locus-tag	class	description
ACL_0001	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
ACL_0005	COG1195	it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP
ACL_0006	COG0187	DNA topoisomerase II activity
ACL_0008	COG0577	efflux transmembrane transporter activity
ACL_0008	COG1136	(ABC) transporter
ACL_0009	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)
ACL_0010	COG0745	RESPONSE REGULATOR receiver
ACL_0011	COG2205	protein histidine kinase activity
ACL_0011	COG2770	Histidine kinase
ACL_0012	COG0537	adenosine 5'-monophosphoramidase activity
ACL_0013	COG4869	propanediol catabolic process
ACL_0014	COG1078	dGTPase activity
ACL_0015	COG1658	Required for correct processing of both the 5' and 3' ends of 5S rRNA precursor. Cleaves both sides of a double-stranded region yielding mature 5S rRNA in one step
ACL_0016	COG0030	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity
ACL_0017	COG2088	sporulation resulting in formation of a cellular spore
ACL_0018	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)
ACL_0019	COG0193	aminoacyl-tRNA hydrolase activity
ACL_0020	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
ACL_0023	COG0110	maltose O-acetyltransferase activity
ACL_0025	COG1502	Catalyzes the reversible phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol
ACL_0028	COG1882	Formate acetyltransferase
ACL_0029	COG1180	Activation of pyruvate formate-lyase under anaerobic conditions by generation of an organic free radical, using S- adenosylmethionine and reduced flavodoxin as cosubstrates to produce 5'-deoxy-adenosine
ACL_0030	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
ACL_0032	COG2759	Belongs to the formate--tetrahydrofolate ligase family
ACL_0033	COG0190	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate
ACL_0038	COG0395	ABC-type sugar transport system, permease component
ACL_0039	COG3459	Glycosyltransferase 36 associated
ACL_0044	COG0217	transcriptional regulatory protein
ACL_0047	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
ACL_0049	COG4658	electron transport chain
ACL_0059	COG0590	tRNA wobble adenosine to inosine editing
ACL_0063	COG0445	tRNA wobble uridine modification
ACL_0064	COG0357	Ribosomal RNA small subunit methyltransferase G
ACL_0082	COG2084	Dehydrogenase
ACL_0083	COG1307	EDD domain protein, DegV family
ACL_0086	COG0051	transcription antitermination factor activity, RNA binding
ACL_0087	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
ACL_0088	COG0088	Forms part of the polypeptide exit tunnel
ACL_0089	COG0089	rRNA binding
ACL_0090	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
ACL_0091	COG0185	Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
ACL_0092	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
ACL_0093	COG0092	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
ACL_0094	COG0197	Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
ACL_0095	COG0255	Belongs to the universal ribosomal protein uL29 family
ACL_0096	COG0186	One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA
ACL_0097	COG0093	Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
ACL_0098	COG0198	One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
ACL_0099	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
ACL_0100	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
ACL_0101	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
ACL_0102	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
ACL_0103	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
ACL_0104	COG0098	Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
ACL_0105	COG1841	ribosomal large subunit assembly
ACL_0106	COG0200	Binds to the 23S rRNA
ACL_0107	COG0201	protein transport
ACL_0108	COG0563	adenylate kinase activity
ACL_0109	COG0024	Methionine aminopeptidase
ACL_0110	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
ACL_0111	COG0257	Belongs to the bacterial ribosomal protein bL36 family
ACL_0112	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
ACL_0113	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
ACL_0114	COG0202	RNA polymerase activity
ACL_0115	COG0203	ribosomal protein L17
ACL_0118	COG0519	Catalyzes the synthesis of GMP from XMP
ACL_0121	COG0492	ferredoxin-NADP+ reductase activity
ACL_0122	COG3118	belongs to the thioredoxin family
ACL_0123	COG1122	ATPase activity
ACL_0124	COG1122	ATPase activity
ACL_0126	COG0101	tRNA pseudouridine synthase activity
ACL_0127	COG0125	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis
ACL_0128	COG0470	DNA polymerase III
ACL_0129	COG2890	protein-(glutamine-N5) methyltransferase activity
ACL_0130	COG0313	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA
ACL_0133	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
ACL_0134	COG0393	Putative heavy-metal-binding
ACL_0136	COG5001	Diguanylate cyclase
ACL_0137	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
ACL_0138	COG0103	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
ACL_0139	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)
ACL_0141	COG1055	Involved in arsenical resistance. Thought to form the channel of an arsenite pump
ACL_0143	COG0215	cysteine-tRNA ligase activity
ACL_0144	COG1939	Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc)
ACL_0145	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
ACL_0149	COG0267	Belongs to the bacterial ribosomal protein bL33 family
ACL_0151	COG0250	Participates in transcription elongation, termination and antitermination
ACL_0154	COG2356	endonuclease I
ACL_0160	COG2356	endonuclease I
ACL_0164	COG2514	catechol 2,3-dioxygenase activity
ACL_0166	COG0080	Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors
ACL_0167	COG0081	regulation of translation
ACL_0168	COG0244	Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
ACL_0169	COG0222	ribosome binding
ACL_0170	COG2813	Specifically methylates the guanine in position
ACL_0171	COG0085	RNA polymerase activity
ACL_0172	COG0086	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
ACL_0174	COG5001	Diguanylate cyclase
ACL_0174	COG3300	MHYT domain
ACL_0177	COG1012	belongs to the aldehyde dehydrogenase family
ACL_0177	COG1454	alcohol dehydrogenase
ACL_0185	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
ACL_0186	COG0049	tRNA binding
ACL_0187	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
ACL_0188	COG0050	This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis
ACL_0189	COG0084	hydrolase, TatD family'
ACL_0191	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
ACL_0192	COG1546	Belongs to the CinA family
ACL_0192	COG1058	Belongs to the CinA family
ACL_0193	COG0360	Binds together with S18 to 16S ribosomal RNA
ACL_0194	COG0629	single-stranded DNA binding
ACL_0195	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
ACL_0196	COG0359	binds to the 23S rRNA
ACL_0196	COG3887	signaling protein consisting of a modified GGDEF domain and a DHH domain
ACL_0197	COG0305	Participates in initiation and elongation during chromosome replication
ACL_0198	COG0783	Belongs to the Dps family
ACL_0201	COG0216	Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA
ACL_0203	COG0009	L-threonylcarbamoyladenylate synthase
ACL_0205	COG0698	ribose 5-phosphate isomerase
ACL_0206	COG0035	Catalyzes the conversion of uracil and 5-phospho-alpha- D-ribose 1-diphosphate (PRPP) to UMP and diphosphate
ACL_0207	COG1739	Uncharacterized protein family UPF0029
ACL_0208	COG0617	tRNA 3'-terminal CCA addition
ACL_0209	COG3481	metal-dependent phosphohydrolase, HD sub domain
ACL_0212	COG1576	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA
ACL_0213	COG1970	mechanosensitive ion channel activity
ACL_0214	COG1307	EDD domain protein, DegV family
ACL_0215	COG2876	3-deoxy-7-phosphoheptulonate synthase activity
ACL_0216	COG0287	Prephenate dehydrogenase
ACL_0217	COG0337	Catalyzes the conversion of 3-deoxy-D-arabino- heptulosonate 7-phosphate (DAHP) to dehydroquinate (DHQ)
ACL_0218	COG0128	3-phosphoshikimate 1-carboxyvinyltransferase activity
ACL_0219	COG1605	Chorismate mutase
ACL_0219	COG0077	Prephenate dehydratase
ACL_0220	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)
ACL_0221	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
ACL_0222	COG4129	membrane
ACL_0224	COG3425	synthase
ACL_0226	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)
ACL_0227	COG0416	fatty acid biosynthetic process
ACL_0228	COG0571	ribonuclease III activity
ACL_0230	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
ACL_0232	COG1132	(ABC) transporter
ACL_0233	COG1132	(ABC) transporter
ACL_0240	COG2706	6-phosphogluconolactonase activity
ACL_0241	COG0236	Carrier of the growing fatty acid chain in fatty acid biosynthesis
ACL_0242	COG0495	leucyl-tRNA aminoacylation
ACL_0244	COG2519	Catalyzes the S-adenosyl-L-methionine-dependent formation of N(1)-methyladenine at position 58 (m1A58) in tRNA
ACL_0245	COG1242	4 iron, 4 sulfur cluster binding
ACL_0247	COG2176	DNA-directed DNA polymerase activity
ACL_0249	COG0016	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
ACL_0250	COG0072	phenylalanine-tRNA ligase activity
ACL_0250	COG0073	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
ACL_0251	COG0820	rRNA (adenine-C2-)-methyltransferase activity
ACL_0252	COG1162	GTPase activity
ACL_0253	COG0036	Belongs to the ribulose-phosphate 3-epimerase family
ACL_0255	COG0227	Belongs to the bacterial ribosomal protein bL28 family
ACL_0256	COG1461	Dihydroxyacetone kinase
ACL_0261	COG4632	Exopolysaccharide biosynthesis protein
ACL_0261	COG5434	Belongs to the glycosyl hydrolase 28 family
ACL_0264	COG1486	melibiose metabolic process
ACL_0265	COG1649	PFAM Uncharacterised BCR, COG1649
ACL_0267	COG1680	COG1680 Beta-lactamase class C and other penicillin binding
ACL_0273	COG0395	ABC-type sugar transport system, permease component
ACL_0276	COG1175	transmembrane transport
ACL_0277	COG0395	ABC-type sugar transport system, permease component
ACL_0279	COG3876	Protein conserved in bacteria
ACL_0280	COG1472	Belongs to the glycosyl hydrolase 3 family
ACL_0282	COG2103	Specifically catalyzes the cleavage of the D-lactyl ether substituent of MurNAc 6-phosphate, producing GlcNAc 6- phosphate and D-lactate
ACL_0284	COG0363	glucosamine-6-phosphate deaminase activity
ACL_0287	COG3557	Belongs to the UPF0374 family
ACL_0288	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
ACL_0289	COG0846	NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form
ACL_0292	COG2226	methyltransferase
ACL_0293	COG1278	Cold shock
ACL_0295	COG2996	Protein conserved in bacteria
ACL_0296	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)
ACL_0298	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
ACL_0300	COG1544	Required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase
ACL_0302	COG0605	Destroys radicals which are normally produced within the cells and which are toxic to biological systems
ACL_0304	COG0194	GDP metabolic process
ACL_0306	COG0322	excinuclease ABC activity
ACL_0309	COG0595	An RNase that has 5'-3' exonuclease and possibly endonuclease activity. Involved in maturation of rRNA and in some organisms also mRNA maturation and or decay
ACL_0313	COG1373	ATPase (AAA superfamily
ACL_0314	COG2071	gamma-glutamyl-gamma-aminobutyrate hydrolase activity
ACL_0315	COG0669	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate
ACL_0316	COG0779	Required for maturation of 30S ribosomal subunits
ACL_0317	COG0195	Participates in both transcription termination and antitermination
ACL_0318	COG2740	Nucleic-acid-binding protein implicated in transcription termination
ACL_0319	COG1358	cellular component organization or biogenesis
ACL_0320	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
ACL_0321	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
ACL_0323	COG3279	Response regulator of the LytR AlgR family
ACL_0324	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
ACL_0325	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
ACL_0326	COG1267	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)
ACL_0328	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
ACL_0330	COG0653	protein targeting
ACL_0331	COG1186	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA
ACL_0332	COG1284	Uncharacterised 5xTM membrane BCR, YitT family COG1284
ACL_0334	COG0561	phosphatase activity
ACL_0336	COG1674	ftsk spoiiie
ACL_0337	COG1161	Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity
ACL_0338	COG0164	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
ACL_0339	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
ACL_0341	COG1131	(ABC) transporter
ACL_0343	COG1136	(ABC) transporter
ACL_0346	COG2077	Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides
ACL_0347	COG0552	protein localization to endoplasmic reticulum
ACL_0348	COG2739	Might take part in the signal recognition particle (SRP) pathway. This is inferred from the conservation of its genetic proximity to ftsY ffh. May be a regulatory protein
ACL_0349	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
ACL_0353	COG1484	DNA-dependent DNA replication
ACL_0354	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)
ACL_0355	COG4152	abc transporter atp-binding protein
ACL_0357	COG0489	protein tyrosine kinase activity
ACL_0360	COG2003	Belongs to the UPF0758 family
ACL_0362	COG0261	This protein binds to 23S rRNA in the presence of protein L20
ACL_0364	COG0211	Belongs to the bacterial ribosomal protein bL27 family
ACL_0365	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
ACL_0369	COG0632	four-way junction helicase activity
ACL_0370	COG2255	four-way junction helicase activity
ACL_0372	COG1968	undecaprenyl-diphosphatase activity
ACL_0376	COG0220	tRNA (guanine-N7-)-methyltransferase activity
ACL_0377	COG1363	Peptidase, m42
ACL_0378	COG0656	L-ascorbic acid biosynthetic process
ACL_0379	COG0187	DNA topoisomerase II activity
ACL_0380	COG0188	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner
ACL_0383	COG1307	EDD domain protein, DegV family
ACL_0387	COG1744	ABC transporter substrate-binding protein PnrA-like
ACL_0391	COG1428	Deoxynucleoside kinase
ACL_0392	COG1595	DNA-templated transcription, initiation
ACL_0395	COG1003	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
ACL_0396	COG0403	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor
ACL_0397	COG0509	glycine decarboxylation via glycine cleavage system
ACL_0398	COG0404	The glycine cleavage system catalyzes the degradation of glycine
ACL_0400	COG0696	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
ACL_0402	COG0148	phosphopyruvate hydratase activity
ACL_0403	COG1803	Methylglyoxal synthase
ACL_0405	COG0557	exoribonuclease II activity
ACL_0406	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
ACL_0407	COG1752	Esterase of the alpha-beta hydrolase superfamily
ACL_0408	COG0671	phosphoesterase, PA-phosphatase related
ACL_0413	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
ACL_0414	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
ACL_0417	COG1132	(ABC) transporter
ACL_0418	COG1132	(ABC) transporter
ACL_0420	COG3007	enoyl-[acyl-carrier-protein] reductase (NADH) activity
ACL_0421	COG0071	Belongs to the small heat shock protein (HSP20) family
ACL_0422	COG0277	FAD linked oxidase domain protein
ACL_0423	COG2824	Alkylphosphonate utilization operon protein PhnA
ACL_0430	COG1299	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
ACL_0430	COG1762	phosphoenolpyruvate-dependent sugar phosphotransferase system
ACL_0430	COG1445	protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity
ACL_0436	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)
ACL_0438	COG3177	Filamentation induced by cAMP protein fic
ACL_0447	COG3706	GGDEF domain
ACL_0448	COG0366	Alpha amylase catalytic
ACL_0449	COG2304	oxidoreductase activity
ACL_0451	COG5001	Diguanylate cyclase
ACL_0452	COG2217	Heavy metal translocating P-type atpase
ACL_0458	COG0439	Biotin carboxylase
ACL_0459	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
ACL_0461	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
ACL_0462	COG0331	[acyl-carrier-protein] S-malonyltransferase activity
ACL_0463	COG1028	Short-chain dehydrogenase reductase Sdr
ACL_0464	COG0304	beta-ketoacyl-acyl-carrier-protein synthase II activity
ACL_0465	COG0764	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity
ACL_0467	COG0492	ferredoxin-NADP+ reductase activity
ACL_0471	COG3839	Belongs to the ABC transporter superfamily
ACL_0472	COG1176	ABC-type spermidine putrescine transport system, permease component I
ACL_0473	COG1177	transmembrane transport
ACL_0476	COG1570	exodeoxyribonuclease VII activity
ACL_0477	COG1722	exodeoxyribonuclease VII activity
ACL_0479	COG0497	DNA recombination
ACL_0481	COG0513	Belongs to the DEAD box helicase family
ACL_0482	COG0648	Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin
ACL_0484	COG1937	Protein conserved in bacteria
ACL_0485	COG0018	arginyl-trna synthetase
ACL_0490	COG0394	Belongs to the low molecular weight phosphotyrosine protein phosphatase family
ACL_0492	COG1488	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP
ACL_0495	COG1272	protein, Hemolysin III
ACL_0496	COG0282	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction
ACL_0500	COG0410	ABC transporter
ACL_0502	COG1309	transcriptional regulator
ACL_0503	COG0183	Belongs to the thiolase family
ACL_0504	COG1028	Short-chain dehydrogenase reductase Sdr
ACL_0506	COG0427	acetyl-CoA hydrolase
ACL_0509	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
ACL_0512	COG0513	Belongs to the DEAD box helicase family
ACL_0513	COG2265	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
ACL_0518	COG0297	glycogen (starch) synthase activity
ACL_0522	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
ACL_0525	COG2135	peptidase activity
ACL_0528	COG0058	SHG alpha-glucan phosphorylase activity
ACL_0530	COG1609	Transcriptional regulator
ACL_0531	COG1523	belongs to the glycosyl hydrolase 13 family
ACL_0534	COG0656	L-ascorbic acid biosynthetic process
ACL_0535	COG0544	peptidyl-prolyl cis-trans isomerase activity
ACL_0536	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
ACL_0537	COG0218	Necessary for normal cell division and for the maintenance of normal septation
ACL_0538	COG1307	EDD domain protein, DegV family
ACL_0540	COG1670	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins
ACL_0542	COG0285	dihydrofolate synthase activity
ACL_0543	COG2267	carboxylic ester hydrolase activity
ACL_0544	COG2814	Major facilitator Superfamily
ACL_0550	COG0443	Heat shock 70 kDa protein
ACL_0552	COG0095	Lipoate-protein ligase
ACL_0553	COG1399	metal-binding, possibly nucleic acid-binding protein
ACL_0555	COG0275	rRNA processing
ACL_0557	COG1057	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)
ACL_0559	COG0482	sulfurtransferase activity
ACL_0560	COG0507	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD
ACL_0563	COG0346	lactoylglutathione lyase activity
ACL_0564	COG0346	lactoylglutathione lyase activity
ACL_0565	COG1846	Transcriptional regulator
ACL_0566	COG0400	carboxylic ester hydrolase activity
ACL_0589	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
ACL_0590	COG0732	type I restriction modification DNA specificity domain
ACL_0591	COG0610	Subunit R is required for both nuclease and ATPase activities, but not for modification
ACL_0628	COG4824	toxin secretion phage lysis holin
ACL_0632	COG0265	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain
ACL_0633	COG1401	restriction endodeoxyribonuclease activity
ACL_0637	COG0571	ribonuclease III activity
ACL_0646	COG0564	pseudouridine synthase activity
ACL_0647	COG1187	pseudouridine synthase activity
ACL_0648	COG1584	GPR1 FUN34 yaaH family protein
ACL_0650	COG0765	amino acid transport
ACL_0653	COG0300	oxidoreductase activity
ACL_0654	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
ACL_0656	COG0366	Alpha amylase catalytic
ACL_0659	COG3833	ABC-type maltose transport systems, permease component
ACL_0660	COG1175	transmembrane transport
ACL_0661	COG2182	Extracellular solute-binding protein
ACL_0665	COG1523	belongs to the glycosyl hydrolase 13 family
ACL_0667	COG0366	Alpha amylase catalytic
ACL_0668	COG3842	ATPase activity
ACL_0670	COG0386	Belongs to the glutathione peroxidase family
ACL_0671	COG1253	flavin adenine dinucleotide binding
ACL_0676	COG0481	GTPase activity
ACL_0678	COG0635	Involved in the biosynthesis of porphyrin-containing compound
ACL_0679	COG4974	Belongs to the 'phage' integrase family
ACL_0680	COG1015	Phosphotransfer between the C1 and C5 carbon atoms of pentose
ACL_0681	COG3763	UPF0154 protein
ACL_0682	COG0742	ribosomal rna small subunit methyltransferase
ACL_0685	COG0588	phosphoglycerate mutase activity
ACL_0690	COG0262	Key enzyme in folate metabolism. Catalyzes an essential reaction for de novo glycine and purine synthesis, and for DNA precursor synthesis
ACL_0691	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
ACL_0692	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
ACL_0699	COG0274	Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy- D-ribose 5-phosphate
ACL_0701	COG0496	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates
ACL_0702	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)
ACL_0703	COG1799	cell septum assembly
ACL_0704	COG0325	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis
ACL_0705	COG0012	GTP binding
ACL_0706	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
ACL_0707	COG0343	queuine tRNA-ribosyltransferase activity
ACL_0710	COG0778	Nitroreductase
ACL_0711	COG1136	(ABC) transporter
ACL_0711	COG0577	efflux transmembrane transporter activity
ACL_0712	COG0577	efflux transmembrane transporter activity
ACL_0712	COG1136	(ABC) transporter
ACL_0714	COG1609	Transcriptional regulator
ACL_0715	COG1472	Belongs to the glycosyl hydrolase 3 family
ACL_0718	COG0395	ABC-type sugar transport system, permease component
ACL_0719	COG1175	transmembrane transport
ACL_0722	COG0395	ABC-type sugar transport system, permease component
ACL_0723	COG1175	transmembrane transport
ACL_0726	COG5520	Belongs to the glycosyl hydrolase 30 family
ACL_0730	COG1472	Belongs to the glycosyl hydrolase 3 family
ACL_0731	COG2761	dithiol-disulfide isomerase involved in polyketide biosynthesis
ACL_0739	COG1230	cation diffusion facilitator family transporter
ACL_0741	COG2030	dehydratase
ACL_0752	COG1937	Protein conserved in bacteria
ACL_0754	COG0446	pyridine nucleotide-disulphide oxidoreductase
ACL_0760	COG1131	(ABC) transporter
ACL_0765	COG0656	L-ascorbic acid biosynthetic process
ACL_0767	COG1363	Peptidase, m42
ACL_0768	COG0534	Mate efflux family protein
ACL_0777	COG0133	tryptophan synthase activity
ACL_0781	COG2608	mercury ion transmembrane transporter activity
ACL_0781	COG2217	Heavy metal translocating P-type atpase
ACL_0782	COG2801	Transposase and inactivated derivatives
ACL_0786	COG0289	4-hydroxy-tetrahydrodipicolinate reductase
ACL_0787	COG0329	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)
ACL_0788	COG0136	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate
ACL_0790	COG0019	diaminopimelate decarboxylase activity
ACL_0791	COG0737	Belongs to the 5'-nucleotidase family
ACL_0793	COG0516	GMP reductase activity
ACL_0797	COG1304	FMN binding
ACL_0801	COG0652	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides
ACL_0802	COG2313	pseudouridylate synthase activity
ACL_0808	COG1185	polyribonucleotide nucleotidyltransferase activity
ACL_0809	COG0184	Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome
ACL_0810	COG3870	Protein conserved in bacteria
ACL_0811	COG0196	riboflavin kinase activity
ACL_0812	COG0130	Responsible for synthesis of pseudouridine from uracil- 55 in the psi GC loop of transfer RNAs
ACL_0813	COG3118	belongs to the thioredoxin family
ACL_0815	COG1039	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids
ACL_0817	COG0564	pseudouridine synthase activity
ACL_0818	COG0597	This protein specifically catalyzes the removal of signal peptides from prolipoproteins
ACL_0820	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
ACL_0821	COG2131	deaminase
ACL_0823	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)
ACL_0824	COG0124	histidyl-tRNA synthetase
ACL_0826	COG0628	permease
ACL_0827	COG1490	D-aminoacyl-tRNA deacylase activity
ACL_0828	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
ACL_0829	COG0503	Catalyzes a salvage reaction resulting in the formation of AMP, that is energically less costly than de novo synthesis
ACL_0830	COG2256	atpase related to the helicase subunit of the holliday junction resolvase
ACL_0831	COG0047	phosphoribosylformylglycinamidine synthase activity
ACL_0833	COG3331	DNA recombination
ACL_0841	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
ACL_0842	COG0291	Belongs to the bacterial ribosomal protein bL35 family
ACL_0843	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
ACL_0844	COG1132	(ABC) transporter
ACL_0845	COG1132	(ABC) transporter
ACL_0848	COG0006	proline dipeptidase activity
ACL_0849	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
ACL_0850	COG1521	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis
ACL_0851	COG0491	Thiolesterase that catalyzes the hydrolysis of S-D- lactoyl-glutathione to form glutathione and D-lactic acid
ACL_0852	COG0267	Belongs to the bacterial ribosomal protein bL33 family
ACL_0853	COG0488	(ABC) transporter
ACL_0855	COG2816	NAD+ diphosphatase activity
ACL_0869	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
ACL_0872	COG0776	regulation of translation
ACL_0873	COG0240	glycerol-3-phosphate dehydrogenase [NAD(P)+] activity
ACL_0874	COG1160	GTP binding
ACL_0875	COG0539	negative regulation of cytoplasmic translation
ACL_0876	COG0283	belongs to the cytidylate kinase family. Type 1 subfamily
ACL_0877	COG1187	pseudouridine synthase activity
ACL_0878	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
ACL_0879	COG0757	Catalyzes a trans-dehydration via an enolate intermediate
ACL_0881	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)
ACL_0882	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
ACL_0883	COG0249	that it carries out the mismatch recognition step. This protein has a weak ATPase activity
ACL_0885	COG1692	metallophosphoesterase
ACL_0886	COG4372	Transposase
ACL_0886	COG1418	mRNA catabolic process
ACL_0888	COG1132	(ABC) transporter
ACL_0889	COG1132	(ABC) transporter
ACL_0890	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
ACL_0892	COG0268	Binds directly to 16S ribosomal RNA
ACL_0893	COG2176	DNA-directed DNA polymerase activity
ACL_0895	COG0658	competence protein
ACL_0895	COG2333	competence protein COMEC
ACL_0897	COG0799	negative regulation of ribosome biogenesis
ACL_0898	COG1713	HD superfamily hydrolase involved in NAD metabolism
ACL_0899	COG1161	Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity
ACL_0900	COG0647	UMP catabolic process
ACL_0901	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
ACL_0904	COG3906	Belongs to the UPF0473 family
ACL_0905	COG0816	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA
ACL_0906	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
ACL_0908	COG4536	flavin adenine dinucleotide binding
ACL_0910	COG5001	Diguanylate cyclase
ACL_0911	COG0475	glutathione-regulated potassium exporter activity
ACL_0914	COG1307	EDD domain protein, DegV family
ACL_0915	COG0275	rRNA processing
ACL_0918	COG1823	symporter activity
ACL_0941	COG1132	(ABC) transporter
ACL_0944	COG0568	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
ACL_0945	COG0358	DNA primase activity
ACL_0946	COG0423	glycine-tRNA ligase activity
ACL_0948	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
ACL_0949	COG0295	cytidine deaminase activity
ACL_0950	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
ACL_0951	COG1702	phosphate starvation-inducible protein PhoH
ACL_0952	COG0828	Belongs to the bacterial ribosomal protein bS21 family
ACL_0954	COG1314	P-P-bond-hydrolysis-driven protein transmembrane transporter activity
ACL_0955	COG4607	ABC-type enterochelin transport system periplasmic component
ACL_0956	COG4604	ABC transporter, ATP-binding protein
ACL_0957	COG4605	iron ion homeostasis
ACL_0958	COG4606	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily
ACL_0961	COG2317	Broad specificity carboxypetidase that releases amino acids sequentially from the C-terminus, including neutral, aromatic, polar and basic residues
ACL_0962	COG0364	Catalyzes the oxidation of glucose 6-phosphate to 6- phosphogluconolactone
ACL_0963	COG1023	phosphogluconate dehydrogenase (decarboxylating) activity
ACL_0964	COG2239	Acts as a magnesium transporter
ACL_0965	COG2239	Acts as a magnesium transporter
ACL_0968	COG1347	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
ACL_0969	COG2209	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol
ACL_0970	COG2871	sodium ion transport
ACL_0971	COG1394	ATPase activity, coupled to movement of substances
ACL_0972	COG1156	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit
ACL_0973	COG1155	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit
ACL_0978	COG1269	ATP hydrolysis coupled proton transport
ACL_0982	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
ACL_0984	COG0056	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit
ACL_0985	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
ACL_0986	COG0711	Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0)
ACL_0987	COG0636	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation
ACL_0988	COG0356	it plays a direct role in the translocation of protons across the membrane
ACL_0991	COG0312	modulator of DNA gyrase
ACL_0992	COG0312	modulator of DNA gyrase
ACL_0993	COG1132	(ABC) transporter
ACL_0994	COG1132	(ABC) transporter
ACL_0999	COG0667	Aldo Keto reductase
ACL_1002	COG2011	ABC-type metal ion transport system permease component
ACL_1003	COG1464	Belongs to the NlpA lipoprotein family
ACL_1004	COG0668	transmembrane transport
ACL_1014	COG4251	negative regulation of phosphorylation
ACL_1014	COG3706	GGDEF domain
ACL_1014	COG5001	Diguanylate cyclase
ACL_1014	COG2203	Gaf domain
ACL_1015	COG5001	Diguanylate cyclase
ACL_1015	COG3300	MHYT domain
ACL_1018	COG4464	protein tyrosine phosphatase activity
ACL_1019	COG0489	protein tyrosine kinase activity
ACL_1023	COG0556	nucleotide-excision repair
ACL_1024	COG2081	HI0933 family
ACL_1025	COG0569	domain protein
ACL_1026	COG0168	Low-affinity potassium transport system. Interacts with trk system potassium uptake protein TrkA
ACL_1028	COG0039	L-malate dehydrogenase activity
ACL_1035	COG0446	pyridine nucleotide-disulphide oxidoreductase
ACL_1036	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
ACL_1037	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
ACL_1039	COG0381	UDP-N-acetylglucosamine 2-epimerase activity
ACL_1041	COG0438	transferase activity, transferring glycosyl groups
ACL_1045	COG1086	Polysaccharide biosynthesis protein
ACL_1049	COG2148	undecaprenyl-phosphate glucose phosphotransferase activity
ACL_1050	COG0399	UDP-4-amino-4-deoxy-L-arabinose aminotransferase
ACL_1052	COG1087	Belongs to the NAD(P)-dependent epimerase dehydratase family
ACL_1053	COG4249	Peptidase C14 caspase catalytic subunit p20
ACL_1054	COG0433	COG0433 Predicted ATPase
ACL_1062	COG1109	Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
ACL_1066	COG0395	ABC-type sugar transport system, permease component
ACL_1087	COG1061	Type III restriction enzyme res subunit
ACL_1092	COG0205	6-phosphofructokinase activity
ACL_1093	COG0334	Belongs to the Glu Leu Phe Val dehydrogenases family
ACL_1096	COG1902	pentaerythritol trinitrate reductase activity
ACL_1097	COG0735	belongs to the Fur family
ACL_1098	COG1321	iron dependent repressor
ACL_1098	COG1108	ABC-type Mn2 Zn2 transport systems permease components
ACL_1099	COG1121	(ABC) transporter
ACL_1101	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
ACL_1103	COG0488	(ABC) transporter
ACL_1104	COG1346	cytolysis
ACL_1105	COG1380	Effector of murein hydrolase LrgA
ACL_1108	COG2086	electron transfer activity
ACL_1109	COG1960	acyl-CoA dehydrogenase activity
ACL_1110	COG0664	- Catabolite gene activator and regulatory subunit of cAMP-dependent protein
ACL_1120	COG3708	Transcriptional regulator
ACL_1120	COG2207	Transcriptional regulator
ACL_1125	COG0248	Ppx GppA phosphatase
ACL_1127	COG5001	Diguanylate cyclase
ACL_1131	COG2217	Heavy metal translocating P-type atpase
ACL_1131	COG2608	mercury ion transmembrane transporter activity
ACL_1132	COG2217	Heavy metal translocating P-type atpase
ACL_1138	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
ACL_1148	COG0750	zinc metalloprotease
ACL_1150	COG0020	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids
ACL_1151	COG0115	Belongs to the class-IV pyridoxal-phosphate-dependent aminotransferase family
ACL_1154	COG0233	cytoplasmic translational termination
ACL_1155	COG0528	UMP kinase activity
ACL_1156	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
ACL_1157	COG0052	Belongs to the universal ribosomal protein uS2 family
ACL_1158	COG0756	dUTP diphosphatase activity
ACL_1159	COG0494	nUDIX hydrolase
ACL_1160	COG4974	Belongs to the 'phage' integrase family
ACL_1161	COG1206	Catalyzes the folate-dependent formation of 5-methyl- uridine at position 54 (M-5-U54) in all tRNAs
ACL_1162	COG0580	Belongs to the MIP aquaporin (TC 1.A.8) family
ACL_1165	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
ACL_1167	COG1394	ATPase activity, coupled to movement of substances
ACL_1173	COG1269	ATP hydrolysis coupled proton transport
ACL_1180	COG1393	Belongs to the ArsC family
ACL_1181	COG1164	Oligoendopeptidase f
ACL_1182	COG0180	Tryptophanyl-tRNA synthetase
ACL_1184	COG1597	lipid kinase activity
ACL_1185	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)
ACL_1187	COG0335	large ribosomal subunit rRNA binding
ACL_1188	COG0336	Belongs to the RNA methyltransferase TrmD family
ACL_1189	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
ACL_1190	COG1837	Belongs to the UPF0109 family
ACL_1191	COG0228	four-way junction DNA binding
ACL_1193	COG1187	pseudouridine synthase activity
ACL_1194	COG0242	peptide deformylase activity
ACL_1197	COG0566	Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family
ACL_1198	COG0301	tRNA thio-modification
ACL_1199	COG1956	GAF domain-containing protein
ACL_1200	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
ACL_1204	COG3634	alkyl hydroperoxide reductase activity
ACL_1206	COG0149	triose-phosphate isomerase activity
ACL_1209	COG0126	phosphoglycerate kinase activity
ACL_1213	COG0719	Fe-S assembly protein
ACL_1214	COG0822	iron-sulfur transferase activity
ACL_1215	COG0520	Catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L- selenocystine to produce L-alanine
ACL_1216	COG0719	Fe-S assembly protein
ACL_1217	COG0396	ATPase activity
ACL_1219	COG4608	Belongs to the ABC transporter superfamily
ACL_1220	COG0444	Belongs to the ABC transporter superfamily
ACL_1221	COG1173	ABC-type dipeptide oligopeptide nickel transport systems, permease components
ACL_1222	COG0601	transmembrane transport
ACL_1228	COG2502	aspartate--ammonia ligase
ACL_1236	COG1131	(ABC) transporter
ACL_1237	COG1132	(ABC) transporter
ACL_1243	COG1028	Short-chain dehydrogenase reductase Sdr
ACL_1247	COG0459	protein refolding
ACL_1248	COG0234	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter
ACL_1250	COG1126	abc transporter atp-binding protein
ACL_1254	COG1112	Superfamily I DNA and RNA helicases and helicase subunits
ACL_1258	COG2217	Heavy metal translocating P-type atpase
ACL_1259	COG0640	Transcriptional regulator
ACL_1264	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
ACL_1272	COG0286	site-specific DNA-methyltransferase (adenine-specific) activity
ACL_1279	COG1396	sequence-specific DNA binding
ACL_1281	COG0474	ATPase, P-type transporting, HAD superfamily, subfamily IC
ACL_1282	COG3469	chitinase activity
ACL_1284	COG1176	ABC-type spermidine putrescine transport system, permease component I
ACL_1285	COG1177	transmembrane transport
ACL_1289	COG0208	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
ACL_1290	COG0209	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides
ACL_1291	COG1780	Probably involved in ribonucleotide reductase function
ACL_1297	COG5002	protein histidine kinase activity
ACL_1298	COG0745	RESPONSE REGULATOR receiver
ACL_1299	COG0704	Plays a role in the regulation of phosphate uptake
ACL_1301	COG0581	inorganic phosphate transmembrane transporter activity
ACL_1302	COG0573	inorganic phosphate transmembrane transporter activity
ACL_1305	COG1131	(ABC) transporter
ACL_1306	COG1597	lipid kinase activity
ACL_1307	COG0095	Lipoate-protein ligase
ACL_1313	COG2184	nucleotidyltransferase activity
ACL_1316	COG0010	Belongs to the arginase family
ACL_1317	COG1982	Orn Lys Arg decarboxylase major
ACL_1321	COG0108	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
ACL_1321	COG0807	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate
ACL_1324	COG0765	amino acid transport
ACL_1325	COG1126	abc transporter atp-binding protein
ACL_1327	COG0142	geranyltranstransferase activity
ACL_1328	COG3706	GGDEF domain
ACL_1329	COG1012	belongs to the aldehyde dehydrogenase family
ACL_1332	COG0015	Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily
ACL_1333	COG1012	belongs to the aldehyde dehydrogenase family
ACL_1339	COG2183	response to ionizing radiation
ACL_1341	COG0736	holo-[acyl-carrier-protein] synthase activity
ACL_1343	COG0492	ferredoxin-NADP+ reductase activity
ACL_1345	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
ACL_1347	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
ACL_1348	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
ACL_1354	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
ACL_1356	COG1214	PFAM Peptidase M22, glycoprotease
ACL_1357	COG0802	atpase or kinase
ACL_1358	COG0166	Belongs to the GPI family
ACL_1359	COG0539	negative regulation of cytoplasmic translation
ACL_1362	COG1963	PFAM Acid phosphatase vanadium-dependent haloperoxidase related
ACL_1363	COG0694	Involved in iron-sulfur cluster biogenesis. Binds a 4Fe- 4S cluster, can transfer this cluster to apoproteins, and thereby intervenes in the maturation of Fe S proteins. Could also act as a scaffold chaperone for damaged Fe S proteins
ACL_1368	COG1624	Catalyzes the condensation of 2 ATP molecules into cyclic di-AMP (c-di-AMP), a second messenger used to regulate differing processes in different bacteria
ACL_1369	COG1733	regulation of RNA biosynthetic process
ACL_1370	COG2262	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis
ACL_1371	COG2252	PERMEase
ACL_1374	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
ACL_1377	COG2233	PERMEase
ACL_1378	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
ACL_1379	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
ACL_1383	COG0424	maF-like protein
ACL_1384	COG0037	tRNA processing
ACL_1386	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
ACL_1387	COG1188	Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit, (S4 paralog))
ACL_1388	COG1190	Belongs to the class-II aminoacyl-tRNA synthetase family
ACL_1392	COG0673	inositol 2-dehydrogenase activity
ACL_1393	COG1600	Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr)
ACL_1395	COG0191	fructose-bisphosphate aldolase activity
ACL_1396	COG0504	CTP synthase activity
ACL_1400	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
ACL_1401	COG0718	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection
ACL_1402	COG2812	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity
ACL_1403	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
ACL_1404	COG1285	pathogenesis
ACL_1405	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
ACL_1406	COG0618	3'(2'),5'-bisphosphate nucleotidase activity
ACL_1411	COG0395	ABC-type sugar transport system, permease component
ACL_1412	COG1175	transmembrane transport
ACL_1415	COG1562	ergosterol biosynthetic process
ACL_1416	COG1233	COG1233 Phytoene dehydrogenase and related
ACL_1417	COG0170	dolichyl monophosphate biosynthetic process
ACL_1418	COG1136	(ABC) transporter
ACL_1419	COG0577	efflux transmembrane transporter activity
ACL_1420	COG0386	Belongs to the glutathione peroxidase family
ACL_1421	COG3279	Response regulator of the LytR AlgR family
ACL_1424	COG1307	EDD domain protein, DegV family
ACL_1427	COG0017	Asparaginyl-tRNA synthetase
ACL_1428	COG1322	Protein conserved in bacteria
ACL_1430	COG1847	R3H domain protein
ACL_1432	COG0594	ribonuclease P activity
ACL_1433	COG0230	Belongs to the bacterial ribosomal protein bL34 family