to the TPP enzyme family
ALFP_0128	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
ALFP_0132	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
ALFP_0132	COG0551	DNA topoisomerase type I activity
ALFP_0134	COG2922	Belongs to the Smg family
ALFP_0137	COG4799	Acetyl-CoA carboxylase, carboxyltransferase component subunits alpha and beta
ALFP_0138	COG0183	Belongs to the thiolase family
ALFP_0139	COG4579	[isocitrate dehydrogenase (NADP+)] phosphatase activity
ALFP_0140	COG1960	acyl-CoA dehydrogenase activity
ALFP_0144	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
ALFP_0146	COG0018	arginyl-trna synthetase
ALFP_0151	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)
ALFP_0153	COG1508	bacterial-type RNA polymerase transcriptional activator activity, sequence-specific DNA binding
ALFP_0154	COG4774	siderophore transport
ALFP_0155	COG0066	3-isopropylmalate dehydratase activity
ALFP_0156	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
ALFP_0157	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)
ALFP_0158	COG1804	L-carnitine dehydratase bile acid-inducible protein F
ALFP_0159	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
ALFP_0161	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
ALFP_0162	COG1335	isochorismatase
ALFP_0163	COG0583	DNA-binding transcription factor activity
ALFP_0167	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
ALFP_0168	COG1280	lysine exporter protein (LysE YggA)
ALFP_0169	COG0513	Belongs to the DEAD box helicase family
ALFP_0171	COG1512	COG1512 Beta-propeller domains of methanol dehydrogenase type
ALFP_0174	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
ALFP_0177	COG0154	amidase activity
ALFP_0181	COG0583	DNA-binding transcription factor activity
ALFP_0187	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
ALFP_0188	COG1127	ABC transporter
ALFP_0189	COG3218	ABC-type transport auxiliary lipoprotein component
ALFP_0189	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
ALFP_0192	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
ALFP_0193	COG1638	TRAP-type C4-dicarboxylate transport system periplasmic component
ALFP_0195	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
ALFP_0202	COG0583	DNA-binding transcription factor activity
ALFP_0207	COG4680	protein conserved in bacteria
ALFP_0209	COG1254	Belongs to the acylphosphatase family
ALFP_0213	COG0564	pseudouridine synthase activity
ALFP_0214	COG0252	asparaginase activity
ALFP_0219	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
ALFP_0220	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
ALFP_0221	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_0224	COG0411	ABC transporter
ALFP_0225	COG0559	Belongs to the binding-protein-dependent transport system permease family
ALFP_0230	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
ALFP_0233	COG0758	DNA mediated transformation
ALFP_0234	COG0242	peptide deformylase activity
ALFP_0235	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
ALFP_0236	COG0697	spore germination
ALFP_0239	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
ALFP_0242	COG4336	lyase activity
ALFP_0243	COG0583	DNA-binding transcription factor activity
ALFP_0244	COG0859	PFAM glycosyl transferase family 9
ALFP_0246	COG1278	Cold shock
ALFP_0247	COG1210	Utp--glucose-1-phosphate uridylyltransferase
ALFP_0249	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
ALFP_0250	COG1654	Acts both as a biotin-- acetyl-CoA-carboxylase ligase and a biotin-operon repressor. In the presence of ATP, BirA activates biotin to form the BirA-biotinyl-5'-adenylate (BirA-bio- 5'-AMP or holoBirA) complex. HoloBirA can either transfer the biotinyl moiety to the biotin carboxyl carrier protein (BCCP) subunit of acetyl-CoA carboxylase, or bind to the biotin operator site and inhibit transcription of the operon
ALFP_0250	COG0340	biotin-[acetyl-CoA-carboxylase] ligase activity
ALFP_0252	COG1686	Belongs to the peptidase S11 family
ALFP_0254	COG2921	Belongs to the UPF0250 family
ALFP_0255	COG0321	lipoyl(octanoyl) transferase activity
ALFP_0256	COG1024	Enoyl-CoA hydratase
ALFP_0257	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
ALFP_0259	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
ALFP_0270	COG0134	indole-3-glycerol-phosphate synthase activity
ALFP_0271	COG0547	Catalyzes the transfer of the phosphoribosyl group of 5- phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA)
ALFP_0272	COG0512	Glutamine amidotransferase of anthranilate synthase
ALFP_0274	COG0546	phosphoglycolate phosphatase activity
ALFP_0277	COG2967	ApaG domain
ALFP_0278	COG2821	murein-degrading enzyme. may play a role in recycling of muropeptides during cell elongation and or cell division
ALFP_0279	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
ALFP_0280	COG1651	Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
ALFP_0282	COG0840	transmembrane signaling receptor activity
ALFP_0284	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_0285	COG3433	isochorismatase activity
ALFP_0285	COG1535	isochorismatase
ALFP_0286	COG1169	isochorismate synthase
ALFP_0289	COG3319	amino acid activation for nonribosomal peptide biosynthetic process
ALFP_0289	COG1020	D-alanine [D-alanyl carrier protein] ligase activity
ALFP_0290	COG3433	isochorismatase activity
ALFP_0290	COG1535	isochorismatase
ALFP_0291	COG1021	2,3-dihydroxybenzoate-AMP ligase
ALFP_0293	COG0410	ABC transporter
ALFP_0294	COG0411	ABC transporter
ALFP_0297	COG0683	leucine binding
ALFP_0300	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
ALFP_0307	COG4559	Part of the ABC transporter complex HmuTUV involved in hemin import. Responsible for energy coupling to the transport system
ALFP_0308	COG0609	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
ALFP_0309	COG2819	hydrolase of the alpha beta superfamily
ALFP_0310	COG0513	Belongs to the DEAD box helicase family
ALFP_0311	COG2814	Major facilitator Superfamily
ALFP_0313	COG0583	DNA-binding transcription factor activity
ALFP_0315	COG1253	flavin adenine dinucleotide binding
ALFP_0322	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
ALFP_0324	COG2311	Membrane
ALFP_0331	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
ALFP_0335	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
ALFP_0336	COG4525	Part of the ABC transporter complex TauABC involved in taurine import. Responsible for energy coupling to the transport system
ALFP_0338	COG0583	DNA-binding transcription factor activity
ALFP_0339	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
ALFP_0341	COG0765	amino acid transport
ALFP_0342	COG0765	amino acid transport
ALFP_0346	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
ALFP_0349	COG3391	amine dehydrogenase activity
ALFP_0351	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
ALFP_0356	COG0407	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III
ALFP_0357	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
ALFP_0358	COG0210	DNA helicase
ALFP_0362	COG0067	glutamate synthase
ALFP_0362	COG0069	glutamate synthase activity
ALFP_0362	COG0070	glutamate synthase
ALFP_0364	COG1024	Enoyl-CoA hydratase
ALFP_0366	COG1804	L-carnitine dehydratase bile acid-inducible protein F
ALFP_0367	COG1250	3-hydroxyacyl-CoA dehydrogenase
ALFP_0373	COG2918	glutathione biosynthetic process
ALFP_0376	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
ALFP_0378	COG2223	nitrite transmembrane transporter activity
ALFP_0379	COG2860	membrane
ALFP_0380	COG1346	cytolysis
ALFP_0383	COG0251	oxidation-reduction process
ALFP_0386	COG5295	Hep Hag repeat protein
ALFP_0390	COG1280	lysine exporter protein (LysE YggA)
ALFP_0396	COG0161	adenosylmethionine-8-amino-7-oxononanoate transaminase activity
ALFP_0399	COG2096	Adenosyltransferase
ALFP_0402	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
ALFP_0403	COG5405	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery
ALFP_0404	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
ALFP_0405	COG0523	cobalamin synthesis protein
ALFP_0406	COG0735	belongs to the Fur family
ALFP_0408	COG1108	ABC-type Mn2 Zn2 transport systems permease components
ALFP_0409	COG0803	Belongs to the bacterial solute-binding protein 9 family
ALFP_0410	COG4973	Belongs to the 'phage' integrase family. XerC subfamily
ALFP_0412	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
ALFP_0413	COG1560	Kdo2-lipid A biosynthetic process
ALFP_0415	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
ALFP_0416	COG0499	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine
ALFP_0417	COG1950	PFAM Membrane protein of
ALFP_0424	COG0275	rRNA processing
ALFP_0425	COG0730	response to heat
ALFP_0426	COG2352	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle
ALFP_0427	COG0129	dihydroxy-acid dehydratase activity
ALFP_0428	COG0171	NAD+ synthase (glutamine-hydrolyzing) activity
ALFP_0432	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_0434	COG0628	permease
ALFP_0451	COG0553	Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair
ALFP_0456	COG4804	nuclease activity
ALFP_0459	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
ALFP_0462	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_0467	COG1021	2,3-dihydroxybenzoate-AMP ligase
ALFP_0470	COG2814	Major facilitator Superfamily
ALFP_0472	COG0656	L-ascorbic acid biosynthetic process
ALFP_0473	COG2814	Major facilitator Superfamily
ALFP_0474	COG0583	DNA-binding transcription factor activity
ALFP_0476	COG3685	Protein conserved in bacteria
ALFP_0481	COG1846	Transcriptional regulator
ALFP_0484	COG4774	siderophore transport
ALFP_0485	COG4607	ABC-type enterochelin transport system periplasmic component
ALFP_0486	COG4604	ABC transporter, ATP-binding protein
ALFP_0487	COG4605	iron ion homeostasis
ALFP_0488	COG4606	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
ALFP_0492	COG0277	FAD linked oxidase domain protein
ALFP_0493	COG1304	FMN binding
ALFP_0494	COG2186	Transcriptional regulator
ALFP_0498	COG2188	Transcriptional regulator
ALFP_0499	COG1522	sequence-specific DNA binding
ALFP_0500	COG3844	kynureninase activity
ALFP_0501	COG1113	amino acid transport
ALFP_0507	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_0508	COG1349	DNA-binding transcription factor activity
ALFP_0509	COG3842	ATPase activity
ALFP_0512	COG0395	ABC-type sugar transport system, permease component
ALFP_0517	COG0861	Integral membrane protein TerC family
ALFP_0518	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
ALFP_0520	COG1671	Belongs to the UPF0178 family
ALFP_0522	COG1418	mRNA catabolic process
ALFP_0524	COG4948	Mandelate Racemase Muconate Lactonizing
ALFP_0526	COG0477	Major facilitator Superfamily
ALFP_0529	COG0154	amidase activity
ALFP_0531	COG0583	DNA-binding transcription factor activity
ALFP_0536	COG0326	Molecular chaperone. Has ATPase activity
ALFP_0537	COG4774	siderophore transport
ALFP_0538	COG3128	pkhd-type hydroxylase
ALFP_0543	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
ALFP_0544	COG1652	LysM domain
ALFP_0547	COG0220	tRNA (guanine-N7-)-methyltransferase activity
ALFP_0551	COG1535	isochorismatase
ALFP_0551	COG3433	isochorismatase activity
ALFP_0557	COG0583	DNA-binding transcription factor activity
ALFP_0558	COG0387	Pfam Sodium calcium exchanger
ALFP_0559	COG0745	RESPONSE REGULATOR receiver
ALFP_0559	COG3706	GGDEF domain
ALFP_0561	COG0477	Major facilitator Superfamily
ALFP_0562	COG0235	Class ii aldolase
ALFP_0564	COG3391	amine dehydrogenase activity
ALFP_0565	COG0590	tRNA wobble adenosine to inosine editing
ALFP_0566	COG3257	ureidoglycine aminohydrolase activity
ALFP_0567	COG0583	DNA-binding transcription factor activity
ALFP_0568	COG0053	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family
ALFP_0569	COG0143	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
ALFP_0569	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
ALFP_0571	COG0489	protein tyrosine kinase activity
ALFP_0574	COG0717	Belongs to the dCTP deaminase family
ALFP_0575	COG1982	Orn Lys Arg decarboxylase major
ALFP_0576	COG2081	HI0933 family
ALFP_0577	COG0509	glycine decarboxylation via glycine cleavage system
ALFP_0579	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
ALFP_0580	COG1765	OsmC-like protein
ALFP_0581	COG3278	Belongs to the heme-copper respiratory oxidase family
ALFP_0586	COG2941	Oxygenase that introduces the hydroxyl group at carbon five of 2-nonaprenyl-3-methyl-6-methoxy-1,4-benzoquinol resulting in the formation of 2-nonaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4- benzoquinol
ALFP_0587	COG0469	pyruvate kinase activity
ALFP_0588	COG3193	protein, possibly involved in utilization of glycolate and propanediol
ALFP_0590	COG2084	Dehydrogenase
ALFP_0591	COG3622	Belongs to the hyi family
ALFP_0592	COG3960	tartronate-semialdehyde synthase activity
ALFP_0593	COG0583	DNA-binding transcription factor activity
ALFP_0595	COG2233	PERMEase
ALFP_0596	COG1942	4-Oxalocrotonate Tautomerase
ALFP_0597	COG0235	Class ii aldolase
ALFP_0599	COG3195	allantoin biosynthetic process
ALFP_0599	COG3648	Uricase
ALFP_0601	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
ALFP_0602	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
ALFP_0605	COG0438	transferase activity, transferring glycosyl groups
ALFP_0607	COG0438	transferase activity, transferring glycosyl groups
ALFP_0609	COG0277	FAD linked oxidase domain protein
ALFP_0611	COG0179	Fumarylacetoacetate (FAA) hydrolase
ALFP_0612	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
ALFP_0614	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
ALFP_0616	COG0266	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
ALFP_0618	COG3017	Plays a critical role in the incorporation of lipoproteins in the outer membrane after they are released by the LolA protein
ALFP_0620	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)
ALFP_0621	COG1825	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
ALFP_0622	COG0193	aminoacyl-tRNA hydrolase activity
ALFP_0624	COG0012	GTP binding
ALFP_0631	COG0488	(ABC) transporter
ALFP_0634	COG0288	reversible hydration of carbon dioxide
ALFP_0635	COG0583	DNA-binding transcription factor activity
ALFP_0637	COG4133	protoheme IX ABC transporter activity
ALFP_0641	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
ALFP_0643	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
ALFP_0644	COG3088	subunit of a heme lyase
ALFP_0645	COG4235	cytochrome complex assembly
ALFP_0646	COG0785	Cytochrome C biogenesis protein
ALFP_0648	COG2169	Transcriptional regulator
ALFP_0648	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
ALFP_0652	COG0559	Belongs to the binding-protein-dependent transport system permease family
ALFP_0654	COG0411	ABC transporter
ALFP_0655	COG0410	ABC transporter
ALFP_0656	COG1858	cytochrome C peroxidase
ALFP_0657	COG0111	D-isomer specific 2-hydroxyacid dehydrogenase
ALFP_0658	COG1959	2 iron, 2 sulfur cluster binding
ALFP_0659	COG2346	COG2346, Truncated hemoglobins
ALFP_0660	COG0463	Glycosyl transferase, family 2
ALFP_0668	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
ALFP_0669	COG3383	formate dehydrogenase (NAD+) activity
ALFP_0672	COG1910	domain protein
ALFP_0673	COG2896	Catalyzes the cyclization of GTP to (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate
ALFP_0675	COG0303	'Molybdopterin
ALFP_0676	COG0521	Mo-molybdopterin cofactor biosynthetic process
ALFP_0677	COG0314	molybdopterin synthase activity
ALFP_0679	COG0315	cyclic pyranopterin monophosphate synthase activity
ALFP_0685	COG0678	peroxiredoxin activity
ALFP_0688	COG0697	spore germination
ALFP_0689	COG0502	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism
ALFP_0700	COG0815	Transfers the fatty acyl group on membrane lipoproteins
ALFP_0701	COG4535	Mg2 and Co2 transporter CorC
ALFP_0702	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
ALFP_0703	COG1702	phosphate starvation-inducible protein PhoH
ALFP_0704	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
ALFP_0706	COG0024	Methionine aminopeptidase
ALFP_0707	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
ALFP_0708	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
ALFP_0709	COG1862	Preprotein translocase
ALFP_0710	COG0343	queuine tRNA-ribosyltransferase activity
ALFP_0711	COG0809	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)
ALFP_0712	COG2027	D-alanyl-D-alanine carboxypeptidase
ALFP_0713	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
ALFP_0715	COG4575	ribosome binding
ALFP_0718	COG0583	DNA-binding transcription factor activity
ALFP_0721	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
ALFP_0724	COG0154	amidase activity
ALFP_0726	COG0477	Major facilitator Superfamily
ALFP_0729	COG0043	3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity
ALFP_0731	COG0436	Aminotransferase
ALFP_0734	COG0281	malic enzyme
ALFP_0734	COG0280	phosphate acetyltransferase
ALFP_0736	COG2732	(Barnase) inhibitor
ALFP_0737	COG1385	rRNA (uridine-N3-)-methyltransferase activity
ALFP_0738	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
ALFP_0739	COG0057	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
ALFP_0740	COG0126	phosphoglycerate kinase activity
ALFP_0745	COG0521	Mo-molybdopterin cofactor biosynthetic process
ALFP_0747	COG0152	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity
ALFP_0748	COG0041	Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR)
ALFP_0749	COG0026	Catalyzes the ATP-dependent conversion of 5- aminoimidazole ribonucleotide (AIR) and HCO(3)(-) to N5- carboxyaminoimidazole ribonucleotide (N5-CAIR)
ALFP_0750	COG0009	L-threonylcarbamoyladenylate synthase
ALFP_0751	COG0596	Alpha beta hydrolase
ALFP_0752	COG1012	belongs to the aldehyde dehydrogenase family
ALFP_0752	COG2030	dehydratase
ALFP_0753	COG1960	acyl-CoA dehydrogenase activity
ALFP_0755	COG0405	Gamma-glutamyltransferase
ALFP_0757	COG0579	oxidoreductase
ALFP_0758	COG1853	conserved protein domain typically associated with flavoprotein oxygenases, DIM6 NTAB family
ALFP_0759	COG0259	pyridoxamine-phosphate oxidase activity
ALFP_0761	COG1179	involved in molybdopterin and THIamine biosynthesis family 1
ALFP_0764	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
ALFP_0766	COG1215	transferase activity, transferring glycosyl groups
ALFP_0768	COG0488	(ABC) transporter
ALFP_0772	COG0851	Prevents the cell division inhibition by proteins MinC and MinD at internal division sites while permitting inhibition at polar sites. This ensures cell division at the proper site by restricting the formation of a division septum at the midpoint of the long axis of the cell
ALFP_0773	COG2894	cell division
ALFP_0775	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)
ALFP_0776	COG1271	oxidase subunit
ALFP_0777	COG1294	oxidase, subunit
ALFP_0778	COG0038	chloride channel
ALFP_0780	COG0514	ATP-dependent DNA helicase (RecQ)
ALFP_0781	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
ALFP_0782	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
ALFP_0783	COG0633	Ferredoxin
ALFP_0785	COG2001	Belongs to the MraZ family
ALFP_0786	COG0275	rRNA processing
ALFP_0787	COG3116	cell division
ALFP_0789	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
ALFP_0790	COG0472	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
ALFP_0791	COG0771	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)
ALFP_0793	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)
ALFP_0794	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
ALFP_0795	COG1181	Belongs to the D-alanine--D-alanine ligase family
ALFP_0796	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
ALFP_0798	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
ALFP_0799	COG0774	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity
ALFP_0801	COG1196	nuclear chromosome segregation
ALFP_0801	COG0741	lytic transglycosylase activity
ALFP_0801	COG0739	heme binding
ALFP_0802	COG0653	protein targeting
ALFP_0804	COG2239	Acts as a magnesium transporter
ALFP_0805	COG1607	acyl-coa hydrolase
ALFP_0806	COG1473	amidohydrolase
ALFP_0807	COG0318	PFAM AMP-dependent synthetase and ligase
ALFP_0809	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
ALFP_0809	COG4121	Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34
ALFP_0811	COG1135	Part of the ABC transporter complex MetNIQ involved in methionine import. Responsible for energy coupling to the transport system
ALFP_0812	COG2011	ABC-type metal ion transport system permease component
ALFP_0814	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
ALFP_0815	COG0765	amino acid transport
ALFP_0816	COG1126	abc transporter atp-binding protein
ALFP_0821	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
ALFP_0822	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
ALFP_0823	COG0700	Nucleoside recognition
ALFP_0826	COG0204	Acyl-transferase
ALFP_0827	COG0241	D,D-heptose 1,7-bisphosphate phosphatase
ALFP_0828	COG0751	glycine-tRNA ligase activity
ALFP_0829	COG0752	glycyl-tRNA synthetase alpha subunit
ALFP_0831	COG1024	Enoyl-CoA hydratase
ALFP_0833	COG1309	transcriptional regulator
ALFP_0835	COG2814	Major facilitator Superfamily
ALFP_0838	COG1573	uracil-dna glycosylase
ALFP_0839	COG0801	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase
ALFP_0840	COG0617	tRNA 3'-terminal CCA addition
ALFP_0842	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
ALFP_0843	COG0150	phosphoribosylformylglycinamidine cyclo-ligase activity
ALFP_0844	COG1953	Uracil, thiamine, allantoin
ALFP_0845	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)
ALFP_0846	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
ALFP_0847	COG0586	Pfam SNARE associated Golgi protein
ALFP_0848	COG0860	N-Acetylmuramoyl-L-alanine amidase
ALFP_0849	COG0802	atpase or kinase
ALFP_0851	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_0852	COG0280	phosphate acetyltransferase
ALFP_0852	COG0281	malic enzyme
ALFP_0853	COG0583	DNA-binding transcription factor activity
ALFP_0854	COG1012	belongs to the aldehyde dehydrogenase family
ALFP_0855	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
ALFP_0864	COG1733	regulation of RNA biosynthetic process
ALFP_0865	COG2910	NAD(P)H-binding
ALFP_0867	COG2223	nitrite transmembrane transporter activity
ALFP_0869	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
ALFP_0870	COG4974	Belongs to the 'phage' integrase family
ALFP_0871	COG0725	ABC transporter, periplasmic molybdate-binding protein
ALFP_0872	COG4149	molybdate abc transporter
ALFP_0873	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
ALFP_0876	COG1074	ATP-dependent DNA helicase activity
ALFP_0879	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
ALFP_0882	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
ALFP_0886	COG3391	amine dehydrogenase activity
ALFP_0887	COG0176	Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway
ALFP_0888	COG0505	Belongs to the CarA family
ALFP_0889	COG0458	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
ALFP_0893	COG2233	PERMEase
ALFP_0894	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
ALFP_0895	COG1534	Rna-binding protein
ALFP_0896	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
ALFP_0897	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
ALFP_0899	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
ALFP_0901	COG0248	Ppx GppA phosphatase
ALFP_0902	COG0855	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)
ALFP_0906	COG1117	ATPase-coupled phosphate ion transmembrane transporter activity
ALFP_0907	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
ALFP_0910	COG0745	RESPONSE REGULATOR receiver
ALFP_0911	COG2205	protein histidine kinase activity
ALFP_0914	COG0583	DNA-binding transcription factor activity
ALFP_0916	COG1231	oxidoreductase activity
ALFP_0917	COG2010	Cytochrome c
ALFP_0918	COG2323	membrane
ALFP_0920	COG1368	sulfuric ester hydrolase activity
ALFP_0925	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
ALFP_0926	COG3327	negative regulation of DNA-templated transcription, initiation
ALFP_0927	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
ALFP_0929	COG0009	L-threonylcarbamoyladenylate synthase
ALFP_0930	COG1994	Peptidase M50
ALFP_0931	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
ALFP_0932	COG3317	Gram-negative-bacterium-type cell outer membrane assembly
ALFP_0935	COG0132	Catalyzes a mechanistically unusual reaction, the ATP- dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring
ALFP_0937	COG0156	8-amino-7-oxononanoate synthase activity
ALFP_0938	COG2124	cytochrome p450
ALFP_0940	COG3135	benzoate transporter
ALFP_0942	COG2850	peptidyl-arginine hydroxylation
ALFP_0943	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
ALFP_0945	COG3391	amine dehydrogenase activity
ALFP_0947	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
ALFP_0948	COG1136	(ABC) transporter
ALFP_0948	COG0577	efflux transmembrane transporter activity
ALFP_0949	COG1538	Outer membrane efflux protein
ALFP_0950	COG0363	glucosamine-6-phosphate deaminase activity
ALFP_0951	COG1132	(ABC) transporter
ALFP_0955	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
ALFP_0957	COG0668	transmembrane transport
ALFP_0959	COG0604	alcohol dehydrogenase
ALFP_0959	COG3321	synthase
ALFP_0959	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_0966	COG0154	amidase activity
ALFP_0970	COG1253	flavin adenine dinucleotide binding
ALFP_0971	COG1968	undecaprenyl-diphosphatase activity
ALFP_0974	COG2908	Hydrolyzes the pyrophosphate bond of UDP-2,3- diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate (lipid X) and UMP by catalyzing the attack of water at the alpha-P atom. Involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell
ALFP_0977	COG0215	cysteine-tRNA ligase activity
ALFP_0979	COG0825	malonyl-CoA metabolic process
ALFP_0980	COG0037	tRNA processing
ALFP_0984	COG0330	HflC and HflK could
ALFP_0986	COG4977	sequence-specific DNA binding
ALFP_0987	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
ALFP_0991	COG4208	sulfate ABC transporter
ALFP_0992	COG3842	ATPase activity
ALFP_0993	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
ALFP_0994	COG3288	NAD(P)+ transhydrogenase (AB-specific) activity
ALFP_0995	COG1282	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane
ALFP_0999	COG1304	FMN binding
ALFP_1000	COG0435	Glutathione S-transferase
ALFP_1001	COG0655	NAD(P)H dehydrogenase (quinone) activity
ALFP_1006	COG2363	Small membrane protein
ALFP_1007	COG0598	Magnesium transport protein CorA
ALFP_1008	COG1960	acyl-CoA dehydrogenase activity
ALFP_1012	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
ALFP_1013	COG4172	Belongs to the ABC transporter superfamily
ALFP_1015	COG3284	Transcriptional regulator
ALFP_1017	COG1012	belongs to the aldehyde dehydrogenase family
ALFP_1018	COG1454	alcohol dehydrogenase
ALFP_1019	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
ALFP_1024	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
ALFP_1031	COG3829	transcription factor binding
ALFP_1032	COG0477	Major facilitator Superfamily
ALFP_1034	COG0039	L-malate dehydrogenase activity
ALFP_1035	COG2188	Transcriptional regulator
ALFP_1036	COG2009	succinate dehydrogenase
ALFP_1038	COG1053	succinate dehydrogenase
ALFP_1039	COG0479	Belongs to the succinate dehydrogenase fumarate reductase iron-sulfur protein family
ALFP_1040	COG2938	An FAD assembly protein, which accelerates covalent attachment of the cofactor into other proteins. Plays an essential role in the assembly of succinate dehydrogenase (SDH, respiratory complex II), an enzyme complex that is a component of both the tricarboxylic acid cycle and the electron transport chain, and which couples the oxidation of succinate to fumarate with the reduction of ubiquinone (coenzyme Q) to ubiquinol. Required for flavinylation (covalent attachment of FAD) of the flavoprotein subunit SdhA of SDH
ALFP_1041	COG0372	Belongs to the citrate synthase family
ALFP_1042	COG2186	Transcriptional regulator
ALFP_1043	COG1620	l-lactate permease
ALFP_1044	COG0281	malic enzyme
ALFP_1044	COG0280	phosphate acetyltransferase
ALFP_1046	COG0567	Dehydrogenase, E1 component
ALFP_1047	COG0508	dehydrogenase complex catalyzes the overall conversion of
ALFP_1048	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
ALFP_1049	COG1485	Reduces the stability of FtsZ polymers in the presence of ATP
ALFP_1053	COG2183	response to ionizing radiation
ALFP_1054	COG1199	ATP-dependent helicase activity
ALFP_1056	COG1733	regulation of RNA biosynthetic process
ALFP_1059	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
ALFP_1059	COG4121	Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34
ALFP_1065	COG0564	pseudouridine synthase activity
ALFP_1067	COG3243	poly(R)-hydroxyalkanoic acid synthase
ALFP_1068	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_1069	COG5394	Polyhydroxyalkanoate synthesis repressor PhaR
ALFP_1072	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
ALFP_1073	COG1187	pseudouridine synthase activity
ALFP_1074	COG0779	Required for maturation of 30S ribosomal subunits
ALFP_1075	COG2251	uridine kinase activity
ALFP_1075	COG0195	Participates in both transcription termination and antitermination
ALFP_1076	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
ALFP_1077	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
ALFP_1078	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
ALFP_1080	COG0446	pyridine nucleotide-disulphide oxidoreductase
ALFP_1082	COG4160	amino acid transport
ALFP_1083	COG4215	(ABC) transporter
ALFP_1087	COG1283	sodium-dependent phosphate transmembrane transporter activity
ALFP_1089	COG2609	component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)
ALFP_1091	COG0456	acetyltransferase
ALFP_1092	COG0501	Belongs to the peptidase M48B family
ALFP_1096	COG1722	exodeoxyribonuclease VII activity
ALFP_1097	COG0142	geranyltranstransferase activity
ALFP_1098	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)
ALFP_1099	COG1469	GTP cyclohydrolase I activity
ALFP_1100	COG0360	Binds together with S18 to 16S ribosomal RNA
ALFP_1101	COG2965	DNA replication, synthesis of RNA primer
ALFP_1102	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
ALFP_1103	COG0359	binds to the 23S rRNA
ALFP_1104	COG0305	Participates in initiation and elongation during chromosome replication
ALFP_1106	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)
ALFP_1107	COG1875	ATPase related to phosphate starvation-inducible protein PhoH
ALFP_1108	COG1225	Alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen
ALFP_1110	COG0436	Aminotransferase
ALFP_1113	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
ALFP_1114	COG3349	Catalyzes the conversion of zeta-carotene to lycopene via the intermediary of neurosporene. It carries out two consecutive desaturations (introduction of double bonds) at positions C-7 and C-7'
ALFP_1115	COG1562	ergosterol biosynthetic process
ALFP_1116	COG1562	ergosterol biosynthetic process
ALFP_1117	COG0787	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids
ALFP_1118	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_1123	COG3842	ATPase activity
ALFP_1124	COG1176	ABC-type spermidine putrescine transport system, permease component I
ALFP_1125	COG1177	transmembrane transport
ALFP_1126	COG1393	Belongs to the ArsC family
ALFP_1127	COG0120	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate
ALFP_1128	COG0704	Plays a role in the regulation of phosphate uptake
ALFP_1129	COG5001	Diguanylate cyclase
ALFP_1129	COG2203	Gaf domain
ALFP_1129	COG3706	GGDEF domain
ALFP_1129	COG4251	negative regulation of phosphorylation
ALFP_1130	COG0659	secondary active sulfate transmembrane transporter activity
ALFP_1131	COG2924	Could be a mediator in iron transactions between iron acquisition and iron-requiring processes, such as synthesis and or repair of Fe-S clusters in biosynthetic enzymes
ALFP_1133	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
ALFP_1133	COG1246	Belongs to the acetyltransferase family. ArgA subfamily
ALFP_1134	COG1643	Atp-dependent helicase
ALFP_1136	COG0438	transferase activity, transferring glycosyl groups
ALFP_1137	COG0726	polysaccharide deacetylase
ALFP_1140	COG0438	transferase activity, transferring glycosyl groups
ALFP_1146	COG1132	(ABC) transporter
ALFP_1149	COG1530	ribonuclease E activity
ALFP_1151	COG2186	Transcriptional regulator
ALFP_1152	COG0277	FAD linked oxidase domain protein
ALFP_1153	COG0277	FAD linked oxidase domain protein
ALFP_1154	COG0247	lactate metabolic process
ALFP_1159	COG1283	sodium-dependent phosphate transmembrane transporter activity
ALFP_1161	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
ALFP_1162	COG0697	spore germination
ALFP_1166	COG3094	Invasion gene expression up-regulator, SirB
ALFP_1168	COG0640	Transcriptional regulator
ALFP_1174	COG0659	secondary active sulfate transmembrane transporter activity
ALFP_1175	COG1262	PFAM Formylglycine-generating sulfatase enzyme
ALFP_1177	COG2314	TM2 domain
ALFP_1178	COG0554	Key enzyme in the regulation of glycerol uptake and metabolism. Catalyzes the phosphorylation of glycerol to yield sn- glycerol 3-phosphate
ALFP_1179	COG0578	Belongs to the FAD-dependent glycerol-3-phosphate dehydrogenase family
ALFP_1180	COG0791	NLP P60 protein
ALFP_1184	COG1360	Flagellar Motor Protein
ALFP_1186	COG0835	chemotaxis
ALFP_1187	COG0840	transmembrane signaling receptor activity
ALFP_1188	COG1352	Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP
ALFP_1190	COG0745	RESPONSE REGULATOR receiver
ALFP_1191	COG3143	Plays an important role in bacterial chemotaxis signal transduction pathway by accelerating the dephosphorylation of phosphorylated CheY (CheY-P)
ALFP_1193	COG1298	Required for formation of the rod structure of the flagellar apparatus. Together with FliI and FliH, may constitute the export apparatus of flagellin
ALFP_1195	COG3550	peptidyl-serine autophosphorylation
ALFP_1201	COG1815	bacterial-type flagellum-dependent cell motility
ALFP_1202	COG1558	bacterial-type flagellum-dependent cell motility
ALFP_1203	COG1843	Required for flagellar hook formation. May act as a scaffolding protein
ALFP_1204	COG1749	Flagellar hook protein flgE
ALFP_1206	COG4786	Flagellar basal body rod
ALFP_1208	COG1706	bacterial-type flagellum-dependent cell motility
ALFP_1210	COG1256	bacterial-type flagellum assembly
ALFP_1211	COG1344	Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella
ALFP_1216	COG2176	DNA-directed DNA polymerase activity
ALFP_1218	COG1987	bacterial-type flagellum assembly
ALFP_1221	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
ALFP_1226	COG1157	protein secretion by the type III secretion system
ALFP_1228	COG1536	FliG is one of three proteins (FliG, FliN, FliM) that forms 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
ALFP_1229	COG1766	The M ring may be actively involved in energy transduction
ALFP_1230	COG1677	Flagellar hook-basal body complex protein FliE
ALFP_1231	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
ALFP_1236	COG1334	flagellar protein FlaG
ALFP_1237	COG1191	sigma factor activity
ALFP_1249	COG1262	PFAM Formylglycine-generating sulfatase enzyme
ALFP_1253	COG2733	membrane
ALFP_1254	COG0840	transmembrane signaling receptor activity
ALFP_1255	COG0840	transmembrane signaling receptor activity
ALFP_1260	COG2610	gluconate transmembrane transporter activity
ALFP_1262	COG0582	viral genome integration into host DNA
ALFP_1263	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_1269	COG1538	Outer membrane efflux protein
ALFP_1270	COG4521	taurine ABC transporter
ALFP_1271	COG4525	Part of the ABC transporter complex TauABC involved in taurine import. Responsible for energy coupling to the transport system
ALFP_1272	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
ALFP_1273	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_1274	COG0583	DNA-binding transcription factor activity
ALFP_1280	COG2824	Alkylphosphonate utilization operon protein PhnA
ALFP_1284	COG1113	amino acid transport
ALFP_1288	COG0583	DNA-binding transcription factor activity
ALFP_1289	COG3755	Protein conserved in bacteria
ALFP_1290	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
ALFP_1297	COG0446	pyridine nucleotide-disulphide oxidoreductase
ALFP_1302	COG1278	Cold shock
ALFP_1303	COG0642	Histidine kinase
ALFP_1304	COG0745	RESPONSE REGULATOR receiver
ALFP_1305	COG3278	Belongs to the heme-copper respiratory oxidase family
ALFP_1307	COG2863	cytochrome
ALFP_1308	COG3258	Cytochrome c
ALFP_1313	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
ALFP_1314	COG4774	siderophore transport
ALFP_1321	COG0025	NhaP-type Na H and K H
ALFP_1324	COG1289	transmembrane transporter activity
ALFP_1326	COG2252	PERMEase
ALFP_1327	COG0560	Phosphoserine phosphatase
ALFP_1330	COG1999	signal sequence binding
ALFP_1332	COG0069	glutamate synthase activity
ALFP_1334	COG1846	Transcriptional regulator
ALFP_1336	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
ALFP_1344	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_1346	COG3264	Mechanosensitive ion channel
ALFP_1346	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
ALFP_1347	COG1196	nuclear chromosome segregation
ALFP_1347	COG3264	Mechanosensitive ion channel
ALFP_1348	COG0477	Major facilitator Superfamily
ALFP_1351	COG1396	sequence-specific DNA binding
ALFP_1352	COG3437	response regulator, receiver
ALFP_1353	COG2205	protein histidine kinase activity
ALFP_1353	COG0784	Response regulator, receiver
ALFP_1353	COG2198	Histidine kinase
ALFP_1354	COG2239	Acts as a magnesium transporter
ALFP_1357	COG3004	Na( ) H( ) antiporter that extrudes sodium in exchange for external protons
ALFP_1358	COG1490	D-aminoacyl-tRNA deacylase activity
ALFP_1361	COG0456	acetyltransferase
ALFP_1362	COG3012	SEC-C Motif Domain Protein
ALFP_1364	COG0501	Belongs to the peptidase M48B family
ALFP_1365	COG2814	Major facilitator Superfamily
ALFP_1375	COG2199	diguanylate cyclase activity
ALFP_1378	COG1522	sequence-specific DNA binding
ALFP_1379	COG0626	cystathionine gamma-synthase activity
ALFP_1381	COG0494	nUDIX hydrolase
ALFP_1382	COG2832	Protein of unknown function (DUF454)
ALFP_1384	COG0137	argininosuccinate synthase activity
ALFP_1385	COG1409	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes
ALFP_1386	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
ALFP_1390	COG1609	Transcriptional regulator
ALFP_1393	COG2060	Part of the high-affinity ATP-driven potassium transport (or Kdp) system, which catalyzes the hydrolysis of ATP coupled with the electrogenic transport of potassium into the cytoplasm. This subunit binds and transports the potassium across the cytoplasmic membrane
ALFP_1395	COG2216	Part of the high-affinity ATP-driven potassium transport (or Kdp) system, which catalyzes the hydrolysis of ATP coupled with the electrogenic transport of potassium into the cytoplasm. This subunit is responsible for energy coupling to the transport system
ALFP_1396	COG2205	protein histidine kinase activity
ALFP_1397	COG0745	RESPONSE REGULATOR receiver
ALFP_1398	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
ALFP_1400	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
ALFP_1401	COG0268	Binds directly to 16S ribosomal RNA
ALFP_1402	COG0728	peptidoglycan biosynthetic process
ALFP_1404	COG0563	adenylate kinase activity
ALFP_1405	COG1212	Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria
ALFP_1406	COG2835	tetraacyldisaccharide 4'-kinase activity
ALFP_1407	COG1663	tetraacyldisaccharide 4'-kinase activity
ALFP_1408	COG0848	biopolymer transport protein
ALFP_1409	COG0811	peptide transport
ALFP_1410	COG1570	exodeoxyribonuclease VII activity
ALFP_1411	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
ALFP_1413	COG0183	Belongs to the thiolase family
ALFP_1415	COG1278	Cold shock
ALFP_1416	COG2127	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation
ALFP_1417	COG0542	response to heat
ALFP_1418	COG2995	paraquat-inducible protein a
ALFP_1420	COG3008	intermembrane lipid transfer
ALFP_1420	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
ALFP_1424	COG0559	Belongs to the binding-protein-dependent transport system permease family
ALFP_1426	COG0411	ABC transporter
ALFP_1432	COG3129	Specifically methylates the adenine in position 1618 of 23S rRNA
ALFP_1433	COG0756	dUTP diphosphatase activity
ALFP_1435	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
ALFP_1436	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)
ALFP_1437	COG0196	riboflavin kinase activity
ALFP_1438	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
ALFP_1439	COG0144	Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA
ALFP_1439	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
ALFP_1441	COG0210	DNA helicase
ALFP_1452	COG0488	(ABC) transporter
ALFP_1453	COG2890	protein-(glutamine-N5) methyltransferase activity
ALFP_1454	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
ALFP_1455	COG2171	N-acyltransferase activity
ALFP_1457	COG2207	Transcriptional regulator
ALFP_1459	COG0471	metal ion transport
ALFP_1459	COG3273	potassium ion transport
ALFP_1468	COG0789	Transcriptional regulator
ALFP_1470	COG1804	L-carnitine dehydratase bile acid-inducible protein F
ALFP_1471	COG0544	peptidyl-prolyl cis-trans isomerase activity
ALFP_1472	COG0740	serine-type endopeptidase activity
ALFP_1473	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
ALFP_1474	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
ALFP_1477	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
ALFP_1479	COG0556	nucleotide-excision repair
ALFP_1480	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
ALFP_1483	COG1104	cysteine desulfurase activity
ALFP_1484	COG0822	iron-sulfur transferase activity
ALFP_1485	COG0316	Belongs to the HesB IscA family
ALFP_1489	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
ALFP_1490	COG4221	oxidoreductase activity
ALFP_1491	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
ALFP_1492	COG0840	transmembrane signaling receptor activity
ALFP_1493	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
ALFP_1494	COG0697	spore germination
ALFP_1495	COG0385	Bile acid
ALFP_1497	COG0608	single-stranded DNA 5'-3' exodeoxyribonuclease activity
ALFP_1500	COG1136	(ABC) transporter
ALFP_1501	COG0084	hydrolase, TatD family'
ALFP_1503	COG0596	Alpha beta hydrolase
ALFP_1504	COG0613	PHP domain protein
ALFP_1506	COG0047	phosphoribosylformylglycinamidine synthase activity
ALFP_1506	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
ALFP_1512	COG0519	Catalyzes the synthesis of GMP from XMP
ALFP_1512	COG0518	GMP synthase (glutamine-hydrolyzing) activity
ALFP_1521	COG1360	Flagellar Motor Protein
ALFP_1527	COG2076	Multidrug Resistance protein
ALFP_1528	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_1529	COG0583	DNA-binding transcription factor activity
ALFP_1532	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
ALFP_1534	COG1960	acyl-CoA dehydrogenase activity
ALFP_1537	COG2378	regulation of single-species biofilm formation
ALFP_1538	COG0523	cobalamin synthesis protein
ALFP_1539	COG1469	GTP cyclohydrolase I activity
ALFP_1542	COG0044	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides
ALFP_1543	COG0735	belongs to the Fur family
ALFP_1544	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
ALFP_1548	COG0745	RESPONSE REGULATOR receiver
ALFP_1551	COG0583	DNA-binding transcription factor activity
ALFP_1552	COG1289	transmembrane transporter activity
ALFP_1554	COG1566	PFAM secretion protein HlyD family protein
ALFP_1556	COG1942	4-Oxalocrotonate Tautomerase
ALFP_1559	COG3162	membrane
ALFP_1560	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
ALFP_1562	COG2070	2-Nitropropane dioxygenase
ALFP_1568	COG1309	transcriptional regulator
ALFP_1571	COG0625	glutathione transferase activity
ALFP_1572	COG0583	DNA-binding transcription factor activity
ALFP_1576	COG0625	glutathione transferase activity
ALFP_1577	COG0740	serine-type endopeptidase activity
ALFP_1587	COG1804	L-carnitine dehydratase bile acid-inducible protein F
ALFP_1589	COG1960	acyl-CoA dehydrogenase activity
ALFP_1593	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
ALFP_1594	COG0640	Transcriptional regulator
ALFP_1599	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)
ALFP_1604	COG3485	protocatechuate 3,4-dioxygenase
ALFP_1606	COG2057	Acyl CoA acetate 3-ketoacid CoA transferase beta subunit
ALFP_1607	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
ALFP_1609	COG3135	benzoate transporter
ALFP_1610	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
ALFP_1611	COG0699	ATPase. Has a role at an early stage in the morphogenesis of the spore coat
ALFP_1613	COG4555	ABC transporter
ALFP_1615	COG2197	response regulator
ALFP_1622	COG1846	Transcriptional regulator
ALFP_1623	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
ALFP_1624	COG2271	Major facilitator Superfamily
ALFP_1626	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
ALFP_1628	COG0697	spore germination
ALFP_1634	COG0379	Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate
ALFP_1635	COG0667	Aldo Keto reductase
ALFP_1640	COG1917	Cupin 2, conserved barrel domain protein
ALFP_1640	COG4977	sequence-specific DNA binding
ALFP_1642	COG2220	Zn-dependent hydrolases of the beta-lactamase fold
ALFP_1643	COG1335	isochorismatase
ALFP_1645	COG2135	peptidase activity
ALFP_1649	COG1272	protein, Hemolysin III
ALFP_1650	COG3422	double-strand break repair
ALFP_1655	COG0765	amino acid transport
ALFP_1656	COG0765	amino acid transport
ALFP_1657	COG1126	abc transporter atp-binding protein
ALFP_1668	COG2871	sodium ion transport
ALFP_1674	COG2814	Major facilitator Superfamily
ALFP_1675	COG1280	lysine exporter protein (LysE YggA)
ALFP_1680	COG0402	S-adenosylhomocysteine deaminase activity
ALFP_1685	COG0330	HflC and HflK could
ALFP_1686	COG1585	Membrane protein implicated in regulation of membrane protease activity
ALFP_1687	COG2226	methyltransferase
ALFP_1689	COG3042	response to heat
ALFP_1691	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
ALFP_1696	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)
ALFP_1697	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
ALFP_1698	COG0189	ligase activity
ALFP_1700	COG1925	phosphoenolpyruvate-dependent sugar phosphotransferase system
ALFP_1701	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)
ALFP_1707	COG0291	Belongs to the bacterial ribosomal protein bL35 family
ALFP_1708	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
ALFP_1709	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
ALFP_1710	COG0072	phenylalanine-tRNA ligase activity
ALFP_1710	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
ALFP_1711	COG0776	regulation of translation
ALFP_1713	COG2833	Protein of unknown function (DUF455)
ALFP_1715	COG5265	(ABC) transporter
ALFP_1716	COG1959	2 iron, 2 sulfur cluster binding
ALFP_1717	COG0719	Fe-S assembly protein
ALFP_1718	COG0396	ATPase activity
ALFP_1719	COG0719	Fe-S assembly protein
ALFP_1721	COG0822	iron-sulfur transferase activity
ALFP_1722	COG2151	metal-sulfur cluster biosynthetic enzyme
ALFP_1726	COG1538	Outer membrane efflux protein
ALFP_1733	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
ALFP_1734	COG0770	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity
ALFP_1735	COG1181	Belongs to the D-alanine--D-alanine ligase family
ALFP_1739	COG0747	negative chemotaxis
ALFP_1740	COG0601	transmembrane transport
ALFP_1741	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
ALFP_1742	COG4172	Belongs to the ABC transporter superfamily
ALFP_1744	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
ALFP_1751	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
ALFP_1751	COG1017	nitric oxide dioxygenase activity
ALFP_1752	COG1959	2 iron, 2 sulfur cluster binding
ALFP_1769	COG4626	Terminase
ALFP_1769	COG1802	Transcriptional regulator
ALFP_1776	COG3728	DNA packaging
ALFP_1779	COG3566	protein conserved in bacteria
ALFP_1807	COG2135	peptidase activity
ALFP_1815	COG3048	D-serine ammonia-lyase activity
ALFP_1816	COG3258	Cytochrome c
ALFP_1819	COG3949	Membrane
ALFP_1821	COG1262	PFAM Formylglycine-generating sulfatase enzyme
ALFP_1824	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
ALFP_1825	COG0569	domain protein
ALFP_1826	COG1902	pentaerythritol trinitrate reductase activity
ALFP_1828	COG1610	YqeY-like protein
ALFP_1829	COG0587	DNA-directed DNA polymerase activity
ALFP_1836	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_1837	COG0583	DNA-binding transcription factor activity
ALFP_1838	COG1686	Belongs to the peptidase S11 family
ALFP_1841	COG1360	Flagellar Motor Protein
ALFP_1843	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_1845	COG4221	oxidoreductase activity
ALFP_1846	COG0307	riboflavin synthase, alpha
ALFP_1855	COG2233	PERMEase
ALFP_1856	COG0071	Belongs to the small heat shock protein (HSP20) family
ALFP_1859	COG2814	Major facilitator Superfamily
ALFP_1865	COG2816	NAD+ diphosphatase activity
ALFP_1866	COG1561	YicC-like family, N-terminal region
ALFP_1869	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
ALFP_1870	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
ALFP_1871	COG0635	Involved in the biosynthesis of porphyrin-containing compound
ALFP_1873	COG2153	protein acetylation
ALFP_1877	COG3842	ATPase activity
ALFP_1878	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
ALFP_1879	COG1840	ABC-type Fe3 transport system, periplasmic component
ALFP_1882	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)
ALFP_1884	COG0783	Belongs to the Dps family
ALFP_1886	COG3842	ATPase activity
ALFP_1887	COG0395	ABC-type sugar transport system, permease component
ALFP_1888	COG1175	transmembrane transport
ALFP_1889	COG1653	transport
ALFP_1892	COG0559	Belongs to the binding-protein-dependent transport system permease family
ALFP_1894	COG0411	ABC transporter
ALFP_1896	COG0625	glutathione transferase activity
ALFP_1898	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
ALFP_1899	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_1901	COG0114	fumarate hydratase activity
ALFP_1902	COG2133	pyrroloquinoline quinone binding
ALFP_1903	COG2226	methyltransferase
ALFP_1904	COG0589	response to stress
ALFP_1906	COG2207	Transcriptional regulator
ALFP_1907	COG0235	Class ii aldolase
ALFP_1909	COG1012	belongs to the aldehyde dehydrogenase family
ALFP_1910	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
ALFP_1911	COG2807	transmembrane transport
ALFP_1913	COG0583	DNA-binding transcription factor activity
ALFP_1920	COG0583	DNA-binding transcription factor activity
ALFP_1921	COG4974	Belongs to the 'phage' integrase family
ALFP_1925	COG2132	Multicopper oxidase
ALFP_1929	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_1934	COG3038	cytochrome b561
ALFP_1936	COG2353	YceI-like domain
ALFP_1937	COG1393	Belongs to the ArsC family
ALFP_1938	COG0625	glutathione transferase activity
ALFP_1942	COG0084	hydrolase, TatD family'
ALFP_1943	COG0470	DNA polymerase III
ALFP_1945	COG1559	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation
ALFP_1949	COG1960	acyl-CoA dehydrogenase activity
ALFP_1950	COG2914	Belongs to the UPF0125 (RnfH) family
ALFP_1951	COG2867	negative regulation of translational initiation
ALFP_1952	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
ALFP_1953	COG1252	NADH dehydrogenase
ALFP_1956	COG1806	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the
ALFP_1958	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
ALFP_1959	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
ALFP_1960	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
ALFP_1962	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
ALFP_1963	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
ALFP_1965	COG4775	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
ALFP_1967	COG0743	1-deoxy-D-xylulose-5-phosphate reductoisomerase activity
ALFP_1968	COG0575	Belongs to the CDS family
ALFP_1969	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
ALFP_1970	COG0233	cytoplasmic translational termination
ALFP_1971	COG0528	UMP kinase activity
ALFP_1972	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
ALFP_1973	COG0052	Belongs to the universal ribosomal protein uS2 family
ALFP_1974	COG0024	Methionine aminopeptidase
ALFP_1975	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
ALFP_1980	COG1286	toxin biosynthetic process
ALFP_1982	COG0285	dihydrofolate synthase activity
ALFP_1983	COG1249	Belongs to the class-I pyridine nucleotide-disulfide oxidoreductase family
ALFP_1984	COG0508	dehydrogenase complex catalyzes the overall conversion of
ALFP_1985	COG2609	component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)
ALFP_1988	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
ALFP_1990	COG1999	signal sequence binding
ALFP_1991	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
ALFP_1992	COG0640	Transcriptional regulator
ALFP_1996	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
ALFP_1998	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
ALFP_1999	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
ALFP_2000	COG3638	Part of the ABC transporter complex PhnCDE involved in phosphonates import. Responsible for energy coupling to the transport system
ALFP_2004	COG0183	Belongs to the thiolase family
ALFP_2005	COG0183	Belongs to the thiolase family
ALFP_2006	COG0183	Belongs to the thiolase family
ALFP_2008	COG2513	Catalyzes the thermodynamically favored C-C bond cleavage of (2R,3S)-2-methylisocitrate to yield pyruvate and succinate
ALFP_2010	COG0583	DNA-binding transcription factor activity
ALFP_2011	COG1982	Orn Lys Arg decarboxylase major
ALFP_2015	COG0194	GDP metabolic process
ALFP_2016	COG1758	RNA polymerase activity
ALFP_2017	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
ALFP_2019	COG1296	Branched-chain amino acid permease (Azaleucine resistance)
ALFP_2020	COG0739	heme binding
ALFP_2021	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
ALFP_2022	COG0584	glycerophosphoryl diester phosphodiesterase
ALFP_2023	COG2961	Specifically methylates the adenine in position 2030 of 23S rRNA
ALFP_2024	COG1187	pseudouridine synthase activity
ALFP_2025	COG3161	chorismate lyase activity
ALFP_2026	COG2814	Major facilitator Superfamily
ALFP_2027	COG0656	L-ascorbic acid biosynthetic process
ALFP_2029	COG0668	transmembrane transport
ALFP_2030	COG0165	Argininosuccinate lyase
ALFP_2031	COG1846	Transcriptional regulator
ALFP_2031	COG1940	carbohydrate kinase activity
ALFP_2033	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
ALFP_2035	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
ALFP_2037	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
ALFP_2038	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
ALFP_2039	COG0344	acyl-phosphate glycerol-3-phosphate acyltransferase activity
ALFP_2040	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
ALFP_2041	COG2252	PERMEase
ALFP_2042	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
ALFP_2046	COG0488	(ABC) transporter
ALFP_2047	COG1619	proteins homologs of microcin C7 resistance protein MccF
ALFP_2048	COG0590	tRNA wobble adenosine to inosine editing
ALFP_2049	COG1131	(ABC) transporter
ALFP_2050	COG0842	Transport permease protein
ALFP_2052	COG1666	GTP binding
ALFP_2053	COG0318	PFAM AMP-dependent synthetase and ligase
ALFP_2054	COG0239	Important for reducing fluoride concentration in the cell, thus reducing its toxicity
ALFP_2055	COG0519	Catalyzes the synthesis of GMP from XMP
ALFP_2055	COG0518	GMP synthase (glutamine-hydrolyzing) activity
ALFP_2058	COG0526	COG0526, thiol-disulfide isomerase and thioredoxins
ALFP_2059	COG0135	phosphoribosylanthranilate isomerase activity
ALFP_2060	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
ALFP_2062	COG0101	tRNA pseudouridine synthase activity
ALFP_2064	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
ALFP_2065	COG0473	3-isopropylmalate dehydrogenase activity
ALFP_2066	COG0066	3-isopropylmalate dehydratase activity
ALFP_2067	COG0065	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate
ALFP_2069	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
ALFP_2071	COG4566	intracellular signal transduction
ALFP_2074	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
ALFP_2075	COG0397	Uncharacterized ACR, YdiU/UPF0061 family
ALFP_2077	COG1295	ribonuclease BN
ALFP_2079	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
ALFP_2086	COG4964	Belongs to the GSP D family
ALFP_2093	COG0221	Catalyzes the hydrolysis of inorganic pyrophosphate (PPi) forming two phosphate ions
ALFP_2095	COG2959	enzyme of heme biosynthesis
ALFP_2097	COG0181	hydroxymethylbilane synthase activity
ALFP_2099	COG0861	Integral membrane protein TerC family
ALFP_2100	COG0074	Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit
ALFP_2101	COG0045	succinate-CoA ligase (ADP-forming) activity
ALFP_2103	COG0620	Catalyzes the transfer of a methyl group from 5- methyltetrahydrofolate to homocysteine resulting in methionine formation
ALFP_2104	COG0583	DNA-binding transcription factor activity
ALFP_2105	COG2137	regulation of response to DNA damage stimulus
ALFP_2106	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
ALFP_2110	COG0477	Major facilitator Superfamily
ALFP_2113	COG0318	PFAM AMP-dependent synthetase and ligase
ALFP_2114	COG1024	Enoyl-CoA hydratase
ALFP_2115	COG3162	membrane
ALFP_2118	COG0540	Belongs to the ATCase OTCase family
ALFP_2121	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
ALFP_2124	COG2070	2-Nitropropane dioxygenase
ALFP_2125	COG0635	Involved in the biosynthesis of porphyrin-containing compound
ALFP_2126	COG2111	Na H antiporter
ALFP_2126	COG1009	NADH ubiquinone oxidoreductase subunit 5 chain L Multisubunit Na H antiporter, MnhA subunit
ALFP_2127	COG1006	Multisubunit Na H antiporter MnhC subunit
ALFP_2128	COG0651	ATP synthesis coupled electron transport
ALFP_2130	COG2212	antiporter activity
ALFP_2133	COG0477	Major facilitator Superfamily
ALFP_2138	COG3158	transport of potassium into the cell
ALFP_2139	COG0642	Histidine kinase
ALFP_2140	COG0745	RESPONSE REGULATOR receiver
ALFP_2144	COG1118	Part of the ABC transporter complex CysAWTP involved in sulfate thiosulfate import. Responsible for energy coupling to the transport system
ALFP_2145	COG4208	sulfate ABC transporter
ALFP_2146	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
ALFP_2147	COG1613	Sulfate ABC transporter periplasmic sulfate-binding protein
ALFP_2150	COG1278	Cold shock
ALFP_2151	COG0776	regulation of translation
ALFP_2153	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
ALFP_2153	COG1648	precorrin-2 dehydrogenase activity
ALFP_2161	COG1648	precorrin-2 dehydrogenase activity
ALFP_2161	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
ALFP_2163	COG2010	Cytochrome c
ALFP_2164	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
ALFP_2165	COG0626	cystathionine gamma-synthase activity
ALFP_2166	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
ALFP_2167	COG0557	exoribonuclease II activity
ALFP_2171	COG0765	amino acid transport
ALFP_2172	COG1126	abc transporter atp-binding protein
ALFP_2175	COG1850	ribulose-bisphosphate carboxylase activity
ALFP_2178	COG2375	cellular response to nickel ion
ALFP_2181	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
ALFP_2184	COG0583	DNA-binding transcription factor activity
ALFP_2185	COG3842	ATPase activity
ALFP_2186	COG1175	transmembrane transport
ALFP_2187	COG0637	HAD-superfamily hydrolase subfamily IA, variant 3
ALFP_2188	COG1840	ABC-type Fe3 transport system, periplasmic component
ALFP_2192	COG0412	Dienelactone hydrolase
ALFP_2193	COG3530	Putative quorum-sensing-regulated virulence factor
ALFP_2194	COG0625	glutathione transferase activity
ALFP_2195	COG1741	Belongs to the pirin family
ALFP_2197	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
ALFP_2198	COG2814	Major facilitator Superfamily
ALFP_2199	COG2807	transmembrane transport
ALFP_2200	COG2207	Transcriptional regulator
ALFP_2201	COG3135	benzoate transporter
ALFP_2203	COG1540	5-oxoprolinase (ATP-hydrolyzing) activity
ALFP_2206	COG1529	Aldehyde oxidase and xanthine dehydrogenase
ALFP_2208	COG0402	S-adenosylhomocysteine deaminase activity
ALFP_2210	COG0745	RESPONSE REGULATOR receiver
ALFP_2211	COG2205	protein histidine kinase activity
ALFP_2212	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
ALFP_2214	COG0828	Belongs to the bacterial ribosomal protein bS21 family
ALFP_2215	COG2236	Acts on guanine, xanthine and to a lesser extent hypoxanthine
ALFP_2216	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
ALFP_2217	COG3705	Required for the first step of histidine biosynthesis. May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine
ALFP_2218	COG0330	HflC and HflK could
ALFP_2219	COG0330	HflC and HflK could
ALFP_2220	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
ALFP_2221	COG1923	regulation of RNA biosynthetic process
ALFP_2223	COG1160	GTP binding
ALFP_2224	COG1520	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
ALFP_2225	COG2976	Protein conserved in bacteria
ALFP_2226	COG0124	histidyl-tRNA synthetase
ALFP_2227	COG0821	Converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4cPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate
ALFP_2229	COG0820	rRNA (adenine-C2-)-methyltransferase activity
ALFP_2230	COG0105	UTP biosynthetic process
ALFP_2232	COG0336	Belongs to the RNA methyltransferase TrmD family
ALFP_2233	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
ALFP_2234	COG0228	four-way junction DNA binding
ALFP_2235	COG0425	Belongs to the sulfur carrier protein TusA family
ALFP_2236	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
ALFP_2239	COG2351	hydroxyisourate hydrolase activity
ALFP_2246	COG1653	transport
ALFP_2247	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
ALFP_2250	COG0187	DNA topoisomerase II activity
ALFP_2252	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
ALFP_2253	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
ALFP_2259	COG0601	transmembrane transport
ALFP_2265	COG1391	[glutamine synthetase]-adenylyl-L-tyrosine phosphorylase
ALFP_2266	COG1636	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)
ALFP_2267	COG0542	response to heat
ALFP_2268	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
ALFP_2271	COG0348	domain, Protein
ALFP_2275	COG3278	Belongs to the heme-copper respiratory oxidase family
ALFP_2277	COG2217	Heavy metal translocating P-type atpase
ALFP_2279	COG2224	Isocitrate lyase
ALFP_2280	COG2904	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
ALFP_2280	COG0780	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)
ALFP_2283	COG0322	excinuclease ABC activity
ALFP_2284	COG1472	Belongs to the glycosyl hydrolase 3 family
ALFP_2285	COG0736	holo-[acyl-carrier-protein] synthase activity
ALFP_2287	COG2050	protein possibly involved in aromatic compounds catabolism
ALFP_2288	COG1024	Enoyl-CoA hydratase
ALFP_2289	COG1012	belongs to the aldehyde dehydrogenase family
ALFP_2290	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
ALFP_2291	COG2151	metal-sulfur cluster biosynthetic enzyme
ALFP_2292	COG3396	Phenylacetate-CoA oxygenase
ALFP_2293	COG3460	Phenylacetate-CoA oxygenase
ALFP_2294	COG3396	Phenylacetate-CoA oxygenase
ALFP_2296	COG1949	3'-to-5' exoribonuclease specific for small oligoribonucleotides
ALFP_2297	COG0501	Belongs to the peptidase M48B family
ALFP_2298	COG1162	GTPase activity
ALFP_2300	COG0335	large ribosomal subunit rRNA binding
ALFP_2304	COG0450	alkyl hydroperoxide reductase
ALFP_2305	COG1960	acyl-CoA dehydrogenase activity
ALFP_2310	COG2951	lytic endotransglycosylase activity
ALFP_2312	COG1555	photosystem II stabilization
ALFP_2312	COG1596	polysaccharide export
ALFP_2313	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
ALFP_2314	COG2870	Catalyzes the ADP transfer from ATP to D-glycero-beta-D- manno-heptose 1-phosphate, yielding ADP-D-glycero-beta-D-manno- heptose
ALFP_2315	COG2956	Modulates cellular lipopolysaccharide (LPS) levels by regulating LpxC, which is involved in lipid A biosynthesis. May act by modulating the proteolytic activity of FtsH towards LpxC. May also coordinate assembly of proteins involved in LPS synthesis at the plasma membrane
ALFP_2319	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
ALFP_2320	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
ALFP_2321	COG0287	Prephenate dehydrogenase
ALFP_2323	COG1932	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine
ALFP_2326	COG2227	3-demethylubiquinone-9 3-O-methyltransferase activity
ALFP_2330	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
ALFP_2332	COG4771	TonB-dependent receptor
ALFP_2335	COG0753	catalase activity
ALFP_2337	COG4335	DNA alkylation repair
ALFP_2340	COG0436	Aminotransferase
ALFP_2342	COG0251	oxidation-reduction process
ALFP_2343	COG1309	transcriptional regulator
ALFP_2354	COG0625	glutathione transferase activity
ALFP_2361	COG4096	Type I site-specific restriction-modification system, R (Restriction) subunit and related
ALFP_2369	COG3633	Involved in the import of serine and threonine into the cell, with the concomitant import of sodium (symport system)
ALFP_2370	COG1280	lysine exporter protein (LysE YggA)
ALFP_2375	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
ALFP_2377	COG5002	protein histidine kinase activity
ALFP_2380	COG2046	Belongs to the sulfate adenylyltransferase family
ALFP_2381	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
ALFP_2382	COG0642	Histidine kinase
ALFP_2384	COG0840	transmembrane signaling receptor activity
ALFP_2385	COG2119	membrane
ALFP_2388	COG1182	Catalyzes the reductive cleavage of azo bond in aromatic azo compounds to the corresponding amines. Requires NADH, but not NADPH, as an electron donor for its activity
ALFP_2389	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
ALFP_2392	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
ALFP_2393	COG2321	neutral zinc metallopeptidase
ALFP_2395	COG2175	clavaminate synthase activity
ALFP_2396	COG1846	Transcriptional regulator
ALFP_2399	COG0347	Belongs to the P(II) protein family
ALFP_2400	COG0004	ammonium transporteR
ALFP_2401	COG3909	cytochrome
ALFP_2403	COG0625	glutathione transferase activity
ALFP_2405	COG0657	acetylesterase activity
ALFP_2406	COG0730	response to heat
ALFP_2407	COG0482	sulfurtransferase activity
ALFP_2408	COG0277	FAD linked oxidase domain protein
ALFP_2409	COG0722	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)
ALFP_2410	COG2879	small protein
ALFP_2411	COG1966	Carbon starvation protein
ALFP_2412	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
ALFP_2413	COG0765	amino acid transport
ALFP_2414	COG0765	amino acid transport
ALFP_2415	COG1126	abc transporter atp-binding protein
ALFP_2416	COG0028	Belongs to the TPP enzyme family
ALFP_2417	COG1012	belongs to the aldehyde dehydrogenase family
ALFP_2418	COG1712	Catalyzes the reversible NADPH-dependent reductive amination of L-2-amino-6-oxopimelate, the acyclic form of L- tetrahydrodipicolinate, to generate the meso compound, D,L-2,6- diaminopimelate
ALFP_2419	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_2420	COG2226	methyltransferase
ALFP_2420	COG2021	Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine
ALFP_2420	COG0596	Alpha beta hydrolase
ALFP_2421	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
ALFP_2422	COG1116	anion transmembrane transporter activity
ALFP_2425	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
ALFP_2428	COG5285	phytanoyl-CoA dioxygenase
ALFP_2429	COG0662	Cupin 2, conserved barrel domain protein
ALFP_2430	COG0160	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family
ALFP_2431	COG0456	acetyltransferase
ALFP_2432	COG1846	Transcriptional regulator
ALFP_2434	COG0312	modulator of DNA gyrase
ALFP_2437	COG0308	aminopeptidase N
ALFP_2438	COG0158	D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1
ALFP_2441	COG0473	3-isopropylmalate dehydrogenase activity
ALFP_2443	COG0433	COG0433 Predicted ATPase
ALFP_2444	COG0217	transcriptional regulatory protein
ALFP_2445	COG0151	Belongs to the GarS family
ALFP_2446	COG0408	coproporphyrinogen oxidase activity
ALFP_2447	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
ALFP_2448	COG0799	negative regulation of ribosome biogenesis
ALFP_2449	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
ALFP_2450	COG0424	maF-like protein
ALFP_2454	COG0023	Translation Initiation Factor
ALFP_2456	COG2084	Dehydrogenase
ALFP_2457	COG0625	glutathione transferase activity
ALFP_2458	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
ALFP_2459	COG1047	Peptidyl-prolyl cis-trans
ALFP_2460	COG2003	Belongs to the UPF0758 family
ALFP_2461	COG1737	Transcriptional regulator
ALFP_2462	COG0477	Major facilitator Superfamily
ALFP_2464	COG2271	Major facilitator Superfamily
ALFP_2465	COG0254	rRNA binding
ALFP_2467	COG0534	Mate efflux family protein
ALFP_2468	COG4175	Glycine betaine
ALFP_2469	COG4176	ABC-type proline glycine betaine transport system permease component
ALFP_2471	COG2230	cyclopropane-fatty-acyl-phospholipid synthase
ALFP_2473	COG2814	Major facilitator Superfamily
ALFP_2474	COG0227	Belongs to the bacterial ribosomal protein bL28 family
ALFP_2475	COG0267	Belongs to the bacterial ribosomal protein bL33 family
ALFP_2476	COG0495	leucyl-tRNA aminoacylation
ALFP_2478	COG1466	dna polymerase III delta subunit
ALFP_2479	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
ALFP_2484	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
ALFP_2486	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
ALFP_2487	COG0148	phosphopyruvate hydratase activity
ALFP_2489	COG2814	Major facilitator Superfamily
ALFP_2494	COG0504	CTP synthase activity
ALFP_2501	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
ALFP_2504	COG0791	NLP P60 protein
ALFP_2506	COG0583	DNA-binding transcription factor activity
ALFP_2508	COG0583	DNA-binding transcription factor activity
ALFP_2510	COG0260	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
ALFP_2513	COG1045	serine acetyltransferase
ALFP_2516	COG1381	Involved in DNA repair and RecF pathway recombination
ALFP_2517	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
ALFP_2518	COG0571	ribonuclease III activity
ALFP_2520	COG0481	GTPase activity
ALFP_2521	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
ALFP_2526	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
ALFP_2528	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_2529	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
ALFP_2530	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
ALFP_2531	COG0416	fatty acid biosynthetic process
ALFP_2532	COG0333	Belongs to the bacterial ribosomal protein bL32 family
ALFP_2533	COG1399	metal-binding, possibly nucleic acid-binding protein
ALFP_2534	COG0424	maF-like protein
ALFP_2536	COG3023	N-Acetylmuramoyl-L-alanine amidase
ALFP_2537	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
ALFP_2538	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
ALFP_2539	COG0546	phosphoglycolate phosphatase activity
ALFP_2540	COG0564	pseudouridine synthase activity
ALFP_2541	COG1530	ribonuclease E activity
ALFP_2542	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
ALFP_2543	COG0159	tryptophan synthase activity
ALFP_2544	COG0133	tryptophan synthase activity
ALFP_2545	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
ALFP_2547	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
ALFP_2548	COG1146	Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions
ALFP_2550	COG2878	Part of a membrane complex involved in electron transport
ALFP_2551	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
ALFP_2552	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
ALFP_2553	COG3047	cAMP biosynthetic process
ALFP_2555	COG0411	ABC transporter
ALFP_2559	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
ALFP_2560	COG2917	probably involved in intracellular septation
ALFP_2562	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
ALFP_2563	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
ALFP_2565	COG1196	nuclear chromosome segregation
ALFP_2566	COG0477	Major facilitator Superfamily
ALFP_2567	COG1573	uracil-dna glycosylase
ALFP_2568	COG1214	PFAM Peptidase M22, glycoprotease
ALFP_2569	COG0745	RESPONSE REGULATOR receiver
ALFP_2570	COG2205	protein histidine kinase activity
ALFP_2572	COG1211	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
ALFP_2573	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
ALFP_2574	COG0560	Phosphoserine phosphatase
ALFP_2577	COG1007	ATP synthesis coupled electron transport
ALFP_2580	COG0713	ATP synthesis coupled electron transport
ALFP_2582	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
ALFP_2583	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
ALFP_2584	COG1034	ATP synthesis coupled electron transport
ALFP_2587	COG0649	NAD binding
ALFP_2588	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
ALFP_2589	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
ALFP_2590	COG0838	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
ALFP_2592	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
ALFP_2594	COG0149	triose-phosphate isomerase activity
ALFP_2595	COG0604	alcohol dehydrogenase
ALFP_2597	COG1185	polyribonucleotide nucleotidyltransferase activity
ALFP_2598	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
ALFP_2599	COG1183	phosphatidylcholine synthase activity
ALFP_2600	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
ALFP_2601	COG0440	acetolactate synthase activity
ALFP_2602	COG0028	Belongs to the TPP enzyme family
ALFP_2603	COG1289	transmembrane transporter activity
ALFP_2604	COG3022	response to hydroperoxide
ALFP_2605	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_2609	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)
ALFP_2610	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
ALFP_2611	COG2834	Participates in the translocation of lipoproteins from the inner membrane to the outer membrane. Only forms a complex with a lipoprotein if the residue after the N-terminal Cys is not an aspartate (The Asp acts as a targeting signal to indicate that the lipoprotein should stay in the inner membrane)
ALFP_2612	COG1674	ftsk spoiiie
ALFP_2613	COG0492	ferredoxin-NADP+ reductase activity
ALFP_2617	COG0477	Major facilitator Superfamily
ALFP_2621	COG2272	Belongs to the type-B carboxylesterase lipase family
ALFP_2622	COG1960	acyl-CoA dehydrogenase activity
ALFP_2627	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
ALFP_2631	COG2204	response regulator
ALFP_2639	COG4964	Belongs to the GSP D family
ALFP_2652	COG0612	Peptidase, M16
ALFP_2653	COG0484	heat shock protein binding
ALFP_2654	COG0443	Heat shock 70 kDa protein
ALFP_2655	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
ALFP_2656	COG0276	Catalyzes the ferrous insertion into protoporphyrin IX
ALFP_2657	COG1420	regulation of RNA biosynthetic process
ALFP_2658	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
ALFP_2659	COG0497	DNA recombination
ALFP_2660	COG0735	belongs to the Fur family
ALFP_2661	COG2913	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane
ALFP_2662	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
ALFP_2665	COG2267	carboxylic ester hydrolase activity
ALFP_2667	COG0477	Major facilitator Superfamily
ALFP_2670	COG0812	UDP-N-acetylmuramate dehydrogenase activity
ALFP_2674	COG1538	Outer membrane efflux protein
ALFP_2680	COG2814	Major facilitator Superfamily
ALFP_2683	COG2819	hydrolase of the alpha beta superfamily
ALFP_2687	COG1454	alcohol dehydrogenase
ALFP_2691	COG0559	Belongs to the binding-protein-dependent transport system permease family
ALFP_2694	COG1414	Transcriptional regulator
ALFP_2695	COG0513	Belongs to the DEAD box helicase family
ALFP_2696	COG0583	DNA-binding transcription factor activity
ALFP_2697	COG4638	Rieske (2fe-2S)
ALFP_2698	COG5517	Aromatic-ring-hydroxylating dioxygenase beta subunit
ALFP_2701	COG0446	pyridine nucleotide-disulphide oxidoreductase
ALFP_2704	COG3971	2-oxopent-4-enoate hydratase activity
ALFP_2705	COG4569	acetaldehyde dehydrogenase (acetylating) activity
ALFP_2706	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)
ALFP_2707	COG2814	Major facilitator Superfamily
ALFP_2710	COG0154	amidase activity
ALFP_2711	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
ALFP_2712	COG2814	Major facilitator Superfamily
ALFP_2717	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_2719	COG0842	Transport permease protein
ALFP_2720	COG1129	ABC transporter
ALFP_2720	COG0842	Transport permease protein
ALFP_2721	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
ALFP_2723	COG3243	poly(R)-hydroxyalkanoic acid synthase
ALFP_2725	COG1738	Involved in the import of queuosine (Q) precursors, required for Q precursor salvage
ALFP_2726	COG0603	Catalyzes the ATP-dependent conversion of 7-carboxy-7- deazaguanine (CDG) to 7-cyano-7-deazaguanine (preQ(0))
ALFP_2727	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
ALFP_2732	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
ALFP_2735	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
ALFP_2736	COG2240	Pyridoxal kinase involved in the salvage pathway of pyridoxal 5'-phosphate (PLP). Catalyzes the phosphorylation of pyridoxal to PLP
ALFP_2738	COG0789	Transcriptional regulator
ALFP_2741	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
ALFP_2752	COG3278	Belongs to the heme-copper respiratory oxidase family
ALFP_2753	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
ALFP_2757	COG0796	Provides the (R)-glutamate required for cell wall biosynthesis
ALFP_2767	COG1961	COG1961 Site-specific recombinases, DNA invertase Pin homologs
ALFP_2780	COG0516	GMP reductase activity
ALFP_2780	COG0517	IMP dehydrogenase activity
ALFP_2783	COG1027	Aspartate ammonia-lyase
ALFP_2785	COG1846	Transcriptional regulator
ALFP_2788	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
ALFP_2789	COG2935	proteasome-mediated ubiquitin-dependent protein catabolic process
ALFP_2793	COG1414	Transcriptional regulator
ALFP_2797	COG0513	Belongs to the DEAD box helicase family
ALFP_2801	COG0429	hydrolase of the alpha beta-hydrolase fold
ALFP_2802	COG4783	chaperone-mediated protein folding
ALFP_2807	COG0654	COG0654 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases
ALFP_2809	COG2901	Activates ribosomal RNA transcription. Plays a direct role in upstream activation of rRNA promoters
ALFP_2811	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
ALFP_2812	COG0632	four-way junction helicase activity
ALFP_2814	COG2255	four-way junction helicase activity
ALFP_2816	COG0418	dihydroorotase activity
ALFP_2818	COG0415	Belongs to the DNA photolyase family
ALFP_2826	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
ALFP_2827	COG4654	Cytochrome c, class I
ALFP_2833	COG1177	transmembrane transport
ALFP_2834	COG3842	ATPase activity
ALFP_2835	COG1840	ABC-type Fe3 transport system, periplasmic component
ALFP_2836	COG2084	Dehydrogenase
ALFP_2839	COG0494	nUDIX hydrolase
ALFP_2840	COG0442	prolyl-tRNA aminoacylation
ALFP_2841	COG0824	Thioesterase
ALFP_2842	COG0811	peptide transport
ALFP_2845	COG0823	Involved in the tonB-independent uptake of proteins
ALFP_2848	COG0596	Alpha beta hydrolase
ALFP_2851	COG0534	Mate efflux family protein
ALFP_2855	COG1129	ABC transporter
ALFP_2859	COG0427	acetyl-CoA hydrolase
ALFP_2860	COG0583	DNA-binding transcription factor activity
ALFP_2861	COG3634	alkyl hydroperoxide reductase activity
ALFP_2864	COG0697	spore germination
ALFP_2865	COG0175	sulfate reduction
ALFP_2869	COG1012	belongs to the aldehyde dehydrogenase family
ALFP_2870	COG0665	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
ALFP_2871	COG5383	Protein conserved in bacteria
ALFP_2873	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
ALFP_2876	COG0583	DNA-binding transcription factor activity
ALFP_2877	COG1741	Belongs to the pirin family
ALFP_2879	COG3706	GGDEF domain
ALFP_2880	COG0154	amidase activity
ALFP_2883	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
ALFP_2884	COG0459	protein refolding
ALFP_2885	COG0818	Recycling of diacylglycerol produced during the turnover of membrane phospholipid
ALFP_2886	COG0284	orotidine-5'-phosphate decarboxylase activity
ALFP_2890	COG1414	Transcriptional regulator
ALFP_2892	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
ALFP_2894	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
ALFP_2895	COG0054	6,7-dimethyl-8-ribityllumazine synthase activity
ALFP_2900	COG0742	ribosomal rna small subunit methyltransferase
ALFP_2901	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
ALFP_2902	COG1145	4fe-4S ferredoxin, iron-sulfur binding domain protein
ALFP_2908	COG5581	Acts as a flagellar brake, regulating swimming and swarming in a bis-(3'-5') cyclic diguanylic acid (c-di-GMP)- dependent manner. Binds 1 c-di-GMP dimer per subunit. Increasing levels of c-di-GMP lead to decreased motility
ALFP_2911	COG1335	isochorismatase
ALFP_2912	COG2309	aminopeptidase activity
ALFP_2913	COG0596	Alpha beta hydrolase
ALFP_2914	COG1529	Aldehyde oxidase and xanthine dehydrogenase
ALFP_2914	COG2010	Cytochrome c
ALFP_2915	COG2080	2 iron, 2 sulfur cluster binding
ALFP_2916	COG1529	Aldehyde oxidase and xanthine dehydrogenase
ALFP_2916	COG2010	Cytochrome c
ALFP_2918	COG0410	ABC transporter
ALFP_2919	COG0411	ABC transporter
ALFP_2924	COG3706	GGDEF domain
ALFP_2927	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_2931	COG1234	tRNA 3'-trailer cleavage
ALFP_2932	COG2188	Transcriptional regulator
ALFP_2934	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
ALFP_2936	COG0063	ADP-dependent NAD(P)H-hydrate dehydratase activity
ALFP_2936	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
ALFP_2937	COG3608	succinylglutamate desuccinylase aspartoacylase
ALFP_2937	COG1975	Xanthine and CO dehydrogenases maturation factor, XdhC CoxF family
ALFP_2938	COG1593	TRAP-type C4-dicarboxylate transport system, large permease component
ALFP_2940	COG0600	ABC-type nitrate sulfonate bicarbonate transport system permease component
ALFP_2946	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
ALFP_2952	COG1335	isochorismatase
ALFP_2953	COG2309	aminopeptidase activity
ALFP_2954	COG0596	Alpha beta hydrolase
ALFP_2957	COG1120	ATPase activity
ALFP_2960	COG4206	TonB-dependent receptor
ALFP_2961	COG2031	fatty acid transporter
ALFP_2962	COG0583	DNA-binding transcription factor activity
ALFP_2963	COG0402	S-adenosylhomocysteine deaminase activity
ALFP_2964	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_2965	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
ALFP_2966	COG0841	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family
ALFP_2967	COG0845	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
ALFP_2968	COG0328	RNA-DNA hybrid ribonuclease activity
ALFP_2969	COG2226	methyltransferase
ALFP_2970	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
ALFP_2971	COG0741	lytic transglycosylase activity
ALFP_2971	COG1388	LysM domain
ALFP_2975	COG1319	Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM
ALFP_2980	COG2204	response regulator
ALFP_2981	COG4191	Histidine kinase
ALFP_2982	COG1301	dicarboxylic acid transport
ALFP_2990	COG2606	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily
ALFP_2994	COG0380	Probably involved in the osmoprotection via the biosynthesis of trehalose. Catalyzes the transfer of glucose from UDP-glucose (UDP-Glc) to D-glucose 6-phosphate (Glc-6-P) to form trehalose-6-phosphate. Acts with retention of the anomeric configuration of the UDP-sugar donor
ALFP_2997	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_2998	COG1877	trehalose-phosphatase activity
ALFP_3005	COG0604	alcohol dehydrogenase
ALFP_3007	COG1024	Enoyl-CoA hydratase
ALFP_3011	COG1902	pentaerythritol trinitrate reductase activity
ALFP_3014	COG1454	alcohol dehydrogenase
ALFP_3018	COG0583	DNA-binding transcription factor activity
ALFP_3026	COG1393	Belongs to the ArsC family
ALFP_3027	COG0431	NADPH-dependent FMN reductase
ALFP_3028	COG0745	RESPONSE REGULATOR receiver
ALFP_3029	COG0642	Histidine kinase
ALFP_3045	COG2948	multi-organism process
ALFP_3063	COG0582	viral genome integration into host DNA
ALFP_3064	COG1985	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
ALFP_3064	COG0117	Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)- pyrimidinedione 5'-phosphate
ALFP_3065	COG1327	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes
ALFP_3066	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
ALFP_3067	COG1881	PFAM PEBP family protein
ALFP_3068	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)
ALFP_3069	COG0739	heme binding
ALFP_3070	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
ALFP_3071	COG0316	Belongs to the HesB IscA family
ALFP_3073	COG0002	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde
ALFP_3074	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
ALFP_3075	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
ALFP_3076	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
ALFP_3077	COG0312	modulator of DNA gyrase
ALFP_3078	COG3028	Belongs to the UPF0307 family
ALFP_3083	COG4566	intracellular signal transduction
ALFP_3084	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)
ALFP_3086	COG0402	S-adenosylhomocysteine deaminase activity
ALFP_3087	COG2233	PERMEase
ALFP_3088	COG2945	thiolester hydrolase activity
ALFP_3088	COG0596	Alpha beta hydrolase
ALFP_3090	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_3092	COG0583	DNA-binding transcription factor activity
ALFP_3093	COG4681	YaeQ
ALFP_3098	COG0762	integral membrane protein
ALFP_3099	COG2169	Transcriptional regulator
ALFP_3099	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
ALFP_3100	COG3133	Outer membrane lipoprotein
ALFP_3103	COG2264	protein methyltransferase activity
ALFP_3104	COG0439	Biotin carboxylase
ALFP_3105	COG0511	ligase activity, forming carbon-carbon bonds
ALFP_3106	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
ALFP_3108	COG0773	UDP-N-acetylmuramate-L-alanine ligase activity
ALFP_3109	COG3150	esterase
ALFP_3112	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)
ALFP_3113	COG0744	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors
ALFP_3115	COG0639	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP
ALFP_3117	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
ALFP_3118	COG1678	Uncharacterized ACR, COG1678
ALFP_3120	COG0352	thiamine-phosphate diphosphorylase activity
ALFP_3122	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
ALFP_3123	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
ALFP_3124	COG0001	glutamate-1-semialdehyde 2,1-aminomutase activity
ALFP_3128	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
ALFP_3130	COG3237	CsbD-like
ALFP_3132	COG0261	This protein binds to 23S rRNA in the presence of protein L20
ALFP_3133	COG0211	Belongs to the bacterial ribosomal protein bL27 family
ALFP_3134	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
ALFP_3135	COG0263	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate
ALFP_3140	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
ALFP_3143	COG1126	abc transporter atp-binding protein
ALFP_3144	COG0765	amino acid transport
ALFP_3145	COG4597	amino acid ABC transporter
ALFP_3146	COG0834	ABC-type amino acid transport signal transduction systems periplasmic component domain
ALFP_3147	COG2884	Cell division ATP-binding protein ftsE
ALFP_3148	COG2177	Part of the ABC transporter FtsEX involved in
ALFP_3150	COG0772	Belongs to the SEDS family
ALFP_3151	COG0768	penicillin binding
ALFP_3153	COG1792	Involved in formation and maintenance of cell shape
ALFP_3154	COG1077	Cell shape determining protein MreB Mrl
ALFP_3155	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)
ALFP_3156	COG0154	amidase activity
ALFP_3157	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)
ALFP_3159	COG0583	DNA-binding transcription factor activity
ALFP_3160	COG2259	Doxx family
ALFP_3161	COG3384	dioxygenase
ALFP_3166	COG3604	Transcriptional regulator
ALFP_3169	COG0786	glutamate:sodium symporter activity
ALFP_3170	COG0142	geranyltranstransferase activity
ALFP_3172	COG0494	nUDIX hydrolase
ALFP_3173	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
ALFP_3178	COG4582	Cell division factor that enhances FtsZ-ring assembly. Directly interacts with FtsZ and promotes bundling of FtsZ protofilaments, with a reduction in FtsZ GTPase activity
ALFP_3179	COG0237	dephospho-CoA kinase activity
ALFP_3182	COG0414	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate
ALFP_3183	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
ALFP_3185	COG0477	Major facilitator Superfamily
ALFP_3188	COG4206	TonB-dependent receptor
ALFP_3189	COG0614	abc-type fe3 -hydroxamate transport system, periplasmic component
ALFP_3192	COG1595	DNA-templated transcription, initiation
ALFP_3194	COG3203	Forms passive diffusion pores that allow small molecular weight hydrophilic materials across the outer membrane
ALFP_3198	COG0598	Magnesium transport protein CorA
ALFP_3202	COG2022	thiamine diphosphate biosynthetic process
ALFP_3203	COG0351	phosphomethylpyrimidine kinase
ALFP_3204	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
ALFP_3205	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
ALFP_3206	COG1538	Outer membrane efflux protein
ALFP_3207	COG0615	ADP-L-glycero-beta-D-manno-heptose biosynthetic process
ALFP_3209	COG0661	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis
ALFP_3212	COG2226	methyltransferase
ALFP_3213	COG0745	RESPONSE REGULATOR receiver
ALFP_3216	COG2049	5-oxoprolinase (ATP-hydrolyzing) activity
ALFP_3217	COG1984	allophanate hydrolase subunit 2
ALFP_3218	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
ALFP_3219	COG1238	metal cluster binding
ALFP_3223	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
ALFP_3225	COG4987	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease ATP-binding protein CydC
ALFP_3226	COG4988	ABC transporter
ALFP_3228	COG1294	oxidase, subunit
ALFP_3229	COG1271	oxidase subunit
ALFP_3232	COG1778	Involved in the biosynthesis of lipopolysaccharides (LPSs). Catalyzes the hydrolysis of 3-deoxy-D-manno-octulosonate 8-phosphate (KDO 8-P) to 3-deoxy-D-manno-octulosonate (KDO) and inorganic phosphate
ALFP_3235	COG1137	ATPase activity
ALFP_3237	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
ALFP_3238	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
ALFP_3239	COG1660	Displays ATPase and GTPase activities
ALFP_3241	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
ALFP_3242	COG0792	nuclease activity
ALFP_3243	COG0279	D-glycero-D-manno-heptose 7-phosphate biosynthetic process
ALFP_3246	COG0548	Belongs to the acetylglutamate kinase family. ArgB subfamily
ALFP_3250	COG0476	Involved in molybdopterin and thiamine biosynthesis, family 2
ALFP_3251	COG0793	Belongs to the peptidase S41A family
ALFP_3253	COG0588	phosphoglycerate mutase activity
ALFP_3254	COG0607	Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS
ALFP_3256	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
ALFP_3257	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
ALFP_3258	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_3259	COG0219	Methylates the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). Catalyzes the methyl transfer from S- adenosyl-L-methionine to the 2'-OH of the wobble nucleotide
ALFP_3260	COG1040	competence protein
ALFP_3261	COG2226	methyltransferase
ALFP_3262	COG4771	TonB-dependent receptor
ALFP_3263	COG0745	RESPONSE REGULATOR receiver
ALFP_3266	COG2204	response regulator
ALFP_3272	COG3473	Maleate cis-trans isomerase
ALFP_3276	COG4525	Part of the ABC transporter complex TauABC involved in taurine import. Responsible for energy coupling to the transport system
ALFP_3282	COG0836	Belongs to the mannose-6-phosphate isomerase type 2 family
ALFP_3282	COG0662	Cupin 2, conserved barrel domain protein
ALFP_3283	COG1215	transferase activity, transferring glycosyl groups
ALFP_3285	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
ALFP_3288	COG1088	dTDP-glucose 4,6-dehydratase activity
ALFP_3289	COG1209	Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis
ALFP_3292	COG0355	proton-transporting ATP synthase activity, rotational mechanism
ALFP_3293	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
ALFP_3294	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
ALFP_3295	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
ALFP_3296	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
ALFP_3297	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
ALFP_3299	COG0356	it plays a direct role in the translocation of protons across the membrane
ALFP_3301	COG1024	Enoyl-CoA hydratase
ALFP_3304	COG0037	tRNA processing
ALFP_3305	COG0163	prenyltransferase activity
ALFP_3306	COG0278	Belongs to the glutaredoxin family. Monothiol subfamily
ALFP_3307	COG2890	protein-(glutamine-N5) methyltransferase activity
ALFP_3309	COG0373	Catalyzes the NADPH-dependent reduction of glutamyl- tRNA(Glu) to glutamate 1-semialdehyde (GSA)
ALFP_3314	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
ALFP_3315	COG2264	protein methyltransferase activity
ALFP_3316	COG4773	Receptor
ALFP_3320	COG4147	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family
ALFP_3325	COG3180	Ammonia monooxygenase
ALFP_3329	COG5002	protein histidine kinase activity
ALFP_3332	COG0477	Major facilitator Superfamily
ALFP_3333	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
ALFP_3337	COG1116	anion transmembrane transporter activity
ALFP_3342	COG3383	formate dehydrogenase (NAD+) activity
ALFP_3342	COG0243	molybdopterin cofactor binding
ALFP_3343	COG3383	formate dehydrogenase (NAD+) activity
ALFP_3343	COG0243	molybdopterin cofactor binding
ALFP_3344	COG0437	4 iron, 4 sulfur cluster binding
ALFP_3345	COG2864	formate dehydrogenase
ALFP_3347	COG1921	L-seryl-tRNASec selenium transferase activity
ALFP_3348	COG3276	selenocysteine insertion sequence binding
ALFP_3349	COG1476	TRANSCRIPTIONal
ALFP_3350	COG0235	Class ii aldolase
ALFP_3352	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_3356	COG0709	Synthesizes selenophosphate from selenide and ATP
ALFP_3359	COG0583	DNA-binding transcription factor activity
ALFP_3360	COG2603	Catalyzes the transfer of selenium from selenophosphate for conversion of 2-thiouridine to 2-selenouridine at the wobble position in tRNA
ALFP_3361	COG3901	Regulator of nitric oxide reductase transcription
ALFP_3361	COG0348	domain, Protein
ALFP_3362	COG4263	nitrous-oxide reductase activity
ALFP_3365	COG1277	ABC-type transport system involved in multi-copper enzyme maturation permease component
ALFP_3368	COG0166	Belongs to the GPI family
ALFP_3373	COG1215	transferase activity, transferring glycosyl groups
ALFP_3381	COG0677	UDP-N-acetyl-D-mannosamine dehydrogenase activity
ALFP_3387	COG0156	8-amino-7-oxononanoate synthase activity
ALFP_3390	COG2233	PERMEase
ALFP_3391	COG0697	spore germination
ALFP_3392	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
ALFP_3393	COG0697	spore germination
ALFP_3397	COG2885	chlorophyll binding
ALFP_3414	COG3501	Rhs element vgr protein
ALFP_3416	COG0183	Belongs to the thiolase family
ALFP_3417	COG1024	Enoyl-CoA hydratase
ALFP_3417	COG1250	3-hydroxyacyl-CoA dehydrogenase
ALFP_3420	COG1127	ABC transporter
ALFP_3421	COG0767	ABC-type transport system involved in resistance to organic solvents, permease component
ALFP_3422	COG1463	ABC-type transport system involved in resistance to organic solvents, periplasmic component
ALFP_3425	COG1131	(ABC) transporter
ALFP_3426	COG0842	Transport permease protein
ALFP_3428	COG0766	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine
ALFP_3429	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
ALFP_3430	COG0141	Catalyzes the sequential NAD-dependent oxidations of L- histidinol to L-histidinaldehyde and then to L-histidine
ALFP_3431	COG0131	Imidazoleglycerol-phosphate dehydratase
ALFP_3433	COG0106	1-(5-phosphoribosyl)-5- 5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase
ALFP_3434	COG0107	imidazoleglycerol-phosphate synthase activity
ALFP_3435	COG0139	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP
ALFP_3436	COG0140	phosphoribosyl-ATP diphosphatase activity
ALFP_3437	COG0537	adenosine 5'-monophosphoramidase activity
ALFP_3438	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
ALFP_3441	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
ALFP_3443	COG1970	mechanosensitive ion channel activity
ALFP_3444	COG0723	plastoquinol--plastocyanin reductase activity
ALFP_3445	COG1290	Component of the ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex), which is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis
ALFP_3446	COG2857	Cytochrome c1
ALFP_3447	COG0625	glutathione transferase activity
ALFP_3448	COG2969	positive regulation of protein catabolic process
ALFP_3449	COG4208	sulfate ABC transporter
ALFP_3450	COG0555	PFAM binding-protein-dependent transport systems inner membrane component
ALFP_3451	COG4150	thiosulfate binding
ALFP_3458	COG4948	Mandelate Racemase Muconate Lactonizing
ALFP_3460	COG4638	Rieske (2fe-2S)
ALFP_3463	COG1052	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family
ALFP_3467	COG4663	Part of the tripartite ATP-independent periplasmic (TRAP) transport system
ALFP_3468	COG0451	ADP-glyceromanno-heptose 6-epimerase activity
ALFP_3470	COG2084	Dehydrogenase
ALFP_3471	COG0129	dihydroxy-acid dehydratase activity
ALFP_3472	COG1802	Transcriptional regulator
ALFP_3473	COG1522	sequence-specific DNA binding
ALFP_3475	COG3483	tryptophan 2,3-dioxygenase activity
ALFP_3479	COG0413	3-methyl-2-oxobutanoate hydroxymethyltransferase activity
ALFP_3480	COG0656	L-ascorbic acid biosynthetic process
ALFP_3482	COG1048	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate
ALFP_3483	COG0745	RESPONSE REGULATOR receiver
ALFP_3483	COG3706	GGDEF domain
ALFP_3484	COG2226	methyltransferase
ALFP_3486	COG0388	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source
ALFP_3489	COG3653	N-Acyl-D-aspartate D-glutamate deacylase
ALFP_3490	COG0583	DNA-binding transcription factor activity
ALFP_3491	COG0477	Major facilitator Superfamily
ALFP_3492	COG1028	Short-chain dehydrogenase reductase Sdr
ALFP_3495	COG1335	isochorismatase
ALFP_3499	COG2823	Periplasmic or secreted lipoprotein
ALFP_3501	COG3284	Transcriptional regulator
ALFP_3509	COG1595	DNA-templated transcription, initiation
ALFP_3510	COG0449	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
ALFP_3511	COG1522	sequence-specific DNA binding
ALFP_3514	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
ALFP_3518	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
ALFP_3526	COG0109	protoheme IX farnesyltransferase activity
ALFP_3530	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
ALFP_3534	COG3568	Endonuclease Exonuclease Phosphatase
ALFP_3535	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)
ALFP_3539	COG1167	Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain MocR family and their eukaryotic orthologs
ALFP_3541	COG1228	amidohydrolase
ALFP_3543	COG2986	histidine ammonia-lyase
ALFP_3544	COG2987	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate
ALFP_3550	COG2814	Major facilitator Superfamily
ALFP_3552	COG0789	Transcriptional regulator
ALFP_3558	COG0625	glutathione transferase activity
ALFP_3565	COG2365	Tyrosine phosphatase family
ALFP_3566	COG1236	Exonuclease of the beta-lactamase fold involved in RNA processing
ALFP_3570	COG2423	ornithine cyclodeaminase activity
ALFP_3580	COG3069	C4-dicarboxylate transmembrane transporter activity
ALFP_3582	COG1802	Transcriptional regulator
ALFP_3584	COG2814	Major facilitator Superfamily
ALFP_3587	COG2814	Major facilitator Superfamily
ALFP_3588	COG0251	oxidation-reduction process
ALFP_3589	COG3181	Tripartite tricarboxylate transporter family receptor
ALFP_3590	COG0179	Fumarylacetoacetate (FAA) hydrolase
ALFP_3591	COG2186	Transcriptional regulator
ALFP_3592	COG0629	single-stranded DNA binding
ALFP_3593	COG2814	Major facilitator Superfamily
ALFP_3595	COG0232	Belongs to the dGTPase family. Type 2 subfamily
ALFP_3596	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
ALFP_3597	COG0703	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate
ALFP_3601	COG5001	Diguanylate cyclase
ALFP_3601	COG5002	protein histidine kinase activity
ALFP_3603	COG0755	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes
ALFP_3604	COG1333	cytochrome c biogenesis protein
ALFP_3606	COG0218	Necessary for normal cell division and for the maintenance of normal septation
ALFP_3607	COG0113	porphobilinogen synthase activity
ALFP_3608	COG4232	protein-disulfide reductase activity
ALFP_3612	COG2141	COG2141 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases
ALFP_3613	COG0203	ribosomal protein L17
ALFP_3614	COG0202	RNA polymerase activity
ALFP_3615	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
ALFP_3616	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
ALFP_3617	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
ALFP_3619	COG0201	protein transport
ALFP_3620	COG0200	Binds to the 23S rRNA
ALFP_3621	COG1841	ribosomal large subunit assembly
ALFP_3622	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
ALFP_3623	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
ALFP_3624	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
ALFP_3625	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
ALFP_3626	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
ALFP_3627	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
ALFP_3628	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
ALFP_3629	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
ALFP_3637	COG1538	Outer membrane efflux protein
ALFP_3640	COG1960	acyl-CoA dehydrogenase activity
ALFP_3641	COG0183	Belongs to the thiolase family
ALFP_3643	COG2067	long-chain fatty acid transport protein
ALFP_3646	COG0318	PFAM AMP-dependent synthetase and ligase
ALFP_3647	COG0369	Component of the sulfite reductase complex that catalyzes the 6-electron reduction of sulfite to sulfide. This is one of several activities required for the biosynthesis of L- cysteine from sulfate. The flavoprotein component catalyzes the electron flow from NADPH - FAD - FMN to the hemoprotein component
ALFP_3648	COG0155	Belongs to the nitrite and sulfite reductase 4Fe-4S domain family
ALFP_3649	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
ALFP_3649	COG1648	precorrin-2 dehydrogenase activity
ALFP_3652	COG1116	anion transmembrane transporter activity
ALFP_3656	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
ALFP_3657	COG0255	Belongs to the universal ribosomal protein uL29 family
ALFP_3658	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
ALFP_3659	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
ALFP_3660	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
ALFP_3661	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
ALFP_3662	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
ALFP_3663	COG0089	rRNA binding
ALFP_3664	COG0088	Forms part of the polypeptide exit tunnel
ALFP_3665	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
ALFP_3667	COG4175	Glycine betaine
ALFP_3668	COG4176	ABC-type proline glycine betaine transport system permease component
ALFP_3669	COG0051	transcription antitermination factor activity, RNA binding
ALFP_3670	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
ALFP_3671	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
ALFP_3672	COG0049	tRNA binding
ALFP_3673	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
ALFP_3679	COG3241	Transfers electrons from cytochrome c551 to cytochrome oxidase
ALFP_3680	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
ALFP_3681	COG0085	RNA polymerase activity
ALFP_3682	COG0222	ribosome binding
ALFP_3683	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
ALFP_3684	COG0081	regulation of translation
ALFP_3685	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
ALFP_3688	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
ALFP_3690	COG1475	DNA binding
ALFP_3691	COG1192	Involved in chromosome partitioning
ALFP_3693	COG0445	tRNA wobble uridine modification
ALFP_3694	COG0436	Aminotransferase
ALFP_3697	COG3706	GGDEF domain
ALFP_3698	COG0688	phosphatidylethanolamine metabolic process
ALFP_3708	COG3645	SOS response
ALFP_3709	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
ALFP_3717	COG0559	Belongs to the binding-protein-dependent transport system permease family
ALFP_3721	COG0596	Alpha beta hydrolase
ALFP_3722	COG2309	aminopeptidase activity
ALFP_3723	COG1335	isochorismatase
ALFP_3728	COG0753	catalase activity
ALFP_3729	COG0706	membrane insertase activity
ALFP_3730	COG0759	Could be involved in insertion of integral membrane proteins into the membrane
ALFP_3731	COG0594	ribonuclease P activity
ALFP_3732	COG0230	Belongs to the bacterial ribosomal protein bL34 family