-- dump date 20140619_163250 -- class Genbank::misc_feature -- table misc_feature_note -- id note 662598000001 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 662598000002 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 662598000003 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 662598000004 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 662598000005 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 662598000006 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 662598000007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 662598000008 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 662598000009 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 662598000010 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 662598000011 hinge; other site 662598000012 active site 662598000013 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 662598000014 Phosphoglycerate kinase; Region: PGK; pfam00162 662598000015 substrate binding site [chemical binding]; other site 662598000016 hinge regions; other site 662598000017 ADP binding site [chemical binding]; other site 662598000018 catalytic site [active] 662598000019 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 662598000020 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 662598000021 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 662598000022 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 662598000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 662598000024 Walker A/P-loop; other site 662598000025 ATP binding site [chemical binding]; other site 662598000026 Q-loop/lid; other site 662598000027 ABC transporter signature motif; other site 662598000028 Walker B; other site 662598000029 D-loop; other site 662598000030 H-loop/switch region; other site 662598000031 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 662598000032 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 662598000033 catalytic residues [active] 662598000034 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 662598000035 ArsC family; Region: ArsC; pfam03960 662598000036 catalytic residues [active] 662598000037 Uncharacterized conserved protein [Function unknown]; Region: COG1434 662598000038 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 662598000039 putative active site [active] 662598000040 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 662598000041 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 662598000042 active site 662598000043 HIGH motif; other site 662598000044 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 662598000045 active site 662598000046 KMSKS motif; other site 662598000047 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 662598000048 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 662598000049 Coenzyme A binding pocket [chemical binding]; other site 662598000050 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 662598000051 MutS domain I; Region: MutS_I; pfam01624 662598000052 MutS domain II; Region: MutS_II; pfam05188 662598000053 MutS domain III; Region: MutS_III; pfam05192 662598000054 MutS domain V; Region: MutS_V; pfam00488 662598000055 Walker A/P-loop; other site 662598000056 ATP binding site [chemical binding]; other site 662598000057 Q-loop/lid; other site 662598000058 ABC transporter signature motif; other site 662598000059 Walker B; other site 662598000060 D-loop; other site 662598000061 H-loop/switch region; other site 662598000062 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 662598000063 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 662598000064 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 662598000065 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 662598000066 homodimer interaction site [polypeptide binding]; other site 662598000067 cofactor binding site; other site 662598000068 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 662598000069 Isochorismatase family; Region: Isochorismatase; pfam00857 662598000070 catalytic triad [active] 662598000071 metal binding site [ion binding]; metal-binding site 662598000072 conserved cis-peptide bond; other site 662598000073 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 662598000074 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 662598000075 putative active site [active] 662598000076 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 662598000077 Ligand binding site [chemical binding]; other site 662598000078 Electron transfer flavoprotein domain; Region: ETF; pfam01012 662598000079 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 662598000080 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 662598000081 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 662598000082 Uncharacterized conserved protein [Function unknown]; Region: COG1739 662598000083 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 662598000084 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 662598000085 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 662598000086 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 662598000087 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 662598000088 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 662598000089 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 662598000090 RNA polymerase sigma factor; Provisional; Region: PRK12532 662598000091 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 662598000092 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 662598000093 DNA binding residues [nucleotide binding] 662598000094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 662598000095 Protein of unknown function (DUF692); Region: DUF692; pfam05114 662598000096 Predicted membrane protein [Function unknown]; Region: COG2259 662598000097 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 662598000098 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 662598000099 active site 662598000100 nucleophile elbow; other site 662598000101 peptide chain release factor 2; Validated; Region: prfB; PRK00578 662598000102 This domain is found in peptide chain release factors; Region: PCRF; smart00937 662598000103 RF-1 domain; Region: RF-1; pfam00472 662598000104 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 662598000105 POT family; Region: PTR2; cl17359 662598000106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 662598000107 Family of unknown function (DUF490); Region: DUF490; pfam04357 662598000108 Family of unknown function (DUF490); Region: DUF490; pfam04357 662598000109 Family of unknown function (DUF490); Region: DUF490; pfam04357 662598000110 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 662598000111 Surface antigen; Region: Bac_surface_Ag; pfam01103 662598000112 serine/threonine transporter SstT; Provisional; Region: PRK13628 662598000113 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 662598000114 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 662598000115 argininosuccinate synthase; Validated; Region: PRK05370 662598000116 argininosuccinate synthase; Provisional; Region: PRK13820 662598000117 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 662598000118 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 662598000119 putative MPT binding site; other site 662598000120 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 662598000121 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 662598000122 tandem repeat interface [polypeptide binding]; other site 662598000123 oligomer interface [polypeptide binding]; other site 662598000124 active site residues [active] 662598000127 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 662598000129 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 662598000130 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 662598000131 potential frameshift: common BLAST hit: gi|15677924|ref|NP_275092.1| mafB protein 662598000132 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 662598000133 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 662598000134 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 662598000135 putative nucleotide binding site [chemical binding]; other site 662598000136 uridine monophosphate binding site [chemical binding]; other site 662598000137 homohexameric interface [polypeptide binding]; other site 662598000138 elongation factor Ts; Provisional; Region: tsf; PRK09377 662598000139 UBA/TS-N domain; Region: UBA; pfam00627 662598000140 Elongation factor TS; Region: EF_TS; pfam00889 662598000141 Elongation factor TS; Region: EF_TS; pfam00889 662598000142 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 662598000143 rRNA interaction site [nucleotide binding]; other site 662598000144 S8 interaction site; other site 662598000145 putative laminin-1 binding site; other site 662598000146 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 662598000147 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 662598000148 malate:quinone oxidoreductase; Validated; Region: PRK05257 662598000149 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 662598000150 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 662598000151 non-specific DNA binding site [nucleotide binding]; other site 662598000152 salt bridge; other site 662598000153 sequence-specific DNA binding site [nucleotide binding]; other site 662598000154 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 662598000155 active site 662598000156 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 662598000157 BON domain; Region: BON; pfam04972 662598000158 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 662598000159 dimer interface [polypeptide binding]; other site 662598000160 active site 662598000161 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 662598000162 Predicted methyltransferases [General function prediction only]; Region: COG0313 662598000163 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 662598000164 putative SAM binding site [chemical binding]; other site 662598000165 putative homodimer interface [polypeptide binding]; other site 662598000166 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 662598000167 GTPase CgtA; Reviewed; Region: obgE; PRK12299 662598000168 GTP1/OBG; Region: GTP1_OBG; pfam01018 662598000169 Obg GTPase; Region: Obg; cd01898 662598000170 G1 box; other site 662598000171 GTP/Mg2+ binding site [chemical binding]; other site 662598000172 Switch I region; other site 662598000173 G2 box; other site 662598000174 G3 box; other site 662598000175 Switch II region; other site 662598000176 G4 box; other site 662598000177 G5 box; other site 662598000178 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 662598000179 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 662598000180 cofactor binding site; other site 662598000181 DNA binding site [nucleotide binding] 662598000182 substrate interaction site [chemical binding]; other site 662598000183 HaeII restriction endonuclease; Region: RE_HaeII; pfam09554 662598000184 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 662598000185 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 662598000186 active site 662598000187 HIGH motif; other site 662598000188 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 662598000189 KMSKS motif; other site 662598000190 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 662598000191 tRNA binding surface [nucleotide binding]; other site 662598000192 anticodon binding site; other site 662598000193 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 662598000194 putative active site [active] 662598000195 putative catalytic site [active] 662598000196 putative DNA binding site [nucleotide binding]; other site 662598000197 putative phosphate binding site [ion binding]; other site 662598000198 metal binding site A [ion binding]; metal-binding site 662598000199 putative AP binding site [nucleotide binding]; other site 662598000200 putative metal binding site B [ion binding]; other site 662598000201 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 662598000202 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 662598000203 RDD family; Region: RDD; pfam06271 662598000204 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 662598000205 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 662598000206 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 662598000207 homodimer interface [polypeptide binding]; other site 662598000208 NADP binding site [chemical binding]; other site 662598000209 substrate binding site [chemical binding]; other site 662598000210 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 662598000211 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 662598000212 active site 662598000213 HIGH motif; other site 662598000214 nucleotide binding site [chemical binding]; other site 662598000215 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 662598000216 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 662598000217 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 662598000218 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 662598000219 Sporulation related domain; Region: SPOR; pfam05036 662598000220 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 662598000221 ThiS interaction site; other site 662598000222 putative active site [active] 662598000223 tetramer interface [polypeptide binding]; other site 662598000224 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 662598000225 thiS-thiF/thiG interaction site; other site 662598000226 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 662598000227 thiamine phosphate binding site [chemical binding]; other site 662598000228 active site 662598000229 pyrophosphate binding site [ion binding]; other site 662598000230 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 662598000231 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 662598000232 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 662598000233 Na binding site [ion binding]; other site 662598000234 protease TldD; Provisional; Region: tldD; PRK10735 662598000235 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional; Region: PRK14966 662598000236 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 662598000237 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598000238 S-adenosylmethionine binding site [chemical binding]; other site 662598000239 Predicted permease [General function prediction only]; Region: COG2056 662598000240 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 662598000241 hypothetical protein; Provisional; Region: PRK04325 662598000242 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 662598000243 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 662598000244 ATP binding site [chemical binding]; other site 662598000245 substrate interface [chemical binding]; other site 662598000246 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 662598000247 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 662598000248 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 662598000249 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 662598000250 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 662598000251 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 662598000252 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 662598000253 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 662598000254 23S rRNA interface [nucleotide binding]; other site 662598000255 L3 interface [polypeptide binding]; other site 662598000256 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 662598000257 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 662598000258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 662598000259 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 662598000260 putative dimerization interface [polypeptide binding]; other site 662598000261 Uncharacterized conserved protein [Function unknown]; Region: COG0327 662598000262 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 662598000263 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 662598000264 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 662598000265 [2Fe-2S] cluster binding site [ion binding]; other site 662598000266 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 662598000267 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 662598000268 Qi binding site; other site 662598000269 intrachain domain interface; other site 662598000270 interchain domain interface [polypeptide binding]; other site 662598000271 heme bH binding site [chemical binding]; other site 662598000272 heme bL binding site [chemical binding]; other site 662598000273 Qo binding site; other site 662598000274 interchain domain interface [polypeptide binding]; other site 662598000275 intrachain domain interface; other site 662598000276 Qi binding site; other site 662598000277 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 662598000278 Qo binding site; other site 662598000279 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 662598000280 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 662598000281 RmuC family; Region: RmuC; pfam02646 662598000282 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 662598000283 DNA ligase; Provisional; Region: PRK09125 662598000284 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 662598000285 DNA binding site [nucleotide binding] 662598000286 active site 662598000287 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 662598000288 DNA binding site [nucleotide binding] 662598000289 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 662598000290 active site 662598000291 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 662598000292 active pocket/dimerization site; other site 662598000293 active site 662598000294 phosphorylation site [posttranslational modification] 662598000295 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 662598000296 dimerization domain swap beta strand [polypeptide binding]; other site 662598000297 regulatory protein interface [polypeptide binding]; other site 662598000298 active site 662598000299 regulatory phosphorylation site [posttranslational modification]; other site 662598000300 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 662598000301 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 662598000302 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 662598000303 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 662598000304 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 662598000305 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 662598000306 Walker A/P-loop; other site 662598000307 ATP binding site [chemical binding]; other site 662598000308 Q-loop/lid; other site 662598000309 ABC transporter signature motif; other site 662598000310 Walker B; other site 662598000311 D-loop; other site 662598000312 H-loop/switch region; other site 662598000313 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 662598000314 nudix motif; other site 662598000315 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 662598000316 ThiC-associated domain; Region: ThiC-associated; pfam13667 662598000317 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 662598000318 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 662598000319 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 662598000320 trimer interface [polypeptide binding]; other site 662598000321 eyelet of channel; other site 662598000322 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 662598000323 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 662598000324 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 662598000325 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 662598000326 dimerization interface 3.5A [polypeptide binding]; other site 662598000327 active site 662598000328 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 662598000329 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 662598000330 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 662598000331 putative acyl-acceptor binding pocket; other site 662598000332 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 662598000333 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598000334 active site 662598000335 motif I; other site 662598000336 motif II; other site 662598000337 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 662598000338 aromatic amino acid transport protein; Region: araaP; TIGR00837 662598000339 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 662598000340 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598000341 S-adenosylmethionine binding site [chemical binding]; other site 662598000342 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 662598000343 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 662598000344 putative active site [active] 662598000345 putative substrate binding site [chemical binding]; other site 662598000346 ATP binding site [chemical binding]; other site 662598000347 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 662598000348 ATP-binding site [chemical binding]; other site 662598000349 Gluconate-6-phosphate binding site [chemical binding]; other site 662598000350 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 662598000351 fructuronate transporter; Provisional; Region: PRK10034; cl15264 662598000352 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 662598000353 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598000354 dimer interface [polypeptide binding]; other site 662598000355 conserved gate region; other site 662598000356 ABC-ATPase subunit interface; other site 662598000357 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598000358 dimer interface [polypeptide binding]; other site 662598000359 ABC-ATPase subunit interface; other site 662598000360 putative PBP binding loops; other site 662598000361 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 662598000362 active site clefts [active] 662598000363 zinc binding site [ion binding]; other site 662598000364 dimer interface [polypeptide binding]; other site 662598000365 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 662598000366 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 662598000367 active site 662598000368 (T/H)XGH motif; other site 662598000369 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 662598000370 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 662598000371 oxidative damage protection protein; Provisional; Region: PRK05408 662598000372 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 662598000373 YccA-like proteins; Region: YccA_like; cd10433 662598000374 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 662598000375 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 662598000376 active site 662598000377 (T/H)XGH motif; other site 662598000378 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 662598000379 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 662598000380 active site 662598000381 comEA protein; Region: comE; TIGR01259 662598000382 Helix-hairpin-helix motif; Region: HHH; pfam00633 662598000383 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 662598000385 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 662598000386 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 662598000387 cofactor binding site; other site 662598000388 DNA binding site [nucleotide binding] 662598000389 substrate interaction site [chemical binding]; other site 662598000390 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 662598000392 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 662598000393 additional DNA contacts [nucleotide binding]; other site 662598000394 mismatch recognition site; other site 662598000395 active site 662598000396 zinc binding site [ion binding]; other site 662598000397 DNA intercalation site [nucleotide binding]; other site 662598000398 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 662598000399 Helicase associated domain (HA2); Region: HA2; pfam04408 662598000400 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 662598000401 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 662598000402 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 662598000403 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 662598000404 Sulfatase; Region: Sulfatase; pfam00884 662598000405 DEAD-like helicases superfamily; Region: DEXDc; smart00487 662598000406 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 662598000407 ATP binding site [chemical binding]; other site 662598000408 putative Mg++ binding site [ion binding]; other site 662598000409 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 662598000410 nucleotide binding region [chemical binding]; other site 662598000411 ATP-binding site [chemical binding]; other site 662598000412 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 662598000413 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 662598000414 putative ion selectivity filter; other site 662598000415 putative pore gating glutamate residue; other site 662598000416 putative H+/Cl- coupling transport residue; other site 662598000417 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 662598000418 heterotetramer interface [polypeptide binding]; other site 662598000419 active site pocket [active] 662598000420 cleavage site 662598000421 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 662598000422 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 662598000423 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 662598000424 NlpC/P60 family; Region: NLPC_P60; pfam00877 662598000425 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 662598000426 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 662598000427 dimerization interface [polypeptide binding]; other site 662598000428 domain crossover interface; other site 662598000429 redox-dependent activation switch; other site 662598000430 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 662598000431 MgtE intracellular N domain; Region: MgtE_N; smart00924 662598000432 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 662598000433 Divalent cation transporter; Region: MgtE; cl00786 662598000434 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 662598000435 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 662598000436 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 662598000437 Autotransporter beta-domain; Region: Autotransporter; pfam03797 662598000438 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 662598000439 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 662598000440 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 662598000441 dimerization interface [polypeptide binding]; other site 662598000442 ATP binding site [chemical binding]; other site 662598000443 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 662598000444 dimerization interface [polypeptide binding]; other site 662598000445 ATP binding site [chemical binding]; other site 662598000446 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 662598000447 putative active site [active] 662598000448 catalytic triad [active] 662598000449 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 662598000450 Nitrogen regulatory protein P-II; Region: P-II; smart00938 662598000451 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 662598000452 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 662598000453 Walker A/P-loop; other site 662598000454 ATP binding site [chemical binding]; other site 662598000455 Q-loop/lid; other site 662598000456 ABC transporter signature motif; other site 662598000457 Walker B; other site 662598000458 D-loop; other site 662598000459 H-loop/switch region; other site 662598000460 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 662598000461 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 662598000462 ABC-ATPase subunit interface; other site 662598000463 dimer interface [polypeptide binding]; other site 662598000464 putative PBP binding regions; other site 662598000465 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 662598000466 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 662598000467 ABC-ATPase subunit interface; other site 662598000468 dimer interface [polypeptide binding]; other site 662598000469 putative PBP binding regions; other site 662598000470 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 662598000471 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 662598000472 putative ligand binding residues [chemical binding]; other site 662598000473 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 662598000474 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 662598000475 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 662598000476 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 662598000477 ring oligomerisation interface [polypeptide binding]; other site 662598000478 ATP/Mg binding site [chemical binding]; other site 662598000479 stacking interactions; other site 662598000480 hinge regions; other site 662598000481 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 662598000482 oligomerisation interface [polypeptide binding]; other site 662598000483 mobile loop; other site 662598000484 roof hairpin; other site 662598000485 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 662598000486 Na2 binding site [ion binding]; other site 662598000487 putative substrate binding site 1 [chemical binding]; other site 662598000488 Na binding site 1 [ion binding]; other site 662598000489 putative substrate binding site 2 [chemical binding]; other site 662598000490 diaminopimelate decarboxylase; Region: lysA; TIGR01048 662598000491 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 662598000492 active site 662598000493 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 662598000494 substrate binding site [chemical binding]; other site 662598000495 catalytic residues [active] 662598000496 dimer interface [polypeptide binding]; other site 662598000497 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 662598000498 putative iron binding site [ion binding]; other site 662598000500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 662598000501 S-ribosylhomocysteinase; Provisional; Region: PRK02260 662598000502 DNA polymerase I; Provisional; Region: PRK05755 662598000503 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 662598000504 active site 662598000505 metal binding site 1 [ion binding]; metal-binding site 662598000506 putative 5' ssDNA interaction site; other site 662598000507 metal binding site 3; metal-binding site 662598000508 metal binding site 2 [ion binding]; metal-binding site 662598000509 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 662598000510 putative DNA binding site [nucleotide binding]; other site 662598000511 putative metal binding site [ion binding]; other site 662598000512 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 662598000513 active site 662598000514 catalytic site [active] 662598000515 substrate binding site [chemical binding]; other site 662598000516 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 662598000517 active site 662598000518 DNA binding site [nucleotide binding] 662598000519 catalytic site [active] 662598000520 Fic/DOC family; Region: Fic; pfam02661 662598000521 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 662598000522 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 662598000523 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 662598000524 Autotransporter beta-domain; Region: Autotransporter; pfam03797 662598000525 Predicted membrane protein [Function unknown]; Region: COG5346 662598000526 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 662598000527 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 662598000528 trmE is a tRNA modification GTPase; Region: trmE; cd04164 662598000529 G1 box; other site 662598000530 GTP/Mg2+ binding site [chemical binding]; other site 662598000531 Switch I region; other site 662598000532 G2 box; other site 662598000533 Switch II region; other site 662598000534 G3 box; other site 662598000535 G4 box; other site 662598000536 G5 box; other site 662598000537 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 662598000538 Protein of unknown function (DUF560); Region: DUF560; pfam04575 662598000539 aminodeoxychorismate synthase; Provisional; Region: PRK07508 662598000540 chorismate binding enzyme; Region: Chorismate_bind; cl10555 662598000541 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 662598000542 homodimer interface [polypeptide binding]; other site 662598000543 substrate-cofactor binding pocket; other site 662598000544 Aminotransferase class IV; Region: Aminotran_4; pfam01063 662598000545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598000546 catalytic residue [active] 662598000547 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 662598000548 catalytic triad [active] 662598000549 putative active site [active] 662598000550 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 662598000551 Autotransporter beta-domain; Region: Autotransporter; pfam03797 662598000552 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 662598000553 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 662598000554 NAD binding site [chemical binding]; other site 662598000555 catalytic residues [active] 662598000556 substrate binding site [chemical binding]; other site 662598000557 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 662598000558 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 662598000559 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 662598000560 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 662598000561 Walker A/P-loop; other site 662598000562 ATP binding site [chemical binding]; other site 662598000563 Q-loop/lid; other site 662598000564 ABC transporter signature motif; other site 662598000565 Walker B; other site 662598000566 D-loop; other site 662598000567 H-loop/switch region; other site 662598000568 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 662598000569 Permease; Region: Permease; pfam02405 662598000570 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 662598000571 mce related protein; Region: MCE; pfam02470 662598000572 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 662598000573 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 662598000574 anti sigma factor interaction site; other site 662598000575 regulatory phosphorylation site [posttranslational modification]; other site 662598000576 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 662598000577 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 662598000578 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 662598000579 catalytic residues [active] 662598000581 ribosomal protein L31; Region: L31; TIGR00105 662598000582 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 662598000583 Cadmium resistance transporter; Region: Cad; pfam03596 662598000584 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 662598000585 stringent starvation protein A; Provisional; Region: sspA; PRK09481 662598000586 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 662598000587 C-terminal domain interface [polypeptide binding]; other site 662598000588 putative GSH binding site (G-site) [chemical binding]; other site 662598000589 dimer interface [polypeptide binding]; other site 662598000590 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 662598000591 dimer interface [polypeptide binding]; other site 662598000592 N-terminal domain interface [polypeptide binding]; other site 662598000593 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 662598000594 Uncharacterized conserved protein [Function unknown]; Region: COG1610 662598000595 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 662598000596 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 662598000597 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 662598000598 N-acetyl-D-glucosamine binding site [chemical binding]; other site 662598000599 catalytic residue [active] 662598000600 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 662598000601 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 662598000602 Walker A/P-loop; other site 662598000603 ATP binding site [chemical binding]; other site 662598000604 Q-loop/lid; other site 662598000605 ABC transporter signature motif; other site 662598000606 Walker B; other site 662598000607 D-loop; other site 662598000608 H-loop/switch region; other site 662598000609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 662598000610 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 662598000611 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 662598000612 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 662598000613 Flavoprotein; Region: Flavoprotein; pfam02441 662598000614 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 662598000615 ParB-like nuclease domain; Region: ParBc; pfam02195 662598000616 KorB domain; Region: KorB; pfam08535 662598000617 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 662598000618 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 662598000619 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 662598000620 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 662598000621 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 662598000622 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 662598000623 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 662598000624 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 662598000625 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 662598000626 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 662598000627 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 662598000628 beta subunit interaction interface [polypeptide binding]; other site 662598000629 Walker A motif; other site 662598000630 ATP binding site [chemical binding]; other site 662598000631 Walker B motif; other site 662598000632 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 662598000633 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 662598000634 core domain interface [polypeptide binding]; other site 662598000635 delta subunit interface [polypeptide binding]; other site 662598000636 epsilon subunit interface [polypeptide binding]; other site 662598000637 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 662598000638 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 662598000639 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 662598000640 alpha subunit interaction interface [polypeptide binding]; other site 662598000641 Walker A motif; other site 662598000642 ATP binding site [chemical binding]; other site 662598000643 Walker B motif; other site 662598000644 inhibitor binding site; inhibition site 662598000645 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 662598000646 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 662598000647 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 662598000648 gamma subunit interface [polypeptide binding]; other site 662598000649 epsilon subunit interface [polypeptide binding]; other site 662598000650 LBP interface [polypeptide binding]; other site 662598000651 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 662598000652 dimer interface [polypeptide binding]; other site 662598000653 motif 1; other site 662598000654 active site 662598000655 motif 2; other site 662598000656 motif 3; other site 662598000657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3171 662598000658 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 662598000659 DALR anticodon binding domain; Region: DALR_1; pfam05746 662598000660 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 662598000661 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 662598000662 active site 662598000663 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 662598000664 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 662598000665 RNA methyltransferase, RsmE family; Region: TIGR00046 662598000666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 662598000667 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 662598000668 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 662598000669 active site 662598000670 hypothetical protein; Provisional; Region: PRK01752 662598000671 SEC-C motif; Region: SEC-C; pfam02810 662598000672 Fic/DOC family; Region: Fic; pfam02661 662598000673 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 662598000674 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 662598000675 NAD(P) binding site [chemical binding]; other site 662598000676 homotetramer interface [polypeptide binding]; other site 662598000677 homodimer interface [polypeptide binding]; other site 662598000678 active site 662598000679 GMP synthase; Reviewed; Region: guaA; PRK00074 662598000680 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 662598000681 AMP/PPi binding site [chemical binding]; other site 662598000682 candidate oxyanion hole; other site 662598000683 catalytic triad [active] 662598000684 potential glutamine specificity residues [chemical binding]; other site 662598000685 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 662598000686 ATP Binding subdomain [chemical binding]; other site 662598000687 Ligand Binding sites [chemical binding]; other site 662598000688 Dimerization subdomain; other site 662598000689 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 662598000690 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 662598000691 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 662598000692 Walker A/P-loop; other site 662598000693 ATP binding site [chemical binding]; other site 662598000694 Q-loop/lid; other site 662598000695 ABC transporter signature motif; other site 662598000696 Walker B; other site 662598000697 D-loop; other site 662598000698 H-loop/switch region; other site 662598000699 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 662598000700 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 662598000701 Predicted membrane protein [Function unknown]; Region: COG3326 662598000702 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 662598000703 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 662598000704 dimer interface [polypeptide binding]; other site 662598000705 active site 662598000706 CoA binding pocket [chemical binding]; other site 662598000707 putative phosphate acyltransferase; Provisional; Region: PRK05331 662598000708 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 662598000709 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 662598000710 active site 662598000711 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 662598000712 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 662598000713 Predicted methyltransferases [General function prediction only]; Region: COG0313 662598000714 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 662598000715 putative SAM binding site [chemical binding]; other site 662598000716 homodimer interface [polypeptide binding]; other site 662598000717 membrane protein insertase; Provisional; Region: PRK01318 662598000718 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 662598000719 hypothetical protein; Provisional; Region: PRK14373 662598000720 ribonuclease P; Reviewed; Region: rnpA; PRK04390 662598000721 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 662598000722 DnaA N-terminal domain; Region: DnaA_N; pfam11638 662598000723 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598000724 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 662598000725 Walker A motif; other site 662598000726 ATP binding site [chemical binding]; other site 662598000727 Walker B motif; other site 662598000728 arginine finger; other site 662598000729 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 662598000730 DnaA box-binding interface [nucleotide binding]; other site 662598000731 DNA polymerase III subunit beta; Validated; Region: PRK05643 662598000732 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 662598000733 putative DNA binding surface [nucleotide binding]; other site 662598000734 dimer interface [polypeptide binding]; other site 662598000735 beta-clamp/clamp loader binding surface; other site 662598000736 beta-clamp/translesion DNA polymerase binding surface; other site 662598000737 polyphosphate kinase; Provisional; Region: PRK05443 662598000738 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 662598000739 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 662598000740 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 662598000741 putative domain interface [polypeptide binding]; other site 662598000742 putative active site [active] 662598000743 catalytic site [active] 662598000744 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 662598000745 putative domain interface [polypeptide binding]; other site 662598000746 putative active site [active] 662598000747 catalytic site [active] 662598000748 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 662598000749 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 662598000750 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 662598000751 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 662598000752 HIGH motif; other site 662598000753 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 662598000754 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 662598000755 active site 662598000756 KMSKS motif; other site 662598000757 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 662598000758 tRNA binding surface [nucleotide binding]; other site 662598000759 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 662598000762 Predicted transcriptional regulator [Transcription]; Region: COG2944 662598000763 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 662598000764 non-specific DNA binding site [nucleotide binding]; other site 662598000765 salt bridge; other site 662598000766 sequence-specific DNA binding site [nucleotide binding]; other site 662598000767 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 662598000768 triosephosphate isomerase; Provisional; Region: PRK14567 662598000769 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 662598000770 substrate binding site [chemical binding]; other site 662598000771 dimer interface [polypeptide binding]; other site 662598000772 catalytic triad [active] 662598000773 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 662598000774 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 662598000775 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598000776 S-adenosylmethionine binding site [chemical binding]; other site 662598000777 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 662598000778 active site residue [active] 662598000779 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 662598000780 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 662598000781 N-terminal plug; other site 662598000782 ligand-binding site [chemical binding]; other site 662598000783 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 662598000784 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 662598000785 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 662598000786 putative ligand binding residues [chemical binding]; other site 662598000787 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 662598000788 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 662598000789 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 662598000790 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 662598000791 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 662598000792 putative feedback inhibition sensing region; other site 662598000793 putative nucleotide binding site [chemical binding]; other site 662598000794 putative substrate binding site [chemical binding]; other site 662598000795 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 662598000796 Coenzyme A binding pocket [chemical binding]; other site 662598000797 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 662598000798 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 662598000799 active site 662598000800 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 662598000801 active site 662598000802 Fe-S cluster binding site [ion binding]; other site 662598000803 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 662598000804 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 662598000805 Coenzyme A binding pocket [chemical binding]; other site 662598000806 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 662598000807 Glycoprotease family; Region: Peptidase_M22; pfam00814 662598000808 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 662598000809 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 662598000810 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 662598000811 intersubunit interface [polypeptide binding]; other site 662598000812 active site 662598000813 zinc binding site [ion binding]; other site 662598000814 Na+ binding site [ion binding]; other site 662598000815 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 662598000816 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 662598000817 active site 662598000818 Int/Topo IB signature motif; other site 662598000819 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 662598000820 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 662598000821 TPP-binding site; other site 662598000822 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 662598000823 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 662598000824 PYR/PP interface [polypeptide binding]; other site 662598000825 dimer interface [polypeptide binding]; other site 662598000826 TPP binding site [chemical binding]; other site 662598000827 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 662598000828 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 662598000829 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 662598000830 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 662598000831 FeS/SAM binding site; other site 662598000832 TRAM domain; Region: TRAM; pfam01938 662598000833 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 662598000834 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 662598000835 inhibitor-cofactor binding pocket; inhibition site 662598000836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598000837 catalytic residue [active] 662598000838 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 662598000839 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 662598000840 catalytic site [active] 662598000841 putative active site [active] 662598000842 putative substrate binding site [chemical binding]; other site 662598000843 dimer interface [polypeptide binding]; other site 662598000844 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 662598000845 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598000846 S-adenosylmethionine binding site [chemical binding]; other site 662598000847 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 662598000848 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 662598000849 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 662598000850 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 662598000851 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 662598000852 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 662598000853 carboxyltransferase (CT) interaction site; other site 662598000854 biotinylation site [posttranslational modification]; other site 662598000855 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 662598000856 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 662598000857 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 662598000858 Transcriptional regulator [Transcription]; Region: LysR; COG0583 662598000859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 662598000860 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 662598000861 putative effector binding pocket; other site 662598000862 dimerization interface [polypeptide binding]; other site 662598000863 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 662598000864 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 662598000865 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 662598000866 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 662598000867 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 662598000868 ATP-grasp domain; Region: ATP-grasp_4; cl17255 662598000869 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 662598000870 IMP binding site; other site 662598000871 dimer interface [polypeptide binding]; other site 662598000872 interdomain contacts; other site 662598000873 partial ornithine binding site; other site 662598000874 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 662598000875 putative active site [active] 662598000876 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 662598000877 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 662598000878 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 662598000879 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 662598000880 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 662598000881 catalytic site [active] 662598000882 subunit interface [polypeptide binding]; other site 662598000883 antiporter inner membrane protein; Provisional; Region: PRK11670 662598000884 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 662598000885 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 662598000886 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 662598000887 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 662598000888 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 662598000889 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 662598000890 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 662598000891 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 662598000892 Substrate binding site; other site 662598000893 metal-binding site 662598000894 Predicted membrane protein [Function unknown]; Region: COG2510 662598000895 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 662598000896 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 662598000897 Potassium binding sites [ion binding]; other site 662598000898 Cesium cation binding sites [ion binding]; other site 662598000899 GTP-binding protein YchF; Reviewed; Region: PRK09601 662598000900 YchF GTPase; Region: YchF; cd01900 662598000901 G1 box; other site 662598000902 GTP/Mg2+ binding site [chemical binding]; other site 662598000903 Switch I region; other site 662598000904 G2 box; other site 662598000905 Switch II region; other site 662598000906 G3 box; other site 662598000907 G4 box; other site 662598000908 G5 box; other site 662598000909 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 662598000910 AAA ATPase domain; Region: AAA_15; pfam13175 662598000911 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 662598000912 D-loop; other site 662598000913 H-loop/switch region; other site 662598000914 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 662598000915 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 662598000916 active site 662598000917 HIGH motif; other site 662598000918 dimer interface [polypeptide binding]; other site 662598000919 KMSKS motif; other site 662598000920 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 662598000921 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 662598000922 active site 662598000923 Riboflavin kinase; Region: Flavokinase; smart00904 662598000924 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 662598000925 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 662598000926 active site 662598000927 HIGH motif; other site 662598000928 nucleotide binding site [chemical binding]; other site 662598000929 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 662598000930 active site 662598000931 KMSKS motif; other site 662598000932 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 662598000933 tRNA binding surface [nucleotide binding]; other site 662598000934 anticodon binding site; other site 662598000935 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 662598000936 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 662598000937 lipoprotein signal peptidase; Provisional; Region: PRK14787 662598000938 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 662598000939 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 662598000940 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 662598000941 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598000942 motif II; other site 662598000943 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 662598000944 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 662598000945 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 662598000946 N-terminal plug; other site 662598000947 ligand-binding site [chemical binding]; other site 662598000948 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 662598000949 Initiator Replication protein; Region: Rep_3; pfam01051 662598000951 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 662598000952 putative active site [active] 662598000953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 662598000954 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 662598000955 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 662598000956 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 662598000957 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 662598000958 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 662598000959 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 662598000960 putative active site [active] 662598000961 putative PHP Thumb interface [polypeptide binding]; other site 662598000962 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 662598000963 generic binding surface II; other site 662598000964 generic binding surface I; other site 662598000965 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 662598000966 RNA binding surface [nucleotide binding]; other site 662598000967 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 662598000968 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 662598000969 active site 662598000970 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 662598000971 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]; Region: COG3977 662598000972 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 662598000973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598000974 homodimer interface [polypeptide binding]; other site 662598000975 catalytic residue [active] 662598000976 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 662598000977 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 662598000978 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 662598000979 NAD(P) binding site [chemical binding]; other site 662598000980 homodimer interface [polypeptide binding]; other site 662598000981 substrate binding site [chemical binding]; other site 662598000982 active site 662598000983 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 662598000984 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 662598000985 inhibitor-cofactor binding pocket; inhibition site 662598000986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598000987 catalytic residue [active] 662598000988 Bacterial sugar transferase; Region: Bac_transf; pfam02397 662598000989 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 662598000990 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 662598000991 putative trimer interface [polypeptide binding]; other site 662598000992 putative CoA binding site [chemical binding]; other site 662598000993 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 662598000994 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 662598000996 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 662598000997 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 662598000998 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 662598000999 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 662598001000 catalytic motif [active] 662598001001 Zn binding site [ion binding]; other site 662598001002 RibD C-terminal domain; Region: RibD_C; cl17279 662598001003 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 662598001004 ATP cone domain; Region: ATP-cone; pfam03477 662598001005 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 662598001006 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 662598001007 putative active site [active] 662598001008 putative dimer interface [polypeptide binding]; other site 662598001009 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 662598001010 active site 662598001011 dimer interface [polypeptide binding]; other site 662598001012 metal binding site [ion binding]; metal-binding site 662598001013 shikimate kinase; Reviewed; Region: aroK; PRK00131 662598001014 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 662598001015 ADP binding site [chemical binding]; other site 662598001016 magnesium binding site [ion binding]; other site 662598001017 putative shikimate binding site; other site 662598001018 AMIN domain; Region: AMIN; pfam11741 662598001019 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 662598001020 Secretin and TonB N terminus short domain; Region: STN; pfam07660 662598001021 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 662598001022 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 662598001023 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 662598001024 Pilus assembly protein, PilP; Region: PilP; pfam04351 662598001025 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 662598001026 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 662598001027 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 662598001028 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 662598001029 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 662598001030 Transglycosylase; Region: Transgly; pfam00912 662598001031 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 662598001032 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 662598001033 G1 box; other site 662598001034 GTP/Mg2+ binding site [chemical binding]; other site 662598001035 Switch I region; other site 662598001036 G2 box; other site 662598001037 G3 box; other site 662598001038 Switch II region; other site 662598001039 G4 box; other site 662598001040 G5 box; other site 662598001041 Cytochrome c553 [Energy production and conversion]; Region: COG2863 662598001042 Cytochrome c; Region: Cytochrom_C; cl11414 662598001043 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 662598001044 ResB-like family; Region: ResB; pfam05140 662598001045 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 662598001046 UGMP family protein; Validated; Region: PRK09604 662598001047 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 662598001048 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 662598001049 putative acyl-acceptor binding pocket; other site 662598001050 S-adenosylmethionine synthetase; Validated; Region: PRK05250 662598001051 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 662598001052 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 662598001053 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 662598001054 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 662598001055 Predicted flavoprotein [General function prediction only]; Region: COG0431 662598001056 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 662598001057 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 662598001058 Citrate transporter; Region: CitMHS; pfam03600 662598001059 cheY-homologous receiver domain; Region: REC; smart00448 662598001060 sensor protein QseC; Provisional; Region: PRK10337 662598001061 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 662598001062 dimer interface [polypeptide binding]; other site 662598001063 phosphorylation site [posttranslational modification] 662598001064 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 662598001065 ATP binding site [chemical binding]; other site 662598001066 Mg2+ binding site [ion binding]; other site 662598001067 G-X-G motif; other site 662598001068 ribonuclease G; Provisional; Region: PRK11712 662598001069 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 662598001070 homodimer interface [polypeptide binding]; other site 662598001071 oligonucleotide binding site [chemical binding]; other site 662598001072 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 662598001073 GSH binding site [chemical binding]; other site 662598001074 catalytic residues [active] 662598001075 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 662598001076 SecA binding site; other site 662598001077 Preprotein binding site; other site 662598001078 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 662598001079 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 662598001080 generic binding surface II; other site 662598001081 ssDNA binding site; other site 662598001082 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 662598001083 ATP binding site [chemical binding]; other site 662598001084 putative Mg++ binding site [ion binding]; other site 662598001085 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 662598001086 nucleotide binding region [chemical binding]; other site 662598001087 ATP-binding site [chemical binding]; other site 662598001088 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 662598001089 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 662598001090 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 662598001091 Uncharacterized conserved protein [Function unknown]; Region: COG2850 662598001092 Cupin-like domain; Region: Cupin_8; pfam13621 662598001094 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 662598001095 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 662598001096 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 662598001097 haemagglutination activity domain; Region: Haemagg_act; pfam05860 662598001098 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 662598001099 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 662598001100 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 662598001102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 662598001103 ABC transporter signature motif; other site 662598001104 Walker B; other site 662598001105 D-loop; other site 662598001106 H-loop/switch region; other site 662598001107 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 662598001108 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 662598001110 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 662598001111 Ligand Binding Site [chemical binding]; other site 662598001112 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 662598001113 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 662598001114 active site 662598001115 Predicted membrane protein [Function unknown]; Region: COG3759 662598001116 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 662598001117 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 662598001118 FeS/SAM binding site; other site 662598001119 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 662598001120 beta-hexosaminidase; Provisional; Region: PRK05337 662598001121 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 662598001122 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 662598001123 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 662598001124 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 662598001125 protein binding site [polypeptide binding]; other site 662598001126 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 662598001127 protein binding site [polypeptide binding]; other site 662598001128 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 662598001129 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 662598001130 minor groove reading motif; other site 662598001131 helix-hairpin-helix signature motif; other site 662598001132 substrate binding pocket [chemical binding]; other site 662598001133 active site 662598001134 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 662598001135 Predicted membrane protein [Function unknown]; Region: COG1238 662598001136 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 662598001137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598001138 putative substrate translocation pore; other site 662598001139 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 662598001140 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 662598001141 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 662598001142 Transporter associated domain; Region: CorC_HlyC; smart01091 662598001143 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 662598001144 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 662598001145 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 662598001146 domain interfaces; other site 662598001147 active site 662598001148 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 662598001149 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 662598001150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598001151 homodimer interface [polypeptide binding]; other site 662598001152 catalytic residue [active] 662598001153 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 662598001154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 662598001155 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 662598001156 L-lactate permease; Region: Lactate_perm; cl00701 662598001157 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 662598001158 putative active site [active] 662598001159 putative metal binding site [ion binding]; other site 662598001160 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 662598001161 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 662598001162 Walker A/P-loop; other site 662598001163 ATP binding site [chemical binding]; other site 662598001164 Q-loop/lid; other site 662598001165 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 662598001166 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 662598001167 ABC transporter signature motif; other site 662598001168 Walker B; other site 662598001169 D-loop; other site 662598001170 H-loop/switch region; other site 662598001171 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 662598001172 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 662598001173 NAD binding site [chemical binding]; other site 662598001174 substrate binding site [chemical binding]; other site 662598001175 catalytic Zn binding site [ion binding]; other site 662598001176 tetramer interface [polypeptide binding]; other site 662598001177 structural Zn binding site [ion binding]; other site 662598001178 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 662598001179 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 662598001180 macrolide transporter subunit MacA; Provisional; Region: PRK11578 662598001181 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 662598001182 HlyD family secretion protein; Region: HlyD_3; pfam13437 662598001183 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 662598001184 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 662598001185 Walker A/P-loop; other site 662598001186 ATP binding site [chemical binding]; other site 662598001187 Q-loop/lid; other site 662598001188 ABC transporter signature motif; other site 662598001189 Walker B; other site 662598001190 D-loop; other site 662598001191 H-loop/switch region; other site 662598001192 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 662598001193 FtsX-like permease family; Region: FtsX; pfam02687 662598001194 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 662598001195 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 662598001196 dimerization domain [polypeptide binding]; other site 662598001197 dimer interface [polypeptide binding]; other site 662598001198 catalytic residues [active] 662598001199 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 662598001200 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 662598001201 ATP binding site [chemical binding]; other site 662598001202 putative Mg++ binding site [ion binding]; other site 662598001203 helicase superfamily c-terminal domain; Region: HELICc; smart00490 662598001204 ATP-binding site [chemical binding]; other site 662598001206 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 662598001207 chaperone protein DnaK; Region: prok_dnaK; TIGR02350 662598001208 nucleotide binding site [chemical binding]; other site 662598001209 NEF interaction site [polypeptide binding]; other site 662598001210 SBD interface [polypeptide binding]; other site 662598001211 Predicted transcriptional regulator [Transcription]; Region: COG2932 662598001212 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 662598001213 Catalytic site [active] 662598001214 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 662598001215 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 662598001216 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 662598001217 serine acetyltransferase; Provisional; Region: cysE; PRK11132 662598001218 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 662598001219 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 662598001220 trimer interface [polypeptide binding]; other site 662598001221 active site 662598001222 substrate binding site [chemical binding]; other site 662598001223 CoA binding site [chemical binding]; other site 662598001224 GrpE; Region: GrpE; pfam01025 662598001225 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 662598001226 dimer interface [polypeptide binding]; other site 662598001227 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 662598001228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 662598001229 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 662598001230 ApbE family; Region: ApbE; pfam02424 662598001231 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 662598001232 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 662598001233 catalytic loop [active] 662598001234 iron binding site [ion binding]; other site 662598001235 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 662598001236 FAD binding pocket [chemical binding]; other site 662598001237 FAD binding motif [chemical binding]; other site 662598001238 phosphate binding motif [ion binding]; other site 662598001239 beta-alpha-beta structure motif; other site 662598001240 NAD binding pocket [chemical binding]; other site 662598001241 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 662598001242 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 662598001243 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 662598001244 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 662598001245 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 662598001246 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 662598001247 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 662598001248 E3 interaction surface; other site 662598001249 lipoyl attachment site [posttranslational modification]; other site 662598001250 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 662598001251 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 662598001252 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 662598001253 transmembrane helices; other site 662598001254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 662598001255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 662598001256 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 662598001257 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 662598001258 putative DNA binding site [nucleotide binding]; other site 662598001259 putative Zn2+ binding site [ion binding]; other site 662598001260 AsnC family; Region: AsnC_trans_reg; pfam01037 662598001261 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 662598001262 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 662598001263 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 662598001264 lipoyl attachment site [posttranslational modification]; other site 662598001265 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 662598001266 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 662598001267 tRNA; other site 662598001268 putative tRNA binding site [nucleotide binding]; other site 662598001269 putative NADP binding site [chemical binding]; other site 662598001270 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 662598001271 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 662598001272 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 662598001273 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 662598001274 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 662598001275 Walker A/P-loop; other site 662598001276 ATP binding site [chemical binding]; other site 662598001277 Q-loop/lid; other site 662598001278 ABC transporter signature motif; other site 662598001279 Walker B; other site 662598001280 D-loop; other site 662598001281 H-loop/switch region; other site 662598001282 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 662598001283 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 662598001284 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 662598001285 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 662598001286 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 662598001287 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 662598001288 putative active site [active] 662598001289 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 662598001290 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 662598001291 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 662598001292 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 662598001293 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 662598001294 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 662598001295 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 662598001296 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 662598001297 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 662598001298 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 662598001299 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 662598001300 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 662598001301 metal binding site [ion binding]; metal-binding site 662598001302 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 662598001303 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 662598001304 ABC-ATPase subunit interface; other site 662598001305 dimer interface [polypeptide binding]; other site 662598001306 putative PBP binding regions; other site 662598001307 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 662598001308 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 662598001309 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 662598001310 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 662598001311 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 662598001312 RimM N-terminal domain; Region: RimM; pfam01782 662598001313 PRC-barrel domain; Region: PRC; pfam05239 662598001314 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 662598001315 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 662598001316 CoA binding domain; Region: CoA_binding_2; pfam13380 662598001317 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 662598001318 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 662598001319 Coenzyme A binding pocket [chemical binding]; other site 662598001320 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 662598001321 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 662598001322 dimerization interface [polypeptide binding]; other site 662598001323 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 662598001324 dimer interface [polypeptide binding]; other site 662598001325 phosphorylation site [posttranslational modification] 662598001326 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 662598001327 ATP binding site [chemical binding]; other site 662598001328 Mg2+ binding site [ion binding]; other site 662598001329 G-X-G motif; other site 662598001330 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 662598001331 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 662598001332 active site 662598001333 phosphorylation site [posttranslational modification] 662598001334 intermolecular recognition site; other site 662598001335 dimerization interface [polypeptide binding]; other site 662598001336 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 662598001337 DNA binding site [nucleotide binding] 662598001338 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 662598001339 O-Antigen ligase; Region: Wzy_C; pfam04932 662598001340 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 662598001341 Predicted membrane protein [Function unknown]; Region: COG3308 662598001342 Maf-like protein; Region: Maf; pfam02545 662598001343 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 662598001344 active site 662598001345 dimer interface [polypeptide binding]; other site 662598001346 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 662598001347 sec-independent translocase; Provisional; Region: PRK00708 662598001348 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 662598001349 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 662598001350 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 662598001351 nucleotide binding site/active site [active] 662598001352 HIT family signature motif; other site 662598001353 catalytic residue [active] 662598001354 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 662598001355 metal binding site [ion binding]; metal-binding site 662598001356 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 662598001357 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 662598001358 putative NAD(P) binding site [chemical binding]; other site 662598001359 catalytic Zn binding site [ion binding]; other site 662598001360 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 662598001361 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 662598001362 putative active site [active] 662598001363 Zn binding site [ion binding]; other site 662598001364 Preprotein translocase subunit; Region: YajC; pfam02699 662598001365 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 662598001366 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 662598001367 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 662598001368 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 662598001369 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 662598001370 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 662598001371 Protein export membrane protein; Region: SecD_SecF; pfam02355 662598001372 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 662598001373 16S/18S rRNA binding site [nucleotide binding]; other site 662598001374 S13e-L30e interaction site [polypeptide binding]; other site 662598001375 25S rRNA binding site [nucleotide binding]; other site 662598001376 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 662598001377 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 662598001378 Walker A/P-loop; other site 662598001379 ATP binding site [chemical binding]; other site 662598001380 Q-loop/lid; other site 662598001381 ABC transporter signature motif; other site 662598001382 Walker B; other site 662598001383 D-loop; other site 662598001384 H-loop/switch region; other site 662598001385 TOBE domain; Region: TOBE_2; pfam08402 662598001386 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598001387 dimer interface [polypeptide binding]; other site 662598001388 conserved gate region; other site 662598001389 putative PBP binding loops; other site 662598001390 ABC-ATPase subunit interface; other site 662598001391 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 662598001392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598001393 dimer interface [polypeptide binding]; other site 662598001394 conserved gate region; other site 662598001395 putative PBP binding loops; other site 662598001396 ABC-ATPase subunit interface; other site 662598001397 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 662598001398 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 662598001399 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 662598001400 transcription termination factor Rho; Provisional; Region: rho; PRK09376 662598001401 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 662598001402 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 662598001403 RNA binding site [nucleotide binding]; other site 662598001404 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 662598001405 multimer interface [polypeptide binding]; other site 662598001406 Walker A motif; other site 662598001407 ATP binding site [chemical binding]; other site 662598001408 Walker B motif; other site 662598001409 phosphoenolpyruvate synthase; Validated; Region: PRK06464 662598001410 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 662598001411 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 662598001412 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 662598001413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 662598001414 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 662598001415 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598001416 motif II; other site 662598001417 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 662598001418 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 662598001419 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 662598001420 dinuclear metal binding motif [ion binding]; other site 662598001421 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 662598001422 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 662598001423 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 662598001424 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 662598001425 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 662598001426 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 662598001427 trimer interface [polypeptide binding]; other site 662598001428 putative metal binding site [ion binding]; other site 662598001429 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 662598001430 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 662598001431 G1 box; other site 662598001432 putative GEF interaction site [polypeptide binding]; other site 662598001433 GTP/Mg2+ binding site [chemical binding]; other site 662598001434 Switch I region; other site 662598001435 G2 box; other site 662598001436 G3 box; other site 662598001437 Switch II region; other site 662598001438 G4 box; other site 662598001439 G5 box; other site 662598001440 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 662598001441 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 662598001442 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 662598001443 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 662598001444 substrate binding site [chemical binding]; other site 662598001445 glutamase interaction surface [polypeptide binding]; other site 662598001446 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 662598001447 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 662598001448 catalytic residues [active] 662598001449 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 662598001450 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 662598001451 putative active site [active] 662598001452 oxyanion strand; other site 662598001453 catalytic triad [active] 662598001454 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 662598001455 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 662598001456 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 662598001457 Walker A/P-loop; other site 662598001458 ATP binding site [chemical binding]; other site 662598001459 Q-loop/lid; other site 662598001460 ABC transporter signature motif; other site 662598001461 Walker B; other site 662598001462 D-loop; other site 662598001463 H-loop/switch region; other site 662598001464 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 662598001465 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598001466 dimer interface [polypeptide binding]; other site 662598001467 conserved gate region; other site 662598001468 putative PBP binding loops; other site 662598001469 ABC-ATPase subunit interface; other site 662598001470 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598001471 dimer interface [polypeptide binding]; other site 662598001472 conserved gate region; other site 662598001473 ABC-ATPase subunit interface; other site 662598001474 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 662598001475 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 662598001476 argininosuccinate lyase; Provisional; Region: PRK00855 662598001477 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 662598001478 active sites [active] 662598001479 tetramer interface [polypeptide binding]; other site 662598001480 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 662598001481 active site 662598001482 tetramer interface; other site 662598001483 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 662598001484 active site 662598001485 dimerization interface [polypeptide binding]; other site 662598001486 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 662598001487 dimer interface [polypeptide binding]; other site 662598001488 substrate binding site [chemical binding]; other site 662598001489 metal binding sites [ion binding]; metal-binding site 662598001490 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 662598001491 nudix motif; other site 662598001492 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 662598001493 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 662598001494 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 662598001495 Pretoxin HINT domain; Region: PT-HINT; pfam07591 662598001496 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 662598001497 thioester formation/cholesterol transfer; other site 662598001498 protein-splicing catalytic site; other site 662598001500 Pretoxin HINT domain; Region: PT-HINT; pfam07591 662598001501 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 662598001502 thioester formation/cholesterol transfer; other site 662598001503 protein-splicing catalytic site; other site 662598001505 Cation transport protein; Region: TrkH; cl17365 662598001506 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 662598001507 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 662598001508 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 662598001509 active site 662598001510 metal binding site [ion binding]; metal-binding site 662598001511 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 662598001512 homotrimer interaction site [polypeptide binding]; other site 662598001513 putative active site [active] 662598001514 Opacity family porin protein; Region: Opacity; pfam02462 662598001515 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 662598001516 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 662598001517 FeS/SAM binding site; other site 662598001518 HemN C-terminal domain; Region: HemN_C; pfam06969 662598001519 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 662598001520 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 662598001521 nucleotide binding pocket [chemical binding]; other site 662598001522 K-X-D-G motif; other site 662598001523 catalytic site [active] 662598001524 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 662598001525 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 662598001526 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 662598001527 Dimer interface [polypeptide binding]; other site 662598001528 BRCT sequence motif; other site 662598001529 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 662598001530 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 662598001531 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 662598001532 amidase catalytic site [active] 662598001533 Zn binding residues [ion binding]; other site 662598001534 substrate binding site [chemical binding]; other site 662598001535 YceG-like family; Region: YceG; pfam02618 662598001536 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 662598001537 dimerization interface [polypeptide binding]; other site 662598001538 thymidylate kinase; Validated; Region: tmk; PRK00698 662598001539 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 662598001540 TMP-binding site; other site 662598001541 ATP-binding site [chemical binding]; other site 662598001542 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 662598001543 Malic enzyme, N-terminal domain; Region: malic; pfam00390 662598001544 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 662598001545 putative NAD(P) binding site [chemical binding]; other site 662598001546 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 662598001547 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 662598001548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 662598001549 Uncharacterized conserved protein [Function unknown]; Region: COG2835 662598001550 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 662598001551 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 662598001552 Ligand binding site; other site 662598001553 oligomer interface; other site 662598001554 conjugal transfer ATP-binding protein TraC; Provisional; Region: PRK13721 662598001555 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 662598001556 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 662598001557 substrate binding site [chemical binding]; other site 662598001558 active site 662598001559 catalytic residues [active] 662598001560 heterodimer interface [polypeptide binding]; other site 662598001561 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 662598001562 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 662598001563 CNP1-like family; Region: CNP1; pfam08750 662598001564 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 662598001565 CPxP motif; other site 662598001566 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 662598001567 active site 662598001568 substrate binding pocket [chemical binding]; other site 662598001569 dimer interface [polypeptide binding]; other site 662598001570 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 662598001571 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 662598001572 cofactor binding site; other site 662598001573 DNA binding site [nucleotide binding] 662598001574 substrate interaction site [chemical binding]; other site 662598001575 ICEA Protein; Region: ICEA; pfam05315 662598001576 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 662598001577 putative RNA binding site [nucleotide binding]; other site 662598001578 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 662598001579 homopentamer interface [polypeptide binding]; other site 662598001580 active site 662598001581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 662598001582 ribonuclease III; Reviewed; Region: rnc; PRK00102 662598001583 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 662598001584 dimerization interface [polypeptide binding]; other site 662598001585 active site 662598001586 metal binding site [ion binding]; metal-binding site 662598001587 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 662598001588 dsRNA binding site [nucleotide binding]; other site 662598001589 GTPase Era; Reviewed; Region: era; PRK00089 662598001590 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 662598001591 G1 box; other site 662598001592 GTP/Mg2+ binding site [chemical binding]; other site 662598001593 Switch I region; other site 662598001594 G2 box; other site 662598001595 Switch II region; other site 662598001596 G3 box; other site 662598001597 G4 box; other site 662598001598 G5 box; other site 662598001599 KH domain; Region: KH_2; pfam07650 662598001600 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 662598001601 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 662598001602 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 662598001603 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 662598001604 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 662598001605 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 662598001606 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 662598001607 active site 662598001608 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 662598001609 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 662598001610 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 662598001611 amidophosphoribosyltransferase; Provisional; Region: PRK09246 662598001612 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 662598001613 active site 662598001614 tetramer interface [polypeptide binding]; other site 662598001615 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 662598001616 active site 662598001617 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 662598001618 Colicin V production protein; Region: Colicin_V; pfam02674 662598001619 cell division protein FtsN; Region: ftsN; TIGR02223 662598001620 Sporulation related domain; Region: SPOR; pfam05036 662598001621 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 662598001622 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 662598001623 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 662598001624 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 662598001625 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 662598001626 Walker A/P-loop; other site 662598001627 ATP binding site [chemical binding]; other site 662598001628 Q-loop/lid; other site 662598001629 ABC transporter signature motif; other site 662598001630 Walker B; other site 662598001631 D-loop; other site 662598001632 H-loop/switch region; other site 662598001633 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 662598001634 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 662598001635 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 662598001636 putative active site [active] 662598001637 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 662598001638 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 662598001639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598001640 catalytic residue [active] 662598001641 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 662598001642 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 662598001643 Autotransporter beta-domain; Region: Autotransporter; pfam03797 662598001644 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 662598001645 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 662598001646 Competence protein; Region: Competence; pfam03772 662598001647 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 662598001648 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 662598001649 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 662598001650 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 662598001651 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 662598001652 RNA binding surface [nucleotide binding]; other site 662598001653 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 662598001654 active site 662598001655 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 662598001656 Sodium Bile acid symporter family; Region: SBF; pfam01758 662598001657 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 662598001658 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 662598001659 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 662598001660 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 662598001661 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 662598001662 Predicted membrane protein/domain [Function unknown]; Region: COG1714 662598001663 hypothetical protein; Provisional; Region: PRK11820 662598001664 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 662598001665 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 662598001666 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 662598001667 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 662598001668 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 662598001669 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 662598001670 DNA binding residues [nucleotide binding] 662598001671 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 662598001672 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 662598001673 putative active site [active] 662598001674 catalytic triad [active] 662598001675 putative dimer interface [polypeptide binding]; other site 662598001676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 662598001678 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 662598001679 Cytochrome c; Region: Cytochrom_C; pfam00034 662598001680 ferrochelatase; Reviewed; Region: hemH; PRK00035 662598001681 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 662598001682 C-terminal domain interface [polypeptide binding]; other site 662598001683 active site 662598001684 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 662598001685 active site 662598001686 N-terminal domain interface [polypeptide binding]; other site 662598001687 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 662598001688 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 662598001689 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 662598001690 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 662598001691 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 662598001692 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 662598001693 active site 662598001694 dimer interface [polypeptide binding]; other site 662598001695 motif 1; other site 662598001696 motif 2; other site 662598001697 motif 3; other site 662598001698 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 662598001699 anticodon binding site; other site 662598001700 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 662598001701 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 662598001702 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 662598001703 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 662598001704 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 662598001705 23S rRNA binding site [nucleotide binding]; other site 662598001706 L21 binding site [polypeptide binding]; other site 662598001707 L13 binding site [polypeptide binding]; other site 662598001708 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 662598001709 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 662598001710 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 662598001711 dimer interface [polypeptide binding]; other site 662598001712 motif 1; other site 662598001713 active site 662598001714 motif 2; other site 662598001715 motif 3; other site 662598001716 HEAT repeats; Region: HEAT_2; pfam13646 662598001717 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 662598001718 DNA methylase; Region: N6_N4_Mtase; pfam01555 662598001719 CfrBI restriction endonuclease; Region: RE_CfrBI; pfam09516 662598001720 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 662598001721 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 662598001722 putative tRNA-binding site [nucleotide binding]; other site 662598001723 B3/4 domain; Region: B3_4; pfam03483 662598001724 tRNA synthetase B5 domain; Region: B5; smart00874 662598001725 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 662598001726 dimer interface [polypeptide binding]; other site 662598001727 motif 1; other site 662598001728 motif 3; other site 662598001729 motif 2; other site 662598001730 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 662598001731 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 662598001732 IHF - DNA interface [nucleotide binding]; other site 662598001733 IHF dimer interface [polypeptide binding]; other site 662598001734 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 662598001735 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 662598001736 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 662598001737 inhibitor-cofactor binding pocket; inhibition site 662598001738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598001739 catalytic residue [active] 662598001740 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 662598001741 AAA domain; Region: AAA_26; pfam13500 662598001742 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 662598001743 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 662598001744 UbiA prenyltransferase family; Region: UbiA; pfam01040 662598001745 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 662598001746 active site 662598001747 phosphorylation site [posttranslational modification] 662598001748 HPr kinase/phosphorylase; Provisional; Region: PRK05428 662598001749 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 662598001750 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 662598001751 Hpr binding site; other site 662598001752 active site 662598001753 homohexamer subunit interaction site [polypeptide binding]; other site 662598001754 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 662598001755 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 662598001756 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 662598001757 GTP/Mg2+ binding site [chemical binding]; other site 662598001758 G4 box; other site 662598001759 G5 box; other site 662598001760 G1 box; other site 662598001761 Switch I region; other site 662598001762 G2 box; other site 662598001763 G3 box; other site 662598001764 Switch II region; other site 662598001765 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 662598001766 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 662598001767 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 662598001768 Walker A/P-loop; other site 662598001769 ATP binding site [chemical binding]; other site 662598001770 Q-loop/lid; other site 662598001771 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 662598001772 ABC transporter signature motif; other site 662598001773 Walker B; other site 662598001774 D-loop; other site 662598001775 H-loop/switch region; other site 662598001776 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 662598001777 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 662598001778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 662598001779 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 662598001780 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598001781 S-adenosylmethionine binding site [chemical binding]; other site 662598001782 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 662598001783 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 662598001784 catalytic center binding site [active] 662598001785 ATP binding site [chemical binding]; other site 662598001786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 662598001787 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598001788 S-adenosylmethionine binding site [chemical binding]; other site 662598001789 bacterial Hfq-like; Region: Hfq; cd01716 662598001790 hexamer interface [polypeptide binding]; other site 662598001791 Sm1 motif; other site 662598001792 RNA binding site [nucleotide binding]; other site 662598001793 Sm2 motif; other site 662598001794 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 662598001795 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 662598001796 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 662598001797 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 662598001798 catalytic triad [active] 662598001799 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 662598001800 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 662598001801 active site 662598001802 Int/Topo IB signature motif; other site 662598001803 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 662598001804 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 662598001805 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 662598001806 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 662598001807 NADP binding site [chemical binding]; other site 662598001808 active site 662598001809 putative substrate binding site [chemical binding]; other site 662598001810 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 662598001811 ATP binding site [chemical binding]; other site 662598001812 active site 662598001813 substrate binding site [chemical binding]; other site 662598001814 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 662598001815 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 662598001816 RNase E interface [polypeptide binding]; other site 662598001817 trimer interface [polypeptide binding]; other site 662598001818 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 662598001819 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 662598001820 RNase E interface [polypeptide binding]; other site 662598001821 trimer interface [polypeptide binding]; other site 662598001822 active site 662598001823 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 662598001824 putative nucleic acid binding region [nucleotide binding]; other site 662598001825 G-X-X-G motif; other site 662598001826 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 662598001827 RNA binding site [nucleotide binding]; other site 662598001828 domain interface; other site 662598001829 Uncharacterized conserved protein [Function unknown]; Region: COG2836 662598001830 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 662598001831 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 662598001832 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 662598001833 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 662598001834 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 662598001835 dimer interface [polypeptide binding]; other site 662598001836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598001837 catalytic residue [active] 662598001838 EamA-like transporter family; Region: EamA; pfam00892 662598001839 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 662598001840 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 662598001841 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 662598001842 Catalytic site [active] 662598001843 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 662598001844 GTP-binding protein LepA; Provisional; Region: PRK05433 662598001845 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 662598001846 G1 box; other site 662598001847 putative GEF interaction site [polypeptide binding]; other site 662598001848 GTP/Mg2+ binding site [chemical binding]; other site 662598001849 Switch I region; other site 662598001850 G2 box; other site 662598001851 G3 box; other site 662598001852 Switch II region; other site 662598001853 G4 box; other site 662598001854 G5 box; other site 662598001855 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 662598001856 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 662598001857 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 662598001858 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 662598001859 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 662598001860 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 662598001861 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 662598001862 Walker A motif; other site 662598001863 ATP binding site [chemical binding]; other site 662598001864 Walker B motif; other site 662598001865 DNA polymerase III subunit delta'; Validated; Region: PRK08699 662598001866 DNA polymerase III subunit delta'; Validated; Region: PRK08485 662598001867 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 662598001868 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 662598001869 active site 662598001871 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 662598001872 putative GSH binding site [chemical binding]; other site 662598001873 catalytic residues [active] 662598001874 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 662598001875 active site 662598001876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 662598001877 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 662598001878 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 662598001879 active site 662598001880 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 662598001881 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 662598001882 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 662598001883 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 662598001884 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 662598001885 substrate binding site [chemical binding]; other site 662598001886 active site 662598001887 DNA repair protein RadA; Provisional; Region: PRK11823 662598001888 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 662598001889 Walker A motif/ATP binding site; other site 662598001890 ATP binding site [chemical binding]; other site 662598001891 Walker B motif; other site 662598001892 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 662598001893 Uncharacterized conserved protein [Function unknown]; Region: COG3439 662598001894 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 662598001895 active site residue [active] 662598001896 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 662598001897 Part of AAA domain; Region: AAA_19; pfam13245 662598001898 Family description; Region: UvrD_C_2; pfam13538 662598001899 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 662598001900 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 662598001901 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 662598001902 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 662598001903 substrate binding pocket [chemical binding]; other site 662598001904 membrane-bound complex binding site; other site 662598001905 hinge residues; other site 662598001906 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 662598001907 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598001908 dimer interface [polypeptide binding]; other site 662598001909 conserved gate region; other site 662598001910 putative PBP binding loops; other site 662598001911 ABC-ATPase subunit interface; other site 662598001912 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 662598001913 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 662598001914 Walker A/P-loop; other site 662598001915 ATP binding site [chemical binding]; other site 662598001916 Q-loop/lid; other site 662598001917 ABC transporter signature motif; other site 662598001918 Walker B; other site 662598001919 D-loop; other site 662598001920 H-loop/switch region; other site 662598001921 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 662598001922 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 662598001923 active site 662598001924 substrate binding site [chemical binding]; other site 662598001925 metal binding site [ion binding]; metal-binding site 662598001926 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 662598001927 active site 662598001928 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 662598001929 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 662598001930 VanZ like family; Region: VanZ; cl01971 662598001931 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 662598001932 putative active site [active] 662598001933 catalytic residue [active] 662598001934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 662598001935 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 662598001936 putative coenzyme Q binding site [chemical binding]; other site 662598001937 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 662598001938 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598001939 Walker A motif; other site 662598001940 ATP binding site [chemical binding]; other site 662598001941 Walker B motif; other site 662598001942 arginine finger; other site 662598001943 Peptidase family M41; Region: Peptidase_M41; pfam01434 662598001944 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 662598001945 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598001946 S-adenosylmethionine binding site [chemical binding]; other site 662598001947 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 662598001948 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 662598001949 dimer interface [polypeptide binding]; other site 662598001950 active site 662598001951 aspartate-rich active site metal binding site; other site 662598001952 allosteric magnesium binding site [ion binding]; other site 662598001953 Schiff base residues; other site 662598001954 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 662598001955 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 662598001956 homodimer interface [polypeptide binding]; other site 662598001957 substrate-cofactor binding pocket; other site 662598001958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598001959 catalytic residue [active] 662598001960 putative GTP cyclohydrolase; Provisional; Region: PRK13674 662598001961 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 662598001962 dimer interface [polypeptide binding]; other site 662598001963 FMN binding site [chemical binding]; other site 662598001964 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 662598001965 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 662598001966 RNA binding surface [nucleotide binding]; other site 662598001967 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 662598001968 active site 662598001969 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 662598001970 ATP-NAD kinase; Region: NAD_kinase; pfam01513 662598001971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 662598001972 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 662598001973 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 662598001974 putative NAD(P) binding site [chemical binding]; other site 662598001975 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 662598001976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 662598001977 Bacterial transcriptional repressor; Region: TetR; pfam13972 662598001978 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 662598001979 FAD binding domain; Region: FAD_binding_4; pfam01565 662598001980 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 662598001981 multidrug efflux protein; Reviewed; Region: PRK01766 662598001982 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 662598001983 cation binding site [ion binding]; other site 662598001984 ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]; Region: HisZ; COG3705 662598001985 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 662598001986 dimer interface [polypeptide binding]; other site 662598001987 motif 1; other site 662598001988 active site 662598001989 motif 2; other site 662598001990 motif 3; other site 662598001991 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 662598001992 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 662598001993 GDP-binding site [chemical binding]; other site 662598001994 ACT binding site; other site 662598001995 IMP binding site; other site 662598001996 Protein of unknown function (DUF723); Region: DUF723; pfam05265 662598001997 NUMOD4 motif; Region: NUMOD4; pfam07463 662598001998 Protein of unknown function (DUF723); Region: DUF723; pfam05265 662598001999 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 662598002000 Protein of unknown function (DUF723); Region: DUF723; pfam05265 662598002001 NUMOD1 domain; Region: NUMOD1; pfam07453 662598002002 heat shock protein HtpX; Provisional; Region: PRK05457 662598002003 adenylate kinase; Reviewed; Region: adk; PRK00279 662598002004 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 662598002005 AMP-binding site [chemical binding]; other site 662598002006 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 662598002007 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 662598002008 active site 662598002009 dimer interface [polypeptide binding]; other site 662598002010 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 662598002011 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 662598002012 putative ribose interaction site [chemical binding]; other site 662598002013 putative ADP binding site [chemical binding]; other site 662598002014 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 662598002015 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 662598002016 NADP binding site [chemical binding]; other site 662598002017 homopentamer interface [polypeptide binding]; other site 662598002018 substrate binding site [chemical binding]; other site 662598002019 active site 662598002020 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 662598002021 HsdM N-terminal domain; Region: HsdM_N; pfam12161 662598002022 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598002023 S-adenosylmethionine binding site [chemical binding]; other site 662598002026 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 662598002027 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 662598002028 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 662598002029 ATP binding site [chemical binding]; other site 662598002030 putative Mg++ binding site [ion binding]; other site 662598002031 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 662598002032 Clp amino terminal domain; Region: Clp_N; pfam02861 662598002033 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598002034 Walker A motif; other site 662598002035 ATP binding site [chemical binding]; other site 662598002036 Walker B motif; other site 662598002037 arginine finger; other site 662598002038 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598002039 Walker A motif; other site 662598002040 ATP binding site [chemical binding]; other site 662598002041 Walker B motif; other site 662598002042 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 662598002043 Uncharacterized conserved protein [Function unknown]; Region: COG2127 662598002044 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 662598002045 DNA-binding site [nucleotide binding]; DNA binding site 662598002046 RNA-binding motif; other site 662598002047 peptidase PmbA; Provisional; Region: PRK11040 662598002048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 662598002049 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 662598002050 DHH family; Region: DHH; pfam01368 662598002051 DHHA1 domain; Region: DHHA1; pfam02272 662598002052 poly(A) polymerase; Region: pcnB; TIGR01942 662598002053 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 662598002054 active site 662598002055 NTP binding site [chemical binding]; other site 662598002056 metal binding triad [ion binding]; metal-binding site 662598002057 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 662598002058 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 662598002059 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 662598002060 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 662598002061 PhoH-like protein; Region: PhoH; pfam02562 662598002062 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 662598002063 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 662598002064 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 662598002065 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 662598002066 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 662598002067 trimer interface [polypeptide binding]; other site 662598002068 active site 662598002069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 662598002070 MORN repeat; Region: MORN; cl14787 662598002071 Putative exonuclease, RdgC; Region: RdgC; cl01122 662598002072 GTP-binding protein Der; Reviewed; Region: PRK00093 662598002073 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 662598002074 G1 box; other site 662598002075 GTP/Mg2+ binding site [chemical binding]; other site 662598002076 Switch I region; other site 662598002077 G2 box; other site 662598002078 Switch II region; other site 662598002079 G3 box; other site 662598002080 G4 box; other site 662598002081 G5 box; other site 662598002082 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 662598002083 G1 box; other site 662598002084 GTP/Mg2+ binding site [chemical binding]; other site 662598002085 Switch I region; other site 662598002086 G2 box; other site 662598002087 G3 box; other site 662598002088 Switch II region; other site 662598002089 G4 box; other site 662598002090 G5 box; other site 662598002091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 662598002092 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 662598002093 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 662598002094 dimer interface [polypeptide binding]; other site 662598002095 motif 1; other site 662598002096 active site 662598002097 motif 2; other site 662598002098 motif 3; other site 662598002099 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 662598002100 anticodon binding site; other site 662598002101 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 662598002102 putative active site [active] 662598002103 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 662598002104 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 662598002105 probable active site [active] 662598002106 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 662598002107 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 662598002108 spermidine synthase; Provisional; Region: PRK04457 662598002109 S-adenosylmethionine binding site [chemical binding]; other site 662598002110 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 662598002111 oligomerization interface [polypeptide binding]; other site 662598002112 active site 662598002113 metal binding site [ion binding]; metal-binding site 662598002114 pantoate--beta-alanine ligase; Region: panC; TIGR00018 662598002115 Pantoate-beta-alanine ligase; Region: PanC; cd00560 662598002116 active site 662598002117 ATP-binding site [chemical binding]; other site 662598002118 pantoate-binding site; other site 662598002119 HXXH motif; other site 662598002120 TPR repeat; Region: TPR_11; pfam13414 662598002121 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 662598002122 binding surface 662598002123 TPR motif; other site 662598002124 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 662598002125 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 662598002126 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 662598002127 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 662598002128 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 662598002129 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 662598002130 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 662598002131 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 662598002132 active site 662598002133 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 662598002134 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 662598002135 5S rRNA interface [nucleotide binding]; other site 662598002136 CTC domain interface [polypeptide binding]; other site 662598002137 L16 interface [polypeptide binding]; other site 662598002138 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 662598002139 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 662598002140 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 662598002141 threonine dehydratase; Reviewed; Region: PRK09224 662598002142 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 662598002143 tetramer interface [polypeptide binding]; other site 662598002144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598002145 catalytic residue [active] 662598002146 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 662598002147 putative Ile/Val binding site [chemical binding]; other site 662598002148 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 662598002149 putative Ile/Val binding site [chemical binding]; other site 662598002150 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 662598002151 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 662598002152 Walker A/P-loop; other site 662598002153 ATP binding site [chemical binding]; other site 662598002154 Q-loop/lid; other site 662598002155 ABC transporter signature motif; other site 662598002156 Walker B; other site 662598002157 D-loop; other site 662598002158 H-loop/switch region; other site 662598002159 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 662598002160 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598002161 dimer interface [polypeptide binding]; other site 662598002162 conserved gate region; other site 662598002163 putative PBP binding loops; other site 662598002164 ABC-ATPase subunit interface; other site 662598002165 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 662598002166 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598002167 dimer interface [polypeptide binding]; other site 662598002168 conserved gate region; other site 662598002169 putative PBP binding loops; other site 662598002170 ABC-ATPase subunit interface; other site 662598002171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 662598002172 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 662598002173 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 662598002174 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 662598002175 replicative DNA helicase; Region: DnaB; TIGR00665 662598002176 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 662598002177 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 662598002178 Walker A motif; other site 662598002179 ATP binding site [chemical binding]; other site 662598002180 Walker B motif; other site 662598002181 DNA binding loops [nucleotide binding] 662598002182 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 662598002183 Type II transport protein GspH; Region: GspH; pfam12019 662598002184 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 662598002185 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 662598002186 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 662598002187 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 662598002188 PilX N-terminal; Region: PilX_N; pfam14341 662598002189 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 662598002190 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 662598002191 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 662598002192 AzlC protein; Region: AzlC; cl00570 662598002193 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 662598002194 trimer interface [polypeptide binding]; other site 662598002195 active site 662598002196 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 662598002197 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 662598002198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598002199 homodimer interface [polypeptide binding]; other site 662598002200 catalytic residue [active] 662598002201 hypothetical protein; Validated; Region: PRK02101 662598002202 integrase; Provisional; Region: PRK09692 662598002203 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 662598002204 active site 662598002205 Int/Topo IB signature motif; other site 662598002206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 662598002207 Prophage antirepressor [Transcription]; Region: COG3617 662598002208 BRO family, N-terminal domain; Region: Bro-N; pfam02498 662598002209 Uncharacterized conserved protein [Function unknown]; Region: COG5532 662598002210 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 662598002211 non-specific DNA binding site [nucleotide binding]; other site 662598002212 Predicted transcriptional regulator [Transcription]; Region: COG2932 662598002213 salt bridge; other site 662598002214 sequence-specific DNA binding site [nucleotide binding]; other site 662598002215 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 662598002216 Catalytic site [active] 662598002217 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 662598002218 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 662598002219 active site 662598002220 metal binding site [ion binding]; metal-binding site 662598002221 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 662598002222 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 662598002223 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 662598002224 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 662598002225 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 662598002226 Phage capsid family; Region: Phage_capsid; pfam05065 662598002227 Phage tail protein; Region: Phage_tail_3; pfam08813 662598002228 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 662598002229 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 662598002230 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 662598002231 Phage-related minor tail protein [Function unknown]; Region: COG5281 662598002232 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 662598002233 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 662598002234 Phage minor tail protein; Region: Phage_min_tail; pfam05939 662598002235 Phage minor tail protein L; Region: Phage_tail_L; pfam05100 662598002236 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 662598002237 MPN+ (JAMM) motif; other site 662598002238 Zinc-binding site [ion binding]; other site 662598002239 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 662598002240 NlpC/P60 family; Region: NLPC_P60; pfam00877 662598002241 Phage-related protein, tail component [Function unknown]; Region: COG4723 662598002242 Phage-related protein, tail component [Function unknown]; Region: COG4733 662598002243 Putative phage tail protein; Region: Phage-tail_3; pfam13550 662598002244 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 662598002245 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 662598002246 Peptidase M15; Region: Peptidase_M15_3; cl01194 662598002247 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 662598002248 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 662598002249 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 662598002250 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 662598002251 Cytochrome c556 [Energy production and conversion]; Region: COG3909 662598002252 malonic semialdehyde reductase; Provisional; Region: PRK10538 662598002253 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 662598002254 putative NAD(P) binding site [chemical binding]; other site 662598002255 homotetramer interface [polypeptide binding]; other site 662598002256 homodimer interface [polypeptide binding]; other site 662598002257 active site 662598002258 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 662598002260 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 662598002261 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 662598002262 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 662598002263 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 662598002264 dihydrodipicolinate synthase; Region: dapA; TIGR00674 662598002265 dimer interface [polypeptide binding]; other site 662598002266 active site 662598002267 catalytic residue [active] 662598002268 xanthine permease; Region: pbuX; TIGR03173 662598002269 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 662598002270 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 662598002271 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 662598002272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 662598002273 TfoX N-terminal domain; Region: TfoX_N; cl17592 662598002274 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 662598002275 nucleoside/Zn binding site; other site 662598002276 dimer interface [polypeptide binding]; other site 662598002277 catalytic motif [active] 662598002278 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 662598002279 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 662598002280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 662598002281 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 662598002282 elongation factor P; Validated; Region: PRK00529 662598002283 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 662598002284 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 662598002285 RNA binding site [nucleotide binding]; other site 662598002286 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 662598002287 RNA binding site [nucleotide binding]; other site 662598002288 Methyltransferase domain; Region: Methyltransf_23; pfam13489 662598002289 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598002290 S-adenosylmethionine binding site [chemical binding]; other site 662598002291 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 662598002292 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 662598002293 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 662598002294 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 662598002295 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 662598002296 FAD binding site [chemical binding]; other site 662598002297 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 662598002298 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 662598002299 THF binding site; other site 662598002300 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 662598002301 substrate binding site [chemical binding]; other site 662598002302 THF binding site; other site 662598002303 zinc-binding site [ion binding]; other site 662598002304 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 662598002305 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 662598002306 catalytic triad [active] 662598002307 dimer interface [polypeptide binding]; other site 662598002308 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 662598002309 GSH binding site [chemical binding]; other site 662598002310 catalytic residues [active] 662598002311 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 662598002312 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 662598002313 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 662598002314 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 662598002315 Iron-sulfur protein interface; other site 662598002316 proximal quinone binding site [chemical binding]; other site 662598002317 SdhD (CybS) interface [polypeptide binding]; other site 662598002318 proximal heme binding site [chemical binding]; other site 662598002319 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 662598002320 SdhC subunit interface [polypeptide binding]; other site 662598002321 proximal heme binding site [chemical binding]; other site 662598002322 cardiolipin binding site; other site 662598002323 Iron-sulfur protein interface; other site 662598002324 proximal quinone binding site [chemical binding]; other site 662598002325 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 662598002326 L-aspartate oxidase; Provisional; Region: PRK06175 662598002327 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 662598002328 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 662598002329 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 662598002330 Uncharacterized conserved protein [Function unknown]; Region: COG2938 662598002331 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 662598002332 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 662598002333 dimer interface [polypeptide binding]; other site 662598002334 active site 662598002335 citrylCoA binding site [chemical binding]; other site 662598002336 NADH binding [chemical binding]; other site 662598002337 cationic pore residues; other site 662598002338 oxalacetate/citrate binding site [chemical binding]; other site 662598002339 coenzyme A binding site [chemical binding]; other site 662598002340 catalytic triad [active] 662598002341 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 662598002342 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 662598002343 TPP-binding site [chemical binding]; other site 662598002344 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 662598002345 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 662598002346 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 662598002347 E3 interaction surface; other site 662598002348 lipoyl attachment site [posttranslational modification]; other site 662598002349 e3 binding domain; Region: E3_binding; pfam02817 662598002350 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 662598002351 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 662598002352 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 662598002353 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 662598002354 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 662598002355 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 662598002356 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 662598002357 CoA-ligase; Region: Ligase_CoA; pfam00549 662598002358 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 662598002359 CoA binding domain; Region: CoA_binding; smart00881 662598002360 CoA-ligase; Region: Ligase_CoA; pfam00549 662598002362 Predicted transcriptional regulator [Transcription]; Region: COG2378 662598002363 WYL domain; Region: WYL; pfam13280 662598002364 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 662598002365 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 662598002366 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 662598002367 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 662598002368 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 662598002369 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 662598002370 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 662598002371 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 662598002372 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 662598002373 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 662598002374 glutamine binding [chemical binding]; other site 662598002375 catalytic triad [active] 662598002376 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 662598002377 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 662598002378 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 662598002379 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 662598002380 Replication initiation factor; Region: Rep_trans; pfam02486 662598002382 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 662598002383 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 662598002384 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 662598002385 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 662598002386 MAPEG family; Region: MAPEG; cl09190 662598002387 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 662598002388 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 662598002389 ligand binding site [chemical binding]; other site 662598002390 homodimer interface [polypeptide binding]; other site 662598002391 NAD(P) binding site [chemical binding]; other site 662598002392 trimer interface B [polypeptide binding]; other site 662598002393 trimer interface A [polypeptide binding]; other site 662598002394 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 662598002395 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 662598002396 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 662598002397 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598002398 motif II; other site 662598002399 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 662598002400 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 662598002401 putative ion selectivity filter; other site 662598002402 putative pore gating glutamate residue; other site 662598002403 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 662598002404 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 662598002405 purine monophosphate binding site [chemical binding]; other site 662598002406 dimer interface [polypeptide binding]; other site 662598002407 putative catalytic residues [active] 662598002408 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 662598002409 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 662598002410 Mu-like prophage protein gp16 [Function unknown]; Region: COG4382 662598002411 Mor transcription activator family; Region: Mor; cl02360 662598002412 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 662598002413 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 662598002414 active site 662598002415 metal binding site [ion binding]; metal-binding site 662598002416 Uncharacterized conserved protein [Function unknown]; Region: COG3422 662598002417 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 662598002418 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 662598002419 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 662598002420 YadA-like C-terminal region; Region: YadA; pfam03895 662598002421 Rubredoxin [Energy production and conversion]; Region: COG1773 662598002422 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 662598002423 iron binding site [ion binding]; other site 662598002424 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 662598002425 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 662598002426 active site 662598002427 Uncharacterized conserved protein [Function unknown]; Region: COG2128 662598002428 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 662598002429 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 662598002430 D-lactate dehydrogenase; Provisional; Region: PRK11183 662598002431 FAD binding domain; Region: FAD_binding_4; pfam01565 662598002432 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 662598002433 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 662598002434 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 662598002435 FAD binding domain; Region: FAD_binding_4; pfam01565 662598002436 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 662598002437 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 662598002438 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 662598002439 Cysteine-rich domain; Region: CCG; pfam02754 662598002440 Cysteine-rich domain; Region: CCG; pfam02754 662598002441 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 662598002442 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 662598002443 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 662598002444 FMN binding site [chemical binding]; other site 662598002445 active site 662598002446 catalytic residues [active] 662598002447 substrate binding site [chemical binding]; other site 662598002448 potential frameshift: common BLAST hit: gi|194098728|ref|YP_002001790.1| putative phage associated protein 662598002449 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 662598002450 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 662598002451 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 662598002452 Mor transcription activator family; Region: Mor; pfam08765 662598002453 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; pfam13876 662598002454 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 662598002455 Gp37 protein; Region: Gp37; pfam09646 662598002456 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 662598002457 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 662598002458 Phage tail tube protein FII; Region: Phage_tube; pfam04985 662598002459 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 662598002460 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 662598002461 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 662598002462 Phage Tail Protein X; Region: Phage_tail_X; cl02088 662598002463 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 662598002464 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 662598002465 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 662598002466 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 662598002467 Baseplate J-like protein; Region: Baseplate_J; cl01294 662598002468 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 662598002469 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 662598002470 Phage Tail Collar Domain; Region: Collar; pfam07484 662598002471 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 662598002472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 662598002473 Smr domain; Region: Smr; pfam01713 662598002474 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 662598002475 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 662598002476 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 662598002477 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 662598002478 Coenzyme A binding pocket [chemical binding]; other site 662598002479 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 662598002480 ATP-grasp domain; Region: ATP-grasp; pfam02222 662598002481 NgoMIV restriction enzyme; Region: NgoMIV_restric; pfam09015 662598002482 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 662598002483 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 662598002484 cofactor binding site; other site 662598002485 DNA binding site [nucleotide binding] 662598002486 substrate interaction site [chemical binding]; other site 662598002487 anthranilate synthase component I; Provisional; Region: PRK13565 662598002488 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 662598002489 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 662598002490 ABC transporter ATPase component; Reviewed; Region: PRK11147 662598002491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 662598002492 Walker A/P-loop; other site 662598002493 ATP binding site [chemical binding]; other site 662598002494 Q-loop/lid; other site 662598002495 ABC transporter signature motif; other site 662598002496 Walker B; other site 662598002497 D-loop; other site 662598002498 H-loop/switch region; other site 662598002499 ABC transporter; Region: ABC_tran_2; pfam12848 662598002500 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 662598002501 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 662598002502 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 662598002503 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 662598002504 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 662598002505 dimer interface [polypeptide binding]; other site 662598002506 active site 662598002507 glycine-pyridoxal phosphate binding site [chemical binding]; other site 662598002508 folate binding site [chemical binding]; other site 662598002509 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 662598002510 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 662598002512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 662598002513 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 662598002514 AMP binding site [chemical binding]; other site 662598002515 metal binding site [ion binding]; metal-binding site 662598002516 active site 662598002517 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 662598002518 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 662598002519 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 662598002520 active site 662598002521 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 662598002522 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 662598002523 dimer interface [polypeptide binding]; other site 662598002524 ADP-ribose binding site [chemical binding]; other site 662598002525 active site 662598002526 nudix motif; other site 662598002527 metal binding site [ion binding]; metal-binding site 662598002528 camphor resistance protein CrcB; Provisional; Region: PRK14230 662598002529 Predicted membrane protein [Function unknown]; Region: COG3235 662598002530 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 662598002531 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 662598002532 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 662598002533 putative catalytic cysteine [active] 662598002534 glutamate 5-kinase; Region: proB; TIGR01027 662598002535 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 662598002536 nucleotide binding site [chemical binding]; other site 662598002537 homotetrameric interface [polypeptide binding]; other site 662598002538 putative phosphate binding site [ion binding]; other site 662598002539 putative allosteric binding site; other site 662598002540 PUA domain; Region: PUA; pfam01472 662598002541 2-isopropylmalate synthase; Validated; Region: PRK00915 662598002542 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 662598002543 active site 662598002544 catalytic residues [active] 662598002545 metal binding site [ion binding]; metal-binding site 662598002546 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 662598002547 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 662598002548 yecA family protein; Region: ygfB_yecA; TIGR02292 662598002549 SEC-C motif; Region: SEC-C; pfam02810 662598002550 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 662598002551 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 662598002552 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 662598002553 putative active site [active] 662598002554 Zn binding site [ion binding]; other site 662598002555 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 662598002556 feedback inhibition sensing region; other site 662598002557 homohexameric interface [polypeptide binding]; other site 662598002558 nucleotide binding site [chemical binding]; other site 662598002559 N-acetyl-L-glutamate binding site [chemical binding]; other site 662598002560 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 662598002561 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 662598002562 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 662598002563 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 662598002565 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 662598002566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 662598002567 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 662598002568 short chain dehydrogenase; Provisional; Region: PRK08703 662598002569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 662598002570 NAD(P) binding site [chemical binding]; other site 662598002571 active site 662598002572 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 662598002573 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 662598002574 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 662598002575 active site lid residues [active] 662598002576 substrate binding pocket [chemical binding]; other site 662598002577 catalytic residues [active] 662598002578 substrate-Mg2+ binding site; other site 662598002579 aspartate-rich region 1; other site 662598002580 aspartate-rich region 2; other site 662598002581 chaperone protein HscA; Provisional; Region: hscA; PRK05183 662598002582 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 662598002583 nucleotide binding site [chemical binding]; other site 662598002584 putative NEF/HSP70 interaction site [polypeptide binding]; other site 662598002585 SBD interface [polypeptide binding]; other site 662598002586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 662598002587 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 662598002588 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 662598002589 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 662598002590 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 662598002591 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 662598002592 catalytic loop [active] 662598002593 iron binding site [ion binding]; other site 662598002595 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 662598002596 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 662598002597 RNA binding surface [nucleotide binding]; other site 662598002598 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 662598002599 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 662598002600 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 662598002601 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 662598002602 Ligand Binding Site [chemical binding]; other site 662598002603 TilS substrate binding domain; Region: TilS; pfam09179 662598002604 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 662598002605 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 662598002606 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 662598002607 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 662598002608 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 662598002609 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 662598002610 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 662598002611 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 662598002612 biotin synthase; Region: bioB; TIGR00433 662598002613 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 662598002614 FeS/SAM binding site; other site 662598002615 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 662598002616 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 662598002617 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 662598002618 sulfite reductase (NADPH) hemoprotein, beta-component; Region: CysI; TIGR02041 662598002619 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 662598002620 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 662598002621 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 662598002622 Flavodoxin; Region: Flavodoxin_1; pfam00258 662598002623 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 662598002624 FAD binding pocket [chemical binding]; other site 662598002625 FAD binding motif [chemical binding]; other site 662598002626 catalytic residues [active] 662598002627 NAD binding pocket [chemical binding]; other site 662598002628 phosphate binding motif [ion binding]; other site 662598002629 beta-alpha-beta structure motif; other site 662598002630 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 662598002631 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 662598002632 CysD dimerization site [polypeptide binding]; other site 662598002633 G1 box; other site 662598002634 putative GEF interaction site [polypeptide binding]; other site 662598002635 GTP/Mg2+ binding site [chemical binding]; other site 662598002636 Switch I region; other site 662598002637 G2 box; other site 662598002638 G3 box; other site 662598002639 Switch II region; other site 662598002640 G4 box; other site 662598002641 G5 box; other site 662598002642 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 662598002643 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 662598002644 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 662598002645 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 662598002646 Active Sites [active] 662598002647 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 662598002648 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 662598002649 Active Sites [active] 662598002650 siroheme synthase; Provisional; Region: cysG; PRK10637 662598002651 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 662598002652 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 662598002653 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 662598002654 active site 662598002655 SAM binding site [chemical binding]; other site 662598002656 homodimer interface [polypeptide binding]; other site 662598002657 Cytochrome b [Energy production and conversion]; Region: COG3658 662598002658 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 662598002659 putative substrate binding site [chemical binding]; other site 662598002660 putative ATP binding site [chemical binding]; other site 662598002661 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 662598002662 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 662598002663 G1 box; other site 662598002664 putative GEF interaction site [polypeptide binding]; other site 662598002665 GTP/Mg2+ binding site [chemical binding]; other site 662598002666 Switch I region; other site 662598002667 G2 box; other site 662598002668 G3 box; other site 662598002669 Switch II region; other site 662598002670 G4 box; other site 662598002671 G5 box; other site 662598002672 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 662598002673 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 662598002674 ribonuclease R; Region: RNase_R; TIGR02063 662598002675 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 662598002676 RNB domain; Region: RNB; pfam00773 662598002677 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 662598002678 RNA binding site [nucleotide binding]; other site 662598002679 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 662598002680 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 662598002681 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 662598002682 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 662598002683 active site 662598002684 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 662598002685 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 662598002686 metal binding triad; other site 662598002687 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 662598002688 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 662598002689 Zn2+ binding site [ion binding]; other site 662598002690 Mg2+ binding site [ion binding]; other site 662598002691 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 662598002692 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 662598002693 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 662598002694 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 662598002695 non-specific DNA binding site [nucleotide binding]; other site 662598002696 salt bridge; other site 662598002697 sequence-specific DNA binding site [nucleotide binding]; other site 662598002698 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 662598002699 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 662598002700 heme binding site [chemical binding]; other site 662598002701 ferroxidase pore; other site 662598002702 ferroxidase diiron center [ion binding]; other site 662598002703 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 662598002704 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 662598002705 heme binding site [chemical binding]; other site 662598002706 ferroxidase pore; other site 662598002707 ferroxidase diiron center [ion binding]; other site 662598002708 lipoyl synthase; Provisional; Region: PRK05481 662598002709 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 662598002710 FeS/SAM binding site; other site 662598002711 lipoate-protein ligase B; Provisional; Region: PRK14342 662598002712 Uncharacterized conserved protein [Function unknown]; Region: COG2921 662598002713 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 662598002714 Domain of unknown function DUF20; Region: UPF0118; pfam01594 662598002715 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 662598002716 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 662598002717 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 662598002718 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 662598002719 ligand binding site [chemical binding]; other site 662598002720 active site 662598002721 UGI interface [polypeptide binding]; other site 662598002722 catalytic site [active] 662598002723 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 662598002724 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 662598002725 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 662598002726 putative Zn2+ binding site [ion binding]; other site 662598002727 putative DNA binding site [nucleotide binding]; other site 662598002730 DDE superfamily endonuclease; Region: DDE_3; pfam13358 662598002731 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 662598002732 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 662598002733 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 662598002734 ABC transporter; Region: ABC_tran_2; pfam12848 662598002735 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 662598002736 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 662598002737 homoserine dehydrogenase; Provisional; Region: PRK06349 662598002738 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 662598002739 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 662598002740 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 662598002741 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 662598002742 IHF dimer interface [polypeptide binding]; other site 662598002743 IHF - DNA interface [nucleotide binding]; other site 662598002744 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 662598002745 Found in ATP-dependent protease La (LON); Region: LON; smart00464 662598002746 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598002747 Walker A motif; other site 662598002748 ATP binding site [chemical binding]; other site 662598002749 Walker B motif; other site 662598002750 arginine finger; other site 662598002751 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 662598002752 Methyltransferase domain; Region: Methyltransf_23; pfam13489 662598002753 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598002754 S-adenosylmethionine binding site [chemical binding]; other site 662598002755 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 662598002756 AAA domain; Region: AAA_30; pfam13604 662598002757 Family description; Region: UvrD_C_2; pfam13538 662598002758 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 662598002759 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 662598002760 Walker A/P-loop; other site 662598002761 ATP binding site [chemical binding]; other site 662598002762 Q-loop/lid; other site 662598002763 ABC transporter signature motif; other site 662598002764 Walker B; other site 662598002765 D-loop; other site 662598002766 H-loop/switch region; other site 662598002767 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 662598002768 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 662598002769 FtsX-like permease family; Region: FtsX; pfam02687 662598002770 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 662598002771 RecR protein; Region: RecR; pfam02132 662598002772 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 662598002773 putative active site [active] 662598002774 putative metal-binding site [ion binding]; other site 662598002775 tetramer interface [polypeptide binding]; other site 662598002776 SurA N-terminal domain; Region: SurA_N_3; cl07813 662598002777 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 662598002778 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 662598002779 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 662598002780 ArsC family; Region: ArsC; pfam03960 662598002781 putative catalytic residues [active] 662598002782 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 662598002783 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 662598002784 Walker A/P-loop; other site 662598002785 ATP binding site [chemical binding]; other site 662598002786 ABC transporter signature motif; other site 662598002787 Walker B; other site 662598002788 D-loop; other site 662598002789 H-loop/switch region; other site 662598002790 ABC transporter; Region: ABC_tran_2; pfam12848 662598002791 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 662598002792 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 662598002793 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 662598002794 active site 662598002795 NTP binding site [chemical binding]; other site 662598002796 metal binding triad [ion binding]; metal-binding site 662598002797 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 662598002798 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 662598002799 Zn2+ binding site [ion binding]; other site 662598002800 Mg2+ binding site [ion binding]; other site 662598002801 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 662598002802 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598002803 Walker A motif; other site 662598002804 ATP binding site [chemical binding]; other site 662598002805 Walker B motif; other site 662598002806 arginine finger; other site 662598002807 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 662598002808 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 662598002809 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 662598002810 substrate binding site [chemical binding]; other site 662598002811 hexamer interface [polypeptide binding]; other site 662598002812 metal binding site [ion binding]; metal-binding site 662598002813 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]; Region: CpxP; COG3678 662598002814 dimer interface [polypeptide binding]; other site 662598002815 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 662598002816 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598002817 Walker A motif; other site 662598002818 ATP binding site [chemical binding]; other site 662598002819 Walker B motif; other site 662598002820 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 662598002821 Lumazine binding domain; Region: Lum_binding; pfam00677 662598002822 Lumazine binding domain; Region: Lum_binding; pfam00677 662598002823 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 662598002824 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 662598002825 GTP binding site; other site 662598002826 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 662598002827 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 662598002828 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 662598002829 dimerization interface [polypeptide binding]; other site 662598002830 GAF domain; Region: GAF_3; pfam13492 662598002831 Histidine kinase; Region: HisKA_3; pfam07730 662598002832 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 662598002833 ATP binding site [chemical binding]; other site 662598002834 Mg2+ binding site [ion binding]; other site 662598002835 G-X-G motif; other site 662598002836 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 662598002837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 662598002838 active site 662598002839 phosphorylation site [posttranslational modification] 662598002840 intermolecular recognition site; other site 662598002841 dimerization interface [polypeptide binding]; other site 662598002842 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 662598002843 DNA binding residues [nucleotide binding] 662598002844 dimerization interface [polypeptide binding]; other site 662598002845 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 662598002846 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 662598002847 dimerization interface [polypeptide binding]; other site 662598002848 putative ATP binding site [chemical binding]; other site 662598002849 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 662598002850 dimerization interface [polypeptide binding]; other site 662598002851 active site 662598002852 putative glycosyl transferase; Provisional; Region: PRK10073 662598002853 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 662598002854 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 662598002855 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 662598002856 dimerization interface [polypeptide binding]; other site 662598002857 recombination factor protein RarA; Reviewed; Region: PRK13342 662598002858 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598002859 Walker A motif; other site 662598002860 ATP binding site [chemical binding]; other site 662598002861 Walker B motif; other site 662598002862 arginine finger; other site 662598002863 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 662598002864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 662598002865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 662598002866 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 662598002867 dimerization interface [polypeptide binding]; other site 662598002868 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 662598002869 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 662598002870 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 662598002871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598002872 catalytic residue [active] 662598002873 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 662598002874 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 662598002875 FAD binding pocket [chemical binding]; other site 662598002876 FAD binding motif [chemical binding]; other site 662598002877 phosphate binding motif [ion binding]; other site 662598002878 beta-alpha-beta structure motif; other site 662598002879 NAD binding pocket [chemical binding]; other site 662598002880 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 662598002881 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 662598002882 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 662598002883 metal-binding site [ion binding] 662598002884 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 662598002885 Soluble P-type ATPase [General function prediction only]; Region: COG4087 662598002886 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 662598002887 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 662598002888 HflX GTPase family; Region: HflX; cd01878 662598002889 G1 box; other site 662598002890 GTP/Mg2+ binding site [chemical binding]; other site 662598002891 Switch I region; other site 662598002892 G2 box; other site 662598002893 G3 box; other site 662598002894 Switch II region; other site 662598002895 G4 box; other site 662598002896 G5 box; other site 662598002897 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 662598002898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 662598002899 hypothetical protein; Reviewed; Region: PRK00024 662598002900 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 662598002901 MPN+ (JAMM) motif; other site 662598002902 Zinc-binding site [ion binding]; other site 662598002903 Glutamate-cysteine ligase; Region: GshA; pfam08886 662598002904 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 662598002905 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 662598002906 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 662598002907 substrate binding site [chemical binding]; other site 662598002908 ligand binding site [chemical binding]; other site 662598002909 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 662598002910 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 662598002911 substrate binding site [chemical binding]; other site 662598002914 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 662598002915 tartrate dehydrogenase; Region: TTC; TIGR02089 662598002916 Uncharacterized conserved protein [Function unknown]; Region: COG2353 662598002917 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 662598002918 Aspartase; Region: Aspartase; cd01357 662598002919 active sites [active] 662598002920 tetramer interface [polypeptide binding]; other site 662598002921 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 662598002922 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 662598002923 HSP70 interaction site [polypeptide binding]; other site 662598002924 Predicted membrane protein [Function unknown]; Region: COG3671 662598002925 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 662598002926 putative deacylase active site [active] 662598002927 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 662598002928 homotrimer interaction site [polypeptide binding]; other site 662598002929 putative active site [active] 662598002930 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 662598002931 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 662598002932 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 662598002933 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 662598002934 Ligand Binding Site [chemical binding]; other site 662598002935 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 662598002936 substrate binding site [chemical binding]; other site 662598002937 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 662598002938 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 662598002939 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 662598002940 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 662598002941 metal binding site 2 [ion binding]; metal-binding site 662598002942 putative DNA binding helix; other site 662598002943 metal binding site 1 [ion binding]; metal-binding site 662598002944 dimer interface [polypeptide binding]; other site 662598002945 structural Zn2+ binding site [ion binding]; other site 662598002946 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 662598002947 Low molecular weight phosphatase family; Region: LMWPc; cd00115 662598002948 active site 662598002949 glycerate kinase; Region: TIGR00045 662598002950 Methyltransferase domain; Region: Methyltransf_31; pfam13847 662598002951 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 662598002952 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 662598002953 metal-binding site [ion binding] 662598002954 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 662598002955 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 662598002956 active site 662598002957 catalytic triad [active] 662598002958 oxyanion hole [active] 662598002959 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 662598002960 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 662598002961 active site 662598002962 oxyanion hole [active] 662598002963 catalytic triad [active] 662598002964 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 662598002965 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 662598002966 acyl-activating enzyme (AAE) consensus motif; other site 662598002967 putative AMP binding site [chemical binding]; other site 662598002968 putative active site [active] 662598002969 putative CoA binding site [chemical binding]; other site 662598002970 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 662598002971 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 662598002972 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 662598002973 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 662598002974 N-acetyl-D-glucosamine binding site [chemical binding]; other site 662598002975 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 662598002976 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 662598002977 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 662598002978 active site 662598002979 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 662598002980 DEAD-like helicases superfamily; Region: DEXDc; smart00487 662598002981 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 662598002982 ATP binding site [chemical binding]; other site 662598002983 putative Mg++ binding site [ion binding]; other site 662598002984 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 662598002985 nucleotide binding region [chemical binding]; other site 662598002986 ATP-binding site [chemical binding]; other site 662598002987 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 662598002988 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 662598002989 tetramerization interface [polypeptide binding]; other site 662598002990 active site 662598002991 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 662598002992 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 662598002993 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 662598002994 enolase; Provisional; Region: eno; PRK00077 662598002995 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 662598002996 dimer interface [polypeptide binding]; other site 662598002997 metal binding site [ion binding]; metal-binding site 662598002998 substrate binding pocket [chemical binding]; other site 662598002999 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 662598003000 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 662598003001 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 662598003002 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 662598003003 catalytic loop [active] 662598003004 iron binding site [ion binding]; other site 662598003005 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 662598003006 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 662598003007 dimer interface [polypeptide binding]; other site 662598003008 putative radical transfer pathway; other site 662598003009 diiron center [ion binding]; other site 662598003010 tyrosyl radical; other site 662598003011 Abi-like protein; Region: Abi_2; cl01988 662598003012 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 662598003013 ATP cone domain; Region: ATP-cone; pfam03477 662598003014 Class I ribonucleotide reductase; Region: RNR_I; cd01679 662598003015 active site 662598003016 dimer interface [polypeptide binding]; other site 662598003017 catalytic residues [active] 662598003018 effector binding site; other site 662598003019 R2 peptide binding site; other site 662598003020 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 662598003021 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 662598003022 putative acyl-acceptor binding pocket; other site 662598003023 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 662598003024 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 662598003025 DNA binding site [nucleotide binding] 662598003026 catalytic residue [active] 662598003027 H2TH interface [polypeptide binding]; other site 662598003028 putative catalytic residues [active] 662598003029 turnover-facilitating residue; other site 662598003030 intercalation triad [nucleotide binding]; other site 662598003031 8OG recognition residue [nucleotide binding]; other site 662598003032 putative reading head residues; other site 662598003033 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 662598003034 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 662598003035 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 662598003036 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 662598003037 N-acetyl-D-glucosamine binding site [chemical binding]; other site 662598003038 catalytic residue [active] 662598003039 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 662598003040 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 662598003041 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 662598003042 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 662598003043 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 662598003044 RNA binding surface [nucleotide binding]; other site 662598003045 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 662598003046 active site 662598003047 uracil binding [chemical binding]; other site 662598003049 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 662598003050 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 662598003051 CMP-binding site; other site 662598003052 The sites determining sugar specificity; other site 662598003053 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 662598003054 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 662598003055 RNA binding site [nucleotide binding]; other site 662598003056 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 662598003057 RNA binding site [nucleotide binding]; other site 662598003058 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 662598003059 RNA binding site [nucleotide binding]; other site 662598003060 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 662598003061 RNA binding site [nucleotide binding]; other site 662598003062 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 662598003063 RNA binding site [nucleotide binding]; other site 662598003064 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 662598003065 RNA binding site [nucleotide binding]; other site 662598003066 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 662598003067 IHF dimer interface [polypeptide binding]; other site 662598003068 IHF - DNA interface [nucleotide binding]; other site 662598003069 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 662598003070 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 662598003071 DNA binding residues [nucleotide binding] 662598003072 putative dimer interface [polypeptide binding]; other site 662598003073 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 662598003074 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 662598003075 substrate binding site [chemical binding]; other site 662598003076 catalytic Zn binding site [ion binding]; other site 662598003077 NAD binding site [chemical binding]; other site 662598003078 structural Zn binding site [ion binding]; other site 662598003079 dimer interface [polypeptide binding]; other site 662598003080 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 662598003081 S-formylglutathione hydrolase; Region: PLN02442 662598003082 Predicted ATPase [General function prediction only]; Region: COG1485 662598003083 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 662598003084 active site 662598003085 multimer interface [polypeptide binding]; other site 662598003086 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 662598003087 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 662598003088 FeS/SAM binding site; other site 662598003089 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 662598003090 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 662598003091 binding surface 662598003092 TPR motif; other site 662598003093 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 662598003094 TPR motif; other site 662598003095 binding surface 662598003096 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 662598003097 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 662598003098 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 662598003099 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 662598003100 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 662598003101 oligomer interface [polypeptide binding]; other site 662598003102 active site residues [active] 662598003103 trigger factor; Provisional; Region: tig; PRK01490 662598003104 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 662598003105 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 662598003106 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 662598003107 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 662598003108 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 662598003109 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 662598003110 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 662598003112 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 662598003113 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 662598003114 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 662598003115 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 662598003116 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 662598003117 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 662598003118 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 662598003119 Primosomal replication protein N [DNA replication, recombination, and repair]; Region: PriB; COG2965 662598003120 generic binding surface I; other site 662598003121 generic binding surface II; other site 662598003122 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 662598003123 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 662598003124 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 662598003125 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 662598003126 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 662598003127 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 662598003128 metal-binding site [ion binding] 662598003129 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 662598003130 Soluble P-type ATPase [General function prediction only]; Region: COG4087 662598003131 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 662598003132 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 662598003133 GIY-YIG motif/motif A; other site 662598003134 active site 662598003135 catalytic site [active] 662598003136 putative DNA binding site [nucleotide binding]; other site 662598003137 metal binding site [ion binding]; metal-binding site 662598003138 UvrB/uvrC motif; Region: UVR; pfam02151 662598003139 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 662598003140 Helix-hairpin-helix motif; Region: HHH; pfam00633 662598003141 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 662598003142 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 662598003143 Sel1-like repeats; Region: SEL1; smart00671 662598003144 Sel1-like repeats; Region: SEL1; smart00671 662598003145 Sel1-like repeats; Region: SEL1; smart00671 662598003146 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598003147 S-adenosylmethionine binding site [chemical binding]; other site 662598003149 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 662598003150 excinuclease ABC subunit B; Provisional; Region: PRK05298 662598003151 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 662598003152 ATP-binding site [chemical binding]; other site 662598003153 ATP binding site [chemical binding]; other site 662598003154 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 662598003155 nucleotide binding region [chemical binding]; other site 662598003156 ATP-binding site [chemical binding]; other site 662598003157 Ultra-violet resistance protein B; Region: UvrB; pfam12344 662598003158 UvrB/uvrC motif; Region: UVR; pfam02151 662598003159 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 662598003160 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 662598003161 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 662598003162 protein binding site [polypeptide binding]; other site 662598003163 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 662598003164 Catalytic dyad [active] 662598003165 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 662598003166 Peptidase family M23; Region: Peptidase_M23; pfam01551 662598003167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 662598003168 CreA protein; Region: CreA; pfam05981 662598003169 Putative transcriptional regulator [Transcription]; Region: COG1678 662598003170 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 662598003171 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 662598003172 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 662598003173 prolyl-tRNA synthetase; Provisional; Region: PRK09194 662598003174 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 662598003175 dimer interface [polypeptide binding]; other site 662598003176 motif 1; other site 662598003177 active site 662598003178 motif 2; other site 662598003179 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 662598003180 putative deacylase active site [active] 662598003181 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 662598003182 active site 662598003183 motif 3; other site 662598003184 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 662598003185 anticodon binding site; other site 662598003186 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 662598003187 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 662598003188 dimer interface [polypeptide binding]; other site 662598003189 TPP-binding site [chemical binding]; other site 662598003190 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 662598003191 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 662598003192 E3 interaction surface; other site 662598003193 lipoyl attachment site [posttranslational modification]; other site 662598003194 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 662598003195 E3 interaction surface; other site 662598003196 lipoyl attachment site [posttranslational modification]; other site 662598003197 e3 binding domain; Region: E3_binding; pfam02817 662598003198 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 662598003199 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 662598003200 E3 interaction surface; other site 662598003201 lipoyl attachment site [posttranslational modification]; other site 662598003202 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 662598003203 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 662598003204 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 662598003205 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 662598003206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 662598003207 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 662598003208 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 662598003209 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 662598003210 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 662598003211 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 662598003212 active site 662598003213 dimerization interface [polypeptide binding]; other site 662598003214 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 662598003215 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 662598003216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 662598003217 16S rRNA methyltransferase B; Provisional; Region: PRK14904 662598003218 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598003219 S-adenosylmethionine binding site [chemical binding]; other site 662598003220 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 662598003221 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 662598003222 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 662598003223 NAD(P) binding site [chemical binding]; other site 662598003224 catalytic residues [active] 662598003225 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 662598003226 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 662598003227 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 662598003228 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 662598003229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 662598003230 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 662598003231 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 662598003232 GatB domain; Region: GatB_Yqey; smart00845 662598003233 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 662598003234 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 662598003235 catalytic loop [active] 662598003236 iron binding site [ion binding]; other site 662598003237 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 662598003238 FAD binding pocket [chemical binding]; other site 662598003239 FAD binding motif [chemical binding]; other site 662598003240 phosphate binding motif [ion binding]; other site 662598003241 beta-alpha-beta structure motif; other site 662598003242 NAD binding pocket [chemical binding]; other site 662598003243 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 662598003244 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 662598003245 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 662598003246 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 662598003247 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 662598003248 RNA binding surface [nucleotide binding]; other site 662598003249 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 662598003250 probable active site [active] 662598003251 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598003252 Major Facilitator Superfamily; Region: MFS_1; pfam07690 662598003253 putative substrate translocation pore; other site 662598003254 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 662598003255 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 662598003256 generic binding surface II; other site 662598003257 generic binding surface I; other site 662598003258 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 662598003259 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 662598003260 homodimer interface [polypeptide binding]; other site 662598003261 NAD binding pocket [chemical binding]; other site 662598003262 ATP binding pocket [chemical binding]; other site 662598003263 Mg binding site [ion binding]; other site 662598003264 active-site loop [active] 662598003265 Hemerythrin-like domain; Region: Hr-like; cd12108 662598003266 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 662598003267 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 662598003268 catalytic residues [active] 662598003269 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 662598003271 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 662598003272 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598003273 S-adenosylmethionine binding site [chemical binding]; other site 662598003274 helicase 45; Provisional; Region: PTZ00424 662598003275 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 662598003276 ATP binding site [chemical binding]; other site 662598003277 Mg++ binding site [ion binding]; other site 662598003278 motif III; other site 662598003279 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 662598003280 nucleotide binding region [chemical binding]; other site 662598003281 ATP-binding site [chemical binding]; other site 662598003282 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 662598003283 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 662598003284 inhibitor-cofactor binding pocket; inhibition site 662598003285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598003286 catalytic residue [active] 662598003287 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 662598003288 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 662598003289 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598003290 Walker A motif; other site 662598003291 ATP binding site [chemical binding]; other site 662598003292 Walker B motif; other site 662598003293 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 662598003294 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 662598003295 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 662598003296 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 662598003297 RNA binding site [nucleotide binding]; other site 662598003298 active site 662598003300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 662598003301 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 662598003302 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 662598003303 phosphate binding site [ion binding]; other site 662598003304 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 662598003305 Rrf2 family protein; Region: rrf2_super; TIGR00738 662598003306 cysteine desulfurase; Provisional; Region: PRK14012 662598003307 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 662598003308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 662598003309 catalytic residue [active] 662598003310 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 662598003311 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 662598003312 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 662598003313 trimerization site [polypeptide binding]; other site 662598003314 active site 662598003315 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 662598003316 co-chaperone HscB; Provisional; Region: hscB; PRK03578 662598003317 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 662598003318 HSP70 interaction site [polypeptide binding]; other site 662598003319 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 662598003320 DNA gyrase subunit A; Validated; Region: PRK05560 662598003321 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 662598003322 CAP-like domain; other site 662598003323 active site 662598003324 primary dimer interface [polypeptide binding]; other site 662598003325 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 662598003326 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 662598003327 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 662598003328 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 662598003329 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 662598003330 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 662598003331 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 662598003332 active site 662598003333 dimer interface [polypeptide binding]; other site 662598003334 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 662598003335 dimer interface [polypeptide binding]; other site 662598003336 active site 662598003337 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 662598003338 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 662598003339 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 662598003340 putative active site [active] 662598003341 glucokinase; Provisional; Region: glk; PRK00292 662598003342 glucokinase, proteobacterial type; Region: glk; TIGR00749 662598003343 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 662598003344 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 662598003345 putative active site [active] 662598003346 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 662598003347 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 662598003348 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 662598003349 phosphogluconate dehydratase; Validated; Region: PRK09054 662598003350 6-phosphogluconate dehydratase; Region: edd; TIGR01196 662598003351 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 662598003352 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 662598003353 active site 662598003354 intersubunit interface [polypeptide binding]; other site 662598003355 catalytic residue [active] 662598003357 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 662598003358 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 662598003359 minor groove reading motif; other site 662598003360 helix-hairpin-helix signature motif; other site 662598003361 substrate binding pocket [chemical binding]; other site 662598003362 active site 662598003363 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 662598003364 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 662598003365 DNA binding and oxoG recognition site [nucleotide binding] 662598003366 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 662598003367 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 662598003368 E-class dimer interface [polypeptide binding]; other site 662598003369 P-class dimer interface [polypeptide binding]; other site 662598003370 active site 662598003371 Cu2+ binding site [ion binding]; other site 662598003372 Zn2+ binding site [ion binding]; other site 662598003373 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 662598003374 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 662598003375 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 662598003376 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 662598003377 Walker A/P-loop; other site 662598003378 ATP binding site [chemical binding]; other site 662598003379 Q-loop/lid; other site 662598003380 ABC transporter signature motif; other site 662598003381 Walker B; other site 662598003382 D-loop; other site 662598003383 H-loop/switch region; other site 662598003384 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 662598003385 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 662598003386 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 662598003387 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 662598003388 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 662598003389 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 662598003390 aminopeptidase N; Provisional; Region: pepN; PRK14015 662598003391 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 662598003392 active site 662598003393 Zn binding site [ion binding]; other site 662598003394 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 662598003395 active site 662598003396 catalytic site [active] 662598003397 substrate binding site [chemical binding]; other site 662598003398 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 662598003399 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 662598003400 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 662598003401 putative acyl-acceptor binding pocket; other site 662598003402 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 662598003403 active site 662598003404 putative DNA-binding cleft [nucleotide binding]; other site 662598003405 dimer interface [polypeptide binding]; other site 662598003406 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 662598003407 DNA-binding protein Fis; Provisional; Region: PRK01905 662598003408 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 662598003409 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 662598003410 FMN binding site [chemical binding]; other site 662598003411 active site 662598003412 catalytic residues [active] 662598003413 substrate binding site [chemical binding]; other site 662598003414 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 662598003415 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 662598003416 ATP binding site [chemical binding]; other site 662598003417 Mg++ binding site [ion binding]; other site 662598003418 motif III; other site 662598003419 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 662598003420 nucleotide binding region [chemical binding]; other site 662598003421 ATP-binding site [chemical binding]; other site 662598003422 Protein of unknown function (DUF723); Region: DUF723; pfam05265 662598003423 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 662598003424 Catalytic site [active] 662598003425 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 662598003426 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 662598003427 dimer interface [polypeptide binding]; other site 662598003428 putative anticodon binding site; other site 662598003429 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 662598003430 motif 1; other site 662598003431 active site 662598003432 motif 2; other site 662598003433 motif 3; other site 662598003434 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 662598003435 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 662598003436 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 662598003437 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 662598003438 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 662598003439 active site 662598003440 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 662598003441 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 662598003442 eyelet of channel; other site 662598003443 trimer interface [polypeptide binding]; other site 662598003444 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 662598003445 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 662598003446 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 662598003447 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 662598003448 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 662598003449 hinge; other site 662598003450 active site 662598003451 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 662598003452 NlpC/P60 family; Region: NLPC_P60; pfam00877 662598003453 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 662598003454 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 662598003455 putative active site [active] 662598003456 catalytic site [active] 662598003457 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 662598003458 putative active site [active] 662598003459 catalytic site [active] 662598003460 putative transporter; Provisional; Region: PRK10504 662598003461 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598003462 putative substrate translocation pore; other site 662598003463 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598003464 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 662598003465 Cysteine-rich domain; Region: CCG; pfam02754 662598003466 Cysteine-rich domain; Region: CCG; pfam02754 662598003467 Uncharacterized conserved protein [Function unknown]; Region: COG1556 662598003468 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 662598003469 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 662598003470 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 662598003471 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 662598003472 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 662598003473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 662598003474 Tetratricopeptide repeat; Region: TPR_6; pfam13174 662598003475 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 662598003476 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598003477 S-adenosylmethionine binding site [chemical binding]; other site 662598003478 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 662598003479 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 662598003480 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 662598003481 ATP binding site [chemical binding]; other site 662598003482 Mg2+ binding site [ion binding]; other site 662598003483 G-X-G motif; other site 662598003484 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 662598003485 ATP binding site [chemical binding]; other site 662598003486 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 662598003487 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 662598003488 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598003489 Walker A motif; other site 662598003490 ATP binding site [chemical binding]; other site 662598003491 Walker B motif; other site 662598003492 arginine finger; other site 662598003493 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 662598003494 hypothetical protein; Validated; Region: PRK00153 662598003495 recombinase A; Provisional; Region: recA; PRK09354 662598003496 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 662598003497 hexamer interface [polypeptide binding]; other site 662598003498 Walker A motif; other site 662598003499 ATP binding site [chemical binding]; other site 662598003500 Walker B motif; other site 662598003501 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 662598003502 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 662598003503 active site 662598003504 catalytic residue [active] 662598003505 dimer interface [polypeptide binding]; other site 662598003506 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 662598003507 Family description; Region: UvrD_C_2; pfam13538 662598003508 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 662598003509 active site 662598003510 DNA polymerase IV; Validated; Region: PRK02406 662598003511 DNA binding site [nucleotide binding] 662598003512 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 662598003513 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 662598003514 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 662598003515 FAD binding pocket [chemical binding]; other site 662598003516 FAD binding motif [chemical binding]; other site 662598003517 phosphate binding motif [ion binding]; other site 662598003518 beta-alpha-beta structure motif; other site 662598003519 NAD binding pocket [chemical binding]; other site 662598003520 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 662598003521 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 662598003522 active site 662598003523 catalytic site [active] 662598003524 substrate binding site [chemical binding]; other site 662598003525 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 662598003526 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 662598003527 FMN binding site [chemical binding]; other site 662598003528 substrate binding site [chemical binding]; other site 662598003529 putative catalytic residue [active] 662598003530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 662598003531 FixH; Region: FixH; pfam05751 662598003532 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 662598003533 4Fe-4S binding domain; Region: Fer4_5; pfam12801 662598003534 4Fe-4S binding domain; Region: Fer4_3; pfam12798 662598003535 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 662598003536 transketolase; Reviewed; Region: PRK12753 662598003537 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 662598003538 TPP-binding site [chemical binding]; other site 662598003539 dimer interface [polypeptide binding]; other site 662598003540 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 662598003541 PYR/PP interface [polypeptide binding]; other site 662598003542 dimer interface [polypeptide binding]; other site 662598003543 TPP binding site [chemical binding]; other site 662598003544 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 662598003545 fumarate hydratase; Reviewed; Region: fumC; PRK00485 662598003546 Class II fumarases; Region: Fumarase_classII; cd01362 662598003547 active site 662598003548 tetramer interface [polypeptide binding]; other site 662598003549 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 662598003550 EamA-like transporter family; Region: EamA; pfam00892 662598003551 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 662598003552 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 662598003553 dimer interface [polypeptide binding]; other site 662598003554 ssDNA binding site [nucleotide binding]; other site 662598003555 tetramer (dimer of dimers) interface [polypeptide binding]; other site 662598003556 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598003557 Major Facilitator Superfamily; Region: MFS_1; pfam07690 662598003558 putative substrate translocation pore; other site 662598003559 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 662598003560 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 662598003561 N-acetyl-D-glucosamine binding site [chemical binding]; other site 662598003562 catalytic residue [active] 662598003563 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 662598003564 Protein of unknown function (DUF560); Region: DUF560; pfam04575 662598003565 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 662598003566 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 662598003567 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 662598003568 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 662598003569 active site 662598003570 HIGH motif; other site 662598003571 dimer interface [polypeptide binding]; other site 662598003572 KMSKS motif; other site 662598003573 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 662598003574 Clp amino terminal domain; Region: Clp_N; pfam02861 662598003575 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598003576 Walker A motif; other site 662598003577 ATP binding site [chemical binding]; other site 662598003578 Walker B motif; other site 662598003579 arginine finger; other site 662598003580 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 662598003581 Walker A motif; other site 662598003582 ATP binding site [chemical binding]; other site 662598003583 Walker B motif; other site 662598003584 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 662598003585 aminotransferase AlaT; Validated; Region: PRK09265 662598003586 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 662598003587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598003588 homodimer interface [polypeptide binding]; other site 662598003589 catalytic residue [active] 662598003590 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 662598003591 active site 1 [active] 662598003592 dimer interface [polypeptide binding]; other site 662598003593 hexamer interface [polypeptide binding]; other site 662598003594 active site 2 [active] 662598003595 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 662598003596 Acetokinase family; Region: Acetate_kinase; cl17229 662598003597 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 662598003598 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 662598003599 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 662598003600 NAD(P) binding site [chemical binding]; other site 662598003601 phosphoglycolate phosphatase; Provisional; Region: PRK13222 662598003602 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598003603 motif II; other site 662598003604 recombination regulator RecX; Reviewed; Region: recX; PRK00117 662598003605 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 662598003606 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 662598003607 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 662598003608 Peptidase family M23; Region: Peptidase_M23; pfam01551 662598003609 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 662598003610 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 662598003611 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 662598003612 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 662598003613 Transporter associated domain; Region: CorC_HlyC; smart01091 662598003614 succinic semialdehyde dehydrogenase; Region: PLN02278 662598003615 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 662598003616 tetramerization interface [polypeptide binding]; other site 662598003617 NAD(P) binding site [chemical binding]; other site 662598003618 catalytic residues [active] 662598003619 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 662598003620 carbon starvation protein A; Provisional; Region: PRK15015 662598003621 Carbon starvation protein CstA; Region: CstA; pfam02554 662598003622 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 662598003623 Uncharacterized small protein [Function unknown]; Region: COG2879 662598003625 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 662598003626 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 662598003627 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 662598003628 aspartate kinase; Reviewed; Region: PRK06635 662598003629 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 662598003630 putative nucleotide binding site [chemical binding]; other site 662598003631 putative catalytic residues [active] 662598003632 putative Mg ion binding site [ion binding]; other site 662598003633 putative aspartate binding site [chemical binding]; other site 662598003634 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 662598003635 putative allosteric regulatory site; other site 662598003636 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 662598003637 ribonuclease PH; Reviewed; Region: rph; PRK00173 662598003638 Ribonuclease PH; Region: RNase_PH_bact; cd11362 662598003639 hexamer interface [polypeptide binding]; other site 662598003640 active site 662598003641 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 662598003642 Ligand Binding Site [chemical binding]; other site 662598003643 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 662598003644 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 662598003645 putative ATP binding site [chemical binding]; other site 662598003646 putative substrate interface [chemical binding]; other site 662598003647 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 662598003648 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 662598003649 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 662598003650 active site 662598003651 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 662598003652 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 662598003653 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 662598003654 active site 662598003655 HIGH motif; other site 662598003656 KMSK motif region; other site 662598003657 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 662598003658 tRNA binding surface [nucleotide binding]; other site 662598003659 anticodon binding site; other site 662598003660 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 662598003661 Sulfatase; Region: Sulfatase; cl17466 662598003662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 662598003663 dimer interface [polypeptide binding]; other site 662598003664 conserved gate region; other site 662598003665 putative PBP binding loops; other site 662598003666 ABC-ATPase subunit interface; other site 662598003667 Staphylococcal nuclease homologues; Region: SNc; smart00318 662598003668 Catalytic site; other site 662598003669 Staphylococcal nuclease homologue; Region: SNase; pfam00565 662598003670 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 662598003671 tetramer (dimer of dimers) interface [polypeptide binding]; other site 662598003672 active site 662598003673 dimer interface [polypeptide binding]; other site 662598003674 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 662598003675 homotrimer interaction site [polypeptide binding]; other site 662598003676 zinc binding site [ion binding]; other site 662598003677 CDP-binding sites; other site 662598003678 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 662598003679 substrate binding site; other site 662598003680 dimer interface; other site 662598003681 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 662598003682 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 662598003683 active site 662598003684 catalytic site [active] 662598003685 substrate binding site [chemical binding]; other site 662598003686 Major Facilitator Superfamily; Region: MFS_1; pfam07690 662598003687 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 662598003688 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 662598003689 propionate/acetate kinase; Provisional; Region: PRK12379 662598003690 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 662598003691 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 662598003692 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 662598003693 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 662598003694 DsbD alpha interface [polypeptide binding]; other site 662598003695 catalytic residues [active] 662598003696 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 662598003697 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 662598003698 active site lid residues [active] 662598003699 substrate binding pocket [chemical binding]; other site 662598003700 catalytic residues [active] 662598003701 substrate-Mg2+ binding site; other site 662598003702 aspartate-rich region 1; other site 662598003703 aspartate-rich region 2; other site 662598003704 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 662598003705 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 662598003706 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 662598003707 FAD binding domain; Region: FAD_binding_4; pfam01565 662598003708 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 662598003709 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 662598003710 Autotransporter beta-domain; Region: Autotransporter; pfam03797 662598003711 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 662598003712 SmpB-tmRNA interface; other site 662598003713 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 662598003714 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 662598003715 putative active site [active] 662598003716 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 662598003717 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 662598003718 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 662598003719 DNA binding site [nucleotide binding] 662598003720 active site 662598003721 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 662598003722 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 662598003723 metal binding site [ion binding]; metal-binding site 662598003724 dimer interface [polypeptide binding]; other site 662598003725 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 662598003726 Hemerythrin-like domain; Region: Hr-like; cd12108 662598003727 Fe binding site [ion binding]; other site 662598003728 Azurin [Energy production and conversion]; Region: COG3241 662598003729 Protein of unknown function (DUF721); Region: DUF721; pfam05258 662598003730 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 662598003731 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 662598003732 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 662598003733 SEC-C motif; Region: SEC-C; pfam02810 662598003734 DNA primase; Validated; Region: dnaG; PRK05667 662598003735 CHC2 zinc finger; Region: zf-CHC2; pfam01807 662598003736 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 662598003737 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 662598003738 active site 662598003739 metal binding site [ion binding]; metal-binding site 662598003740 interdomain interaction site; other site 662598003741 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 662598003742 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 662598003743 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 662598003744 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 662598003745 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 662598003746 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 662598003747 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 662598003748 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 662598003749 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 662598003750 DNA binding residues [nucleotide binding] 662598003751 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 662598003752 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 662598003753 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 662598003754 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 662598003756 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 662598003757 DNA methylase; Region: N6_N4_Mtase; pfam01555 662598003758 DNA methylase; Region: N6_N4_Mtase; pfam01555 662598003759 AIPR protein; Region: AIPR; pfam10592 662598003760 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 662598003761 ATP binding site [chemical binding]; other site 662598003762 putative Mg++ binding site [ion binding]; other site 662598003763 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 662598003764 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 662598003765 nucleotide binding region [chemical binding]; other site 662598003766 ATP-binding site [chemical binding]; other site 662598003767 CTP synthetase; Validated; Region: pyrG; PRK05380 662598003768 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 662598003769 Catalytic site [active] 662598003770 active site 662598003771 UTP binding site [chemical binding]; other site 662598003772 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 662598003773 active site 662598003774 putative oxyanion hole; other site 662598003775 catalytic triad [active] 662598003776 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 662598003777 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 662598003778 acyl-activating enzyme (AAE) consensus motif; other site 662598003779 putative AMP binding site [chemical binding]; other site 662598003780 putative active site [active] 662598003781 putative CoA binding site [chemical binding]; other site 662598003782 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 662598003783 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 662598003784 Ligand Binding Site [chemical binding]; other site 662598003785 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 662598003786 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 662598003787 glutathione synthetase; Provisional; Region: PRK05246 662598003788 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 662598003789 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 662598003790 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 662598003791 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 662598003792 active site 662598003793 HIGH motif; other site 662598003794 nucleotide binding site [chemical binding]; other site 662598003795 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 662598003796 KMSKS motif; other site 662598003797 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 662598003798 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 662598003799 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 662598003800 putative DNA binding site [nucleotide binding]; other site 662598003801 putative Zn2+ binding site [ion binding]; other site 662598003802 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 662598003803 Predicted membrane protein [Function unknown]; Region: COG2431 662598003804 Transcriptional regulators [Transcription]; Region: GntR; COG1802 662598003805 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 662598003806 DNA-binding site [nucleotide binding]; DNA binding site 662598003807 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 662598003808 OsmC-like protein; Region: OsmC; cl00767 662598003809 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 662598003810 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 662598003811 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 662598003812 active site 662598003813 substrate binding site [chemical binding]; other site 662598003814 cosubstrate binding site; other site 662598003815 catalytic site [active] 662598003816 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 662598003817 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 662598003818 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 662598003819 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 662598003820 multifunctional aminopeptidase A; Provisional; Region: PRK00913 662598003821 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 662598003822 interface (dimer of trimers) [polypeptide binding]; other site 662598003823 Substrate-binding/catalytic site; other site 662598003824 Zn-binding sites [ion binding]; other site 662598003825 Predicted permeases [General function prediction only]; Region: COG0795 662598003826 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 662598003827 Predicted permeases [General function prediction only]; Region: COG0795 662598003828 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 662598003829 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 662598003830 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 662598003831 substrate binding site [chemical binding]; other site 662598003832 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 662598003833 substrate binding site [chemical binding]; other site 662598003834 ligand binding site [chemical binding]; other site 662598003835 ornithine carbamoyltransferase; Validated; Region: PRK02102 662598003836 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 662598003837 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 662598003838 ketol-acid reductoisomerase; Provisional; Region: PRK05479 662598003839 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 662598003840 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 662598003841 Uncharacterized conserved protein [Function unknown]; Region: COG1359 662598003842 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 662598003843 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 662598003844 putative valine binding site [chemical binding]; other site 662598003845 dimer interface [polypeptide binding]; other site 662598003846 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 662598003847 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 662598003848 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 662598003849 PYR/PP interface [polypeptide binding]; other site 662598003850 dimer interface [polypeptide binding]; other site 662598003851 TPP binding site [chemical binding]; other site 662598003852 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 662598003853 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 662598003854 TPP-binding site [chemical binding]; other site 662598003855 dimer interface [polypeptide binding]; other site 662598003856 Domain of unknown function (DUF927); Region: DUF927; pfam06048 662598003857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 662598003858 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 662598003859 Toprim domain; Region: Toprim_3; pfam13362 662598003860 Predicted transcriptional regulator [Transcription]; Region: COG2944 662598003861 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 662598003862 non-specific DNA binding site [nucleotide binding]; other site 662598003863 salt bridge; other site 662598003864 sequence-specific DNA binding site [nucleotide binding]; other site 662598003865 Helix-turn-helix domain; Region: HTH_39; pfam14090 662598003866 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 662598003867 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 662598003868 oligomeric interface; other site 662598003869 putative active site [active] 662598003870 homodimer interface [polypeptide binding]; other site 662598003871 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 662598003873 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 662598003874 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 662598003875 Cu(I) binding site [ion binding]; other site 662598003876 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 662598003877 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 662598003878 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 662598003879 GIY-YIG motif/motif A; other site 662598003880 putative active site [active] 662598003881 putative metal binding site [ion binding]; other site 662598003882 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 662598003883 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 662598003884 NAD binding site [chemical binding]; other site 662598003885 dimerization interface [polypeptide binding]; other site 662598003886 product binding site; other site 662598003887 substrate binding site [chemical binding]; other site 662598003888 zinc binding site [ion binding]; other site 662598003889 catalytic residues [active] 662598003890 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 662598003891 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 662598003892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598003893 homodimer interface [polypeptide binding]; other site 662598003894 catalytic residue [active] 662598003895 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 662598003896 putative active site pocket [active] 662598003897 4-fold oligomerization interface [polypeptide binding]; other site 662598003898 metal binding residues [ion binding]; metal-binding site 662598003899 3-fold/trimer interface [polypeptide binding]; other site 662598003900 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 662598003901 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 662598003902 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 662598003903 MarR family; Region: MarR_2; pfam12802 662598003904 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 662598003905 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 662598003906 putative inner membrane peptidase; Provisional; Region: PRK11778 662598003907 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 662598003908 tandem repeat interface [polypeptide binding]; other site 662598003909 oligomer interface [polypeptide binding]; other site 662598003910 active site residues [active] 662598003911 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 662598003912 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 662598003913 Cupin; Region: Cupin_6; pfam12852 662598003914 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 662598003915 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 662598003916 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 662598003917 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 662598003918 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 662598003919 EamA-like transporter family; Region: EamA; pfam00892 662598003920 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 662598003921 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 662598003922 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 662598003923 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 662598003924 motif 1; other site 662598003925 active site 662598003926 motif 2; other site 662598003927 motif 3; other site 662598003928 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 662598003929 DHHA1 domain; Region: DHHA1; pfam02272 662598003930 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 662598003931 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 662598003932 cofactor binding site; other site 662598003933 DNA binding site [nucleotide binding] 662598003934 substrate interaction site [chemical binding]; other site 662598003935 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 662598003936 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 662598003937 gating phenylalanine in ion channel; other site 662598003938 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 662598003939 catalytic core [active] 662598003940 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 662598003941 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 662598003942 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 662598003943 CAP-like domain; other site 662598003944 active site 662598003945 primary dimer interface [polypeptide binding]; other site 662598003946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 662598003947 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 662598003948 dimer interface [polypeptide binding]; other site 662598003949 phosphorylation site [posttranslational modification] 662598003950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 662598003951 ATP binding site [chemical binding]; other site 662598003952 Mg2+ binding site [ion binding]; other site 662598003953 G-X-G motif; other site 662598003954 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 662598003955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 662598003956 active site 662598003957 phosphorylation site [posttranslational modification] 662598003958 intermolecular recognition site; other site 662598003959 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 662598003960 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 662598003961 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 662598003962 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 662598003963 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 662598003964 homodimer interface [polypeptide binding]; other site 662598003965 substrate-cofactor binding pocket; other site 662598003966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598003967 catalytic residue [active] 662598003968 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 662598003969 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 662598003970 substrate binding pocket [chemical binding]; other site 662598003971 membrane-bound complex binding site; other site 662598003972 hinge residues; other site 662598003973 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 662598003974 Fumarase C-terminus; Region: Fumerase_C; pfam05683 662598003975 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 662598003976 TrkA-N domain; Region: TrkA_N; pfam02254 662598003977 TrkA-C domain; Region: TrkA_C; pfam02080 662598003978 TrkA-N domain; Region: TrkA_N; pfam02254 662598003979 TrkA-C domain; Region: TrkA_C; pfam02080 662598003980 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 662598003981 dimer interface [polypeptide binding]; other site 662598003982 substrate binding site [chemical binding]; other site 662598003983 ATP binding site [chemical binding]; other site 662598003984 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 662598003985 tellurite resistance protein TehB; Provisional; Region: PRK12335 662598003986 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 662598003987 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 662598003988 RNA/DNA hybrid binding site [nucleotide binding]; other site 662598003989 active site 662598003990 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 662598003991 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 662598003992 non-specific DNA binding site [nucleotide binding]; other site 662598003993 salt bridge; other site 662598003994 sequence-specific DNA binding site [nucleotide binding]; other site 662598003995 HIT domain; Region: HIT; pfam01230 662598003996 HIT family signature motif; other site 662598003997 catalytic residue [active] 662598003998 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 662598003999 dimer interface [polypeptide binding]; other site 662598004000 catalytic triad [active] 662598004001 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 662598004002 catalytic residues [active] 662598004003 dimer interface [polypeptide binding]; other site 662598004004 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 662598004005 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 662598004006 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 662598004007 Multicopper oxidase; Region: Cu-oxidase; pfam00394 662598004008 Uncharacterized conserved protein [Function unknown]; Region: COG1262 662598004009 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 662598004011 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 662598004012 putative FMN binding site [chemical binding]; other site 662598004013 putative metal dependent hydrolase; Provisional; Region: PRK11598 662598004014 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 662598004015 Sulfatase; Region: Sulfatase; pfam00884 662598004016 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 662598004017 homodimer interface [polypeptide binding]; other site 662598004018 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 662598004019 substrate-cofactor binding pocket; other site 662598004020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598004021 catalytic residue [active] 662598004022 ribosome maturation protein RimP; Reviewed; Region: PRK00092 662598004023 Sm and related proteins; Region: Sm_like; cl00259 662598004024 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 662598004025 putative oligomer interface [polypeptide binding]; other site 662598004026 putative RNA binding site [nucleotide binding]; other site 662598004027 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 662598004028 NusA N-terminal domain; Region: NusA_N; pfam08529 662598004029 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 662598004030 RNA binding site [nucleotide binding]; other site 662598004031 homodimer interface [polypeptide binding]; other site 662598004032 NusA-like KH domain; Region: KH_5; pfam13184 662598004033 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 662598004034 G-X-X-G motif; other site 662598004035 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 662598004036 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 662598004037 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 662598004038 translation initiation factor IF-2; Region: IF-2; TIGR00487 662598004039 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 662598004040 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 662598004041 G1 box; other site 662598004042 putative GEF interaction site [polypeptide binding]; other site 662598004043 GTP/Mg2+ binding site [chemical binding]; other site 662598004044 Switch I region; other site 662598004045 G2 box; other site 662598004046 G3 box; other site 662598004047 Switch II region; other site 662598004048 G4 box; other site 662598004049 G5 box; other site 662598004050 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 662598004051 Translation-initiation factor 2; Region: IF-2; pfam11987 662598004052 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 662598004053 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 662598004054 G1 box; other site 662598004055 GTP/Mg2+ binding site [chemical binding]; other site 662598004056 G2 box; other site 662598004057 Switch I region; other site 662598004058 G3 box; other site 662598004059 Switch II region; other site 662598004060 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 662598004061 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 662598004062 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 662598004063 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 662598004064 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 662598004065 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 662598004066 hypothetical protein; Validated; Region: PRK00110 662598004067 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 662598004068 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 662598004069 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 662598004070 putative DNA binding site [nucleotide binding]; other site 662598004071 putative Zn2+ binding site [ion binding]; other site 662598004072 AsnC family; Region: AsnC_trans_reg; pfam01037 662598004073 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 662598004074 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 662598004075 active site 662598004076 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 662598004077 substrate binding site [chemical binding]; other site 662598004078 catalytic residues [active] 662598004079 dimer interface [polypeptide binding]; other site 662598004080 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 662598004081 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 662598004082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 662598004083 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 662598004084 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598004085 S-adenosylmethionine binding site [chemical binding]; other site 662598004086 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 662598004087 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 662598004088 comEA protein; Region: comE; TIGR01259 662598004089 Helix-hairpin-helix motif; Region: HHH; pfam00633 662598004090 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 662598004091 Flavoprotein; Region: Flavoprotein; pfam02441 662598004092 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 662598004093 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 662598004094 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 662598004095 Zn2+ binding site [ion binding]; other site 662598004096 Mg2+ binding site [ion binding]; other site 662598004097 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 662598004098 synthetase active site [active] 662598004099 NTP binding site [chemical binding]; other site 662598004100 metal binding site [ion binding]; metal-binding site 662598004101 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 662598004102 ACT domain; Region: ACT_4; pfam13291 662598004103 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 662598004104 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 662598004105 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 662598004106 catalytic site [active] 662598004107 G-X2-G-X-G-K; other site 662598004108 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 662598004109 active site 662598004110 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 662598004111 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598004112 active site 662598004113 motif I; other site 662598004114 motif II; other site 662598004115 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598004116 motif II; other site 662598004117 putative protease; Provisional; Region: PRK15452 662598004118 Peptidase family U32; Region: Peptidase_U32; pfam01136 662598004119 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 662598004120 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 662598004121 N-terminal plug; other site 662598004122 ligand-binding site [chemical binding]; other site 662598004123 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 662598004124 heme binding pocket [chemical binding]; other site 662598004125 heme ligand [chemical binding]; other site 662598004126 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 662598004127 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 662598004128 Paraquat-inducible protein A; Region: PqiA; pfam04403 662598004129 Paraquat-inducible protein A; Region: PqiA; pfam04403 662598004130 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 662598004131 mce related protein; Region: MCE; pfam02470 662598004132 mce related protein; Region: MCE; pfam02470 662598004133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 662598004134 Protein of unknown function (DUF330); Region: DUF330; pfam03886 662598004135 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 662598004136 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 662598004137 active site 662598004138 catalytic triad [active] 662598004139 oxyanion hole [active] 662598004140 switch loop; other site 662598004141 glycine dehydrogenase; Provisional; Region: PRK05367 662598004142 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 662598004143 tetramer interface [polypeptide binding]; other site 662598004144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598004145 catalytic residue [active] 662598004146 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 662598004147 tetramer interface [polypeptide binding]; other site 662598004148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598004149 catalytic residue [active] 662598004150 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 662598004151 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 662598004152 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 662598004153 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 662598004154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598004155 homodimer interface [polypeptide binding]; other site 662598004156 catalytic residue [active] 662598004157 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 662598004158 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598004159 S-adenosylmethionine binding site [chemical binding]; other site 662598004160 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 662598004161 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 662598004162 Tetramer interface [polypeptide binding]; other site 662598004163 active site 662598004164 FMN-binding site [chemical binding]; other site 662598004165 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 662598004166 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 662598004167 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 662598004168 ATP binding site [chemical binding]; other site 662598004169 Mg2+ binding site [ion binding]; other site 662598004170 G-X-G motif; other site 662598004171 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 662598004172 anchoring element; other site 662598004173 dimer interface [polypeptide binding]; other site 662598004174 ATP binding site [chemical binding]; other site 662598004175 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 662598004176 active site 662598004177 metal binding site [ion binding]; metal-binding site 662598004178 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 662598004179 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 662598004180 putative active site [active] 662598004181 Ap4A binding site [chemical binding]; other site 662598004182 nudix motif; other site 662598004183 putative metal binding site [ion binding]; other site 662598004184 seryl-tRNA synthetase; Provisional; Region: PRK05431 662598004185 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 662598004186 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 662598004187 dimer interface [polypeptide binding]; other site 662598004188 active site 662598004189 motif 1; other site 662598004190 motif 2; other site 662598004191 motif 3; other site 662598004192 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 662598004193 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 662598004194 putative ligand binding site [chemical binding]; other site 662598004195 putative NAD binding site [chemical binding]; other site 662598004196 catalytic site [active] 662598004197 peptide chain release factor 1; Validated; Region: prfA; PRK00591 662598004198 This domain is found in peptide chain release factors; Region: PCRF; smart00937 662598004199 RF-1 domain; Region: RF-1; pfam00472 662598004200 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 662598004201 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 662598004202 active site 662598004203 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 662598004204 active site 662598004205 homodimer interface [polypeptide binding]; other site 662598004206 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 662598004207 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 662598004208 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 662598004209 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 662598004210 active site 662598004211 substrate binding site [chemical binding]; other site 662598004212 metal binding site [ion binding]; metal-binding site 662598004213 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 662598004214 dihydropteroate synthase; Region: DHPS; TIGR01496 662598004215 substrate binding pocket [chemical binding]; other site 662598004216 dimer interface [polypeptide binding]; other site 662598004217 inhibitor binding site; inhibition site 662598004218 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 662598004219 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 662598004220 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 662598004221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 662598004222 Predicted membrane protein [Function unknown]; Region: COG4648 662598004223 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 662598004225 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 662598004226 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 662598004227 putative metal binding site; other site 662598004228 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 662598004229 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 662598004230 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 662598004231 Na2 binding site [ion binding]; other site 662598004232 putative substrate binding site 1 [chemical binding]; other site 662598004233 Na binding site 1 [ion binding]; other site 662598004234 putative substrate binding site 2 [chemical binding]; other site 662598004236 thymidylate synthase; Reviewed; Region: thyA; PRK01827 662598004237 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 662598004238 dimerization interface [polypeptide binding]; other site 662598004239 active site 662598004240 glutamate dehydrogenase; Provisional; Region: PRK09414 662598004241 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 662598004242 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 662598004243 NAD(P) binding site [chemical binding]; other site 662598004244 Transcriptional regulators [Transcription]; Region: FadR; COG2186 662598004245 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 662598004246 DNA-binding site [nucleotide binding]; DNA binding site 662598004247 FCD domain; Region: FCD; pfam07729 662598004248 L-lactate permease; Region: Lactate_perm; cl00701 662598004249 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 662598004250 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 662598004251 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 662598004252 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 662598004253 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 662598004254 HlyD family secretion protein; Region: HlyD_3; pfam13437 662598004255 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 662598004256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 662598004257 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 662598004258 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 662598004259 AbgT putative transporter family; Region: ABG_transport; pfam03806 662598004260 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 662598004261 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 662598004262 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 662598004263 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 662598004264 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 662598004266 Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]; Region: CcoQ; COG4736 662598004267 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 662598004268 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 662598004269 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 662598004270 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 662598004271 Low-spin heme binding site [chemical binding]; other site 662598004272 Putative water exit pathway; other site 662598004273 Binuclear center (active site) [active] 662598004274 Putative proton exit pathway; other site 662598004275 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 662598004276 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 662598004277 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 662598004278 protein binding site [polypeptide binding]; other site 662598004279 TIGR01244 family protein; Region: TIGR01244 662598004280 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 662598004281 TolR protein; Region: tolR; TIGR02801 662598004282 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 662598004283 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 662598004284 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 662598004285 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 662598004286 Peptidase family M50; Region: Peptidase_M50; pfam02163 662598004287 active site 662598004288 putative substrate binding region [chemical binding]; other site 662598004290 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 662598004291 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 662598004292 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 662598004293 C-terminal domain interface [polypeptide binding]; other site 662598004294 GSH binding site (G-site) [chemical binding]; other site 662598004295 catalytic residues [active] 662598004296 putative dimer interface [polypeptide binding]; other site 662598004297 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 662598004298 N-terminal domain interface [polypeptide binding]; other site 662598004299 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 662598004300 HD domain; Region: HD_4; pfam13328 662598004301 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 662598004302 synthetase active site [active] 662598004303 NTP binding site [chemical binding]; other site 662598004304 metal binding site [ion binding]; metal-binding site 662598004305 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 662598004306 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 662598004307 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 662598004308 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 662598004309 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 662598004310 HlyD family secretion protein; Region: HlyD_3; pfam13437 662598004311 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 662598004312 Replication initiation factor; Region: Rep_trans; pfam02486 662598004313 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 662598004314 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 662598004315 G1 box; other site 662598004316 GTP/Mg2+ binding site [chemical binding]; other site 662598004317 G2 box; other site 662598004318 Switch I region; other site 662598004319 G3 box; other site 662598004320 Switch II region; other site 662598004321 G4 box; other site 662598004322 G5 box; other site 662598004323 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 662598004324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 662598004325 active site 662598004326 phosphorylation site [posttranslational modification] 662598004327 intermolecular recognition site; other site 662598004328 dimerization interface [polypeptide binding]; other site 662598004329 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 662598004330 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598004331 S-adenosylmethionine binding site [chemical binding]; other site 662598004332 Protein of unknown function (DUF452); Region: DUF452; cl01062 662598004333 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 662598004334 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 662598004335 substrate-cofactor binding pocket; other site 662598004336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 662598004337 catalytic residue [active] 662598004338 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 662598004339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 662598004340 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 662598004341 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 662598004342 transmembrane helices; other site 662598004343 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 662598004344 agmatinase; Region: agmatinase; TIGR01230 662598004345 oligomer interface [polypeptide binding]; other site 662598004346 putative active site [active] 662598004347 Mn binding site [ion binding]; other site 662598004348 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 662598004349 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 662598004350 dimer interface [polypeptide binding]; other site 662598004351 active site 662598004352 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 662598004353 catalytic residues [active] 662598004354 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 662598004355 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 662598004356 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 662598004357 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 662598004358 dimer interface [polypeptide binding]; other site 662598004359 anticodon binding site; other site 662598004360 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 662598004361 homodimer interface [polypeptide binding]; other site 662598004362 motif 1; other site 662598004363 active site 662598004364 motif 2; other site 662598004365 GAD domain; Region: GAD; pfam02938 662598004366 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 662598004367 motif 3; other site 662598004368 Uncharacterized conserved protein [Function unknown]; Region: COG2928 662598004369 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 662598004370 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 662598004371 dimerization interface [polypeptide binding]; other site 662598004372 substrate binding site [chemical binding]; other site 662598004373 active site 662598004374 calcium binding site [ion binding]; other site 662598004375 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 662598004376 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 662598004377 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 662598004378 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 662598004379 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 662598004380 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 662598004381 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 662598004382 glutamate racemase; Provisional; Region: PRK00865 662598004383 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 662598004384 AMIN domain; Region: AMIN; pfam11741 662598004385 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 662598004386 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 662598004387 active site 662598004388 metal binding site [ion binding]; metal-binding site 662598004389 Fic family protein [Function unknown]; Region: COG3177 662598004390 Fic/DOC family; Region: Fic; pfam02661 662598004391 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 662598004392 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 662598004393 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 662598004394 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 662598004395 active site 662598004396 8-oxo-dGMP binding site [chemical binding]; other site 662598004397 nudix motif; other site 662598004398 metal binding site [ion binding]; metal-binding site 662598004399 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 662598004400 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 662598004401 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 662598004402 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 662598004403 active site 662598004404 iron coordination sites [ion binding]; other site 662598004405 substrate binding pocket [chemical binding]; other site 662598004406 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 662598004407 active site 662598004408 hydrophilic channel; other site 662598004409 dimerization interface [polypeptide binding]; other site 662598004410 catalytic residues [active] 662598004411 active site lid [active] 662598004412 Recombination protein O N terminal; Region: RecO_N; pfam11967 662598004413 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 662598004414 Recombination protein O C terminal; Region: RecO_C; pfam02565 662598004415 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 662598004416 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 662598004417 Prephenate dehydratase; Region: PDT; pfam00800 662598004418 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 662598004419 putative L-Phe binding site [chemical binding]; other site 662598004420 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 662598004421 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598004422 putative substrate translocation pore; other site 662598004425 Predicted amidohydrolase [General function prediction only]; Region: COG0388 662598004426 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 662598004427 putative active site [active] 662598004428 catalytic triad [active] 662598004429 dimer interface [polypeptide binding]; other site 662598004430 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 662598004431 prephenate dehydrogenase; Validated; Region: PRK08507 662598004432 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 662598004433 Transcriptional regulator; Region: Rrf2; cl17282 662598004434 Rrf2 family protein; Region: rrf2_super; TIGR00738 662598004435 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 662598004436 propionate/acetate kinase; Provisional; Region: PRK12379 662598004437 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 662598004438 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 662598004439 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 662598004440 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 662598004441 substrate binding site [chemical binding]; other site 662598004442 ligand binding site [chemical binding]; other site 662598004443 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 662598004444 substrate binding site [chemical binding]; other site 662598004445 Protein of unknown function (DUF819); Region: DUF819; cl02317 662598004446 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 662598004447 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 662598004448 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 662598004449 dimer interface [polypeptide binding]; other site 662598004450 active site 662598004451 citrylCoA binding site [chemical binding]; other site 662598004452 oxalacetate/citrate binding site [chemical binding]; other site 662598004453 coenzyme A binding site [chemical binding]; other site 662598004454 catalytic triad [active] 662598004455 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 662598004456 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 662598004457 tetramer interface [polypeptide binding]; other site 662598004458 active site 662598004459 Mg2+/Mn2+ binding site [ion binding]; other site 662598004460 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 662598004461 cell division protein FtsZ; Validated; Region: PRK09330 662598004462 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 662598004463 nucleotide binding site [chemical binding]; other site 662598004464 SulA interaction site; other site 662598004465 cell division protein FtsA; Region: ftsA; TIGR01174 662598004466 Cell division protein FtsA; Region: FtsA; smart00842 662598004467 Cell division protein FtsA; Region: FtsA; pfam14450 662598004468 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 662598004469 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 662598004470 Cell division protein FtsQ; Region: FtsQ; pfam03799 662598004471 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 662598004472 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 662598004473 ATP-grasp domain; Region: ATP-grasp_4; cl17255 662598004474 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 662598004475 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 662598004476 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 662598004477 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 662598004478 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 662598004479 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 662598004480 active site 662598004481 homodimer interface [polypeptide binding]; other site 662598004482 cell division protein FtsW; Region: ftsW; TIGR02614 662598004483 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 662598004484 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 662598004485 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 662598004486 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 662598004487 Sel1-like repeats; Region: SEL1; smart00671 662598004488 Sel1-like repeats; Region: SEL1; smart00671 662598004489 Sel1-like repeats; Region: SEL1; smart00671 662598004490 Sel1-like repeats; Region: SEL1; smart00671 662598004491 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 662598004492 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 662598004493 Mg++ binding site [ion binding]; other site 662598004494 putative catalytic motif [active] 662598004495 putative substrate binding site [chemical binding]; other site 662598004496 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 662598004497 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 662598004498 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 662598004499 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 662598004500 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 662598004501 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 662598004502 Sulfatase; Region: Sulfatase; pfam00884 662598004503 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 662598004504 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 662598004505 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 662598004506 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 662598004507 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 662598004508 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 662598004509 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 662598004510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 662598004511 MraW methylase family; Region: Methyltransf_5; cl17771 662598004512 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 662598004513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 662598004514 MraZ protein; Region: MraZ; pfam02381 662598004515 MraZ protein; Region: MraZ; pfam02381 662598004516 Uncharacterized conserved protein [Function unknown]; Region: COG1565 662598004517 Methyltransferase domain; Region: Methyltransf_18; pfam12847 662598004518 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 662598004519 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 662598004520 catalytic residues [active] 662598004521 hinge region; other site 662598004522 alpha helical domain; other site 662598004523 cell division protein FtsN; Region: ftsN; TIGR02223 662598004524 Sporulation related domain; Region: SPOR; pfam05036 662598004525 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 662598004526 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 662598004527 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 662598004528 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 662598004529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 662598004530 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 662598004531 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 662598004532 Na binding site [ion binding]; other site 662598004533 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 662598004534 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 662598004535 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 662598004536 Glutamate binding site [chemical binding]; other site 662598004537 NAD binding site [chemical binding]; other site 662598004538 catalytic residues [active] 662598004539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 662598004540 AAA domain; Region: AAA_21; pfam13304 662598004541 Q-loop/lid; other site 662598004542 ABC transporter signature motif; other site 662598004543 Walker B; other site 662598004544 D-loop; other site 662598004545 H-loop/switch region; other site 662598004546 Protein of unknown function (DUF723); Region: DUF723; pfam05265 662598004547 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 662598004548 putative catalytic site [active] 662598004549 putative phosphate binding site [ion binding]; other site 662598004550 active site 662598004551 metal binding site A [ion binding]; metal-binding site 662598004552 DNA binding site [nucleotide binding] 662598004553 putative AP binding site [nucleotide binding]; other site 662598004554 putative metal binding site B [ion binding]; other site 662598004555 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 662598004556 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 662598004557 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 662598004558 dimerization interface [polypeptide binding]; other site 662598004559 active site 662598004560 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 662598004561 quinolinate synthetase; Provisional; Region: PRK09375 662598004562 L-aspartate oxidase; Provisional; Region: PRK06175 662598004563 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 662598004564 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 662598004565 beta-phosphoglucomutase; Region: bPGM; TIGR01990 662598004566 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598004567 motif II; other site 662598004568 maltose phosphorylase; Provisional; Region: PRK13807 662598004569 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 662598004570 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 662598004571 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 662598004572 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 662598004573 active site 662598004574 catalytic residues [active] 662598004575 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598004576 putative substrate translocation pore; other site 662598004577 Major Facilitator Superfamily; Region: MFS_1; pfam07690 662598004578 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 662598004579 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 662598004580 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 662598004581 ABC transporter; Region: ABC_tran_2; pfam12848 662598004582 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 662598004583 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 662598004584 tetramer interfaces [polypeptide binding]; other site 662598004585 binuclear metal-binding site [ion binding]; other site 662598004586 thiamine-monophosphate kinase; Region: thiL; TIGR01379 662598004587 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 662598004588 ATP binding site [chemical binding]; other site 662598004589 dimerization interface [polypeptide binding]; other site 662598004590 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 662598004591 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 662598004592 ligand binding site [chemical binding]; other site 662598004593 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 662598004594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 662598004595 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 662598004596 substrate binding site [chemical binding]; other site 662598004597 dimerization interface [polypeptide binding]; other site 662598004598 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 662598004599 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 662598004600 ligand binding site [chemical binding]; other site 662598004601 flexible hinge region; other site 662598004602 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 662598004603 putative switch regulator; other site 662598004604 non-specific DNA interactions [nucleotide binding]; other site 662598004605 DNA binding site [nucleotide binding] 662598004606 sequence specific DNA binding site [nucleotide binding]; other site 662598004607 putative cAMP binding site [chemical binding]; other site 662598004608 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 662598004609 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 662598004610 FeS/SAM binding site; other site 662598004611 HemN C-terminal domain; Region: HemN_C; pfam06969 662598004612 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 662598004613 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 662598004614 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 662598004615 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 662598004616 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 662598004617 protein-splicing catalytic site; other site 662598004618 thioester formation/cholesterol transfer; other site 662598004619 Pretoxin HINT domain; Region: PT-HINT; pfam07591 662598004620 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 662598004621 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 662598004622 MafB19-like deaminase; Region: MafB19-deam; pfam14437 662598004623 Pretoxin HINT domain; Region: PT-HINT; pfam07591 662598004624 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 662598004625 thioester formation/cholesterol transfer; other site 662598004626 protein-splicing catalytic site; other site 662598004627 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 662598004629 RTX iron-regulated protein FrpC; Region: FrpC; pfam06901 662598004630 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 662598004631 GIY-YIG motif/motif A; other site 662598004632 putative active site [active] 662598004633 putative metal binding site [ion binding]; other site 662598004634 muropeptide transporter; Reviewed; Region: ampG; PRK11902 662598004635 AmpG-like permease; Region: 2A0125; TIGR00901 662598004636 glutamine synthetase; Provisional; Region: glnA; PRK09469 662598004637 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 662598004638 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 662598004639 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 662598004640 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 662598004641 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 662598004642 shikimate binding site; other site 662598004643 NAD(P) binding site [chemical binding]; other site 662598004644 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 662598004645 Transglycosylase; Region: Transgly; cl17702 662598004646 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 662598004647 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 662598004648 Walker A/P-loop; other site 662598004649 ATP binding site [chemical binding]; other site 662598004650 Q-loop/lid; other site 662598004651 ABC transporter signature motif; other site 662598004652 Walker B; other site 662598004653 D-loop; other site 662598004654 H-loop/switch region; other site 662598004655 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 662598004656 OstA-like protein; Region: OstA; pfam03968 662598004657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 662598004658 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 662598004659 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 662598004660 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598004661 active site 662598004662 motif I; other site 662598004663 motif II; other site 662598004664 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 662598004665 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 662598004666 putative active site [active] 662598004667 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 662598004668 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 662598004669 putative active site [active] 662598004670 transaldolase; Provisional; Region: PRK03903 662598004671 catalytic residue [active] 662598004672 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 662598004673 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 662598004674 active site 662598004675 HIGH motif; other site 662598004676 nucleotide binding site [chemical binding]; other site 662598004677 active site 662598004678 KMSKS motif; other site 662598004679 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 662598004680 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 662598004681 FMN binding site [chemical binding]; other site 662598004682 active site 662598004683 catalytic residues [active] 662598004684 substrate binding site [chemical binding]; other site 662598004685 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 662598004686 putative active site [active] 662598004687 dimerization interface [polypeptide binding]; other site 662598004688 putative tRNAtyr binding site [nucleotide binding]; other site 662598004689 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 662598004690 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 662598004691 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 662598004692 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 662598004693 YciI-like protein; Reviewed; Region: PRK11370 662598004694 intracellular septation protein A; Reviewed; Region: PRK00259 662598004695 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 662598004696 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 662598004697 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 662598004698 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 662598004699 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 662598004700 dimer interface [polypeptide binding]; other site 662598004701 active site 662598004702 metal binding site [ion binding]; metal-binding site 662598004703 glutathione binding site [chemical binding]; other site 662598004704 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 662598004705 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 662598004706 TPR motif; other site 662598004707 binding surface 662598004708 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 662598004709 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 662598004710 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 662598004711 homodimer interface [polypeptide binding]; other site 662598004712 substrate-cofactor binding pocket; other site 662598004713 catalytic residue [active] 662598004714 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 662598004715 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 662598004716 NAD binding site [chemical binding]; other site 662598004717 homotetramer interface [polypeptide binding]; other site 662598004718 homodimer interface [polypeptide binding]; other site 662598004719 substrate binding site [chemical binding]; other site 662598004720 active site 662598004721 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 662598004722 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 662598004723 trimer interface [polypeptide binding]; other site 662598004724 active site 662598004725 substrate binding site [chemical binding]; other site 662598004726 CoA binding site [chemical binding]; other site 662598004727 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 662598004728 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 662598004729 active site 662598004730 dimer interface [polypeptide binding]; other site 662598004731 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 662598004732 dimer interface [polypeptide binding]; other site 662598004733 active site 662598004734 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 662598004735 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 662598004736 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 662598004737 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 662598004738 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 662598004739 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 662598004740 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 662598004741 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 662598004742 CoA-binding site [chemical binding]; other site 662598004743 ATP-binding [chemical binding]; other site 662598004744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 662598004745 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 662598004746 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 662598004747 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 662598004748 Walker A motif; other site 662598004749 ATP binding site [chemical binding]; other site 662598004750 Walker B motif; other site 662598004751 Predicted membrane protein [Function unknown]; Region: COG2707 662598004752 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 662598004753 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 662598004754 substrate binding pocket [chemical binding]; other site 662598004755 chain length determination region; other site 662598004756 substrate-Mg2+ binding site; other site 662598004757 catalytic residues [active] 662598004758 aspartate-rich region 1; other site 662598004759 active site lid residues [active] 662598004760 aspartate-rich region 2; other site 662598004761 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 662598004762 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 662598004763 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 662598004764 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 662598004765 hypothetical protein; Provisional; Region: PRK09126 662598004766 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 662598004767 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 662598004768 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 662598004769 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598004770 putative substrate translocation pore; other site 662598004771 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 662598004772 HlyD family secretion protein; Region: HlyD_3; pfam13437 662598004773 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 662598004774 hypothetical protein; Provisional; Region: PRK11212 662598004775 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 662598004776 Peptidase family M23; Region: Peptidase_M23; pfam01551 662598004777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 662598004778 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 662598004779 TPR motif; other site 662598004780 Tetratricopeptide repeat; Region: TPR_16; pfam13432 662598004781 binding surface 662598004782 Protein of unknown function (DUF560); Region: DUF560; pfam04575 662598004783 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 662598004784 Autotransporter beta-domain; Region: Autotransporter; pfam03797 662598004785 Predicted membrane protein [Function unknown]; Region: COG1981 662598004786 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 662598004787 putative active site [active] 662598004788 putative metal binding residues [ion binding]; other site 662598004789 signature motif; other site 662598004790 putative dimer interface [polypeptide binding]; other site 662598004791 putative phosphate binding site [ion binding]; other site 662598004792 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 662598004793 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 662598004794 folate binding site [chemical binding]; other site 662598004795 NADP+ binding site [chemical binding]; other site 662598004796 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 662598004797 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 662598004799 comEA protein; Region: comE; TIGR01259 662598004800 Helix-hairpin-helix motif; Region: HHH; pfam00633 662598004801 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 662598004802 signal recognition particle protein; Provisional; Region: PRK10867 662598004803 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 662598004804 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 662598004805 P loop; other site 662598004806 GTP binding site [chemical binding]; other site 662598004807 Signal peptide binding domain; Region: SRP_SPB; pfam02978 662598004808 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 662598004809 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 662598004810 catalytic residues [active] 662598004811 hinge region; other site 662598004812 alpha helical domain; other site 662598004814 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 662598004815 dimer interface [polypeptide binding]; other site 662598004816 FMN binding site [chemical binding]; other site 662598004817 Predicted membrane protein [Function unknown]; Region: COG2259 662598004818 Transcriptional regulator [Transcription]; Region: LysR; COG0583 662598004819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 662598004820 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 662598004821 putative effector binding pocket; other site 662598004822 dimerization interface [polypeptide binding]; other site 662598004823 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 662598004824 DNA photolyase; Region: DNA_photolyase; pfam00875 662598004825 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 662598004826 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 662598004827 DEAD_2; Region: DEAD_2; pfam06733 662598004828 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 662598004829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 662598004830 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 662598004831 putative metal binding site [ion binding]; other site 662598004832 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 662598004833 adenylosuccinate lyase; Provisional; Region: PRK09285 662598004834 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 662598004835 tetramer interface [polypeptide binding]; other site 662598004836 active site 662598004837 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 662598004838 Exoribonuclease R [Transcription]; Region: VacB; COG0557 662598004839 RNB domain; Region: RNB; pfam00773 662598004840 SurA N-terminal domain; Region: SurA_N; pfam09312 662598004841 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 662598004842 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 662598004843 Organic solvent tolerance protein; Region: OstA_C; pfam04453 662598004844 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 662598004845 Phosphotransferase enzyme family; Region: APH; pfam01636 662598004846 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 662598004847 catalytic residues [active] 662598004848 hinge region; other site 662598004849 alpha helical domain; other site 662598004850 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 662598004851 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 662598004852 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 662598004853 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 662598004854 active site 662598004855 ribulose/triose binding site [chemical binding]; other site 662598004856 phosphate binding site [ion binding]; other site 662598004857 substrate (anthranilate) binding pocket [chemical binding]; other site 662598004858 product (indole) binding pocket [chemical binding]; other site 662598004859 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 662598004860 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 662598004861 ATP binding site [chemical binding]; other site 662598004862 putative Mg++ binding site [ion binding]; other site 662598004863 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 662598004864 nucleotide binding region [chemical binding]; other site 662598004865 ATP-binding site [chemical binding]; other site 662598004866 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 662598004867 Helicase and RNase D C-terminal; Region: HRDC; smart00341 662598004868 Helicase and RNase D C-terminal; Region: HRDC; smart00341 662598004869 Helicase and RNase D C-terminal; Region: HRDC; smart00341 662598004870 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 662598004871 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 662598004872 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 662598004873 TAP-like protein; Region: Abhydrolase_4; pfam08386 662598004874 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 662598004875 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 662598004876 active site 662598004877 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 662598004878 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 662598004879 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 662598004880 Predicted membrane protein [Function unknown]; Region: COG3212 662598004881 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 662598004882 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 662598004883 RuvA N terminal domain; Region: RuvA_N; pfam01330 662598004884 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 662598004885 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 662598004886 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 662598004887 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 662598004888 Walker A/P-loop; other site 662598004889 ATP binding site [chemical binding]; other site 662598004890 Q-loop/lid; other site 662598004891 ABC transporter signature motif; other site 662598004892 Walker B; other site 662598004893 D-loop; other site 662598004894 H-loop/switch region; other site 662598004895 GTPase RsgA; Reviewed; Region: PRK00098 662598004896 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 662598004897 RNA binding site [nucleotide binding]; other site 662598004898 homodimer interface [polypeptide binding]; other site 662598004899 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 662598004900 GTPase/Zn-binding domain interface [polypeptide binding]; other site 662598004901 GTP/Mg2+ binding site [chemical binding]; other site 662598004902 G4 box; other site 662598004903 G5 box; other site 662598004904 G1 box; other site 662598004905 Switch I region; other site 662598004906 G2 box; other site 662598004907 G3 box; other site 662598004908 Switch II region; other site 662598004909 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 662598004910 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 662598004911 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 662598004912 substrate binding pocket [chemical binding]; other site 662598004913 chain length determination region; other site 662598004914 substrate-Mg2+ binding site; other site 662598004915 catalytic residues [active] 662598004916 aspartate-rich region 1; other site 662598004917 active site lid residues [active] 662598004918 aspartate-rich region 2; other site 662598004919 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 662598004920 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 662598004921 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 662598004922 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 662598004923 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 662598004924 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 662598004925 PLD-like domain; Region: PLDc_2; pfam13091 662598004926 homodimer interface [polypeptide binding]; other site 662598004927 putative active site [active] 662598004928 catalytic site [active] 662598004929 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 662598004930 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 662598004931 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 662598004932 Membrane transport protein; Region: Mem_trans; cl09117 662598004933 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 662598004934 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 662598004935 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 662598004936 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 662598004937 4Fe-4S binding domain; Region: Fer4; cl02805 662598004938 4Fe-4S binding domain; Region: Fer4; pfam00037 662598004939 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 662598004940 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 662598004941 NADH dehydrogenase subunit G; Validated; Region: PRK09129 662598004942 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 662598004943 catalytic loop [active] 662598004944 iron binding site [ion binding]; other site 662598004945 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 662598004946 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 662598004947 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 662598004948 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 662598004949 putative active site [active] 662598004950 GIY-YIG motif/motif A; other site 662598004951 putative metal binding site [ion binding]; other site 662598004952 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 662598004953 SLBB domain; Region: SLBB; pfam10531 662598004954 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 662598004955 NADH dehydrogenase subunit E; Validated; Region: PRK07539 662598004956 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 662598004957 putative dimer interface [polypeptide binding]; other site 662598004958 [2Fe-2S] cluster binding site [ion binding]; other site 662598004959 NADH dehydrogenase subunit D; Validated; Region: PRK06075 662598004960 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 662598004961 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 662598004962 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 662598004963 NADH dehydrogenase subunit B; Validated; Region: PRK06411 662598004964 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 662598004965 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598004966 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598004967 S-adenosylmethionine binding site [chemical binding]; other site 662598004968 spermidine synthase; Provisional; Region: PRK03612 662598004969 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 662598004970 hypothetical protein; Provisional; Region: PRK10621 662598004971 DNA helicase II; Region: uvrD; TIGR01075 662598004972 Part of AAA domain; Region: AAA_19; pfam13245 662598004973 Family description; Region: UvrD_C_2; pfam13538 662598004974 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 662598004975 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 662598004976 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 662598004977 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 662598004978 putative active site [active] 662598004979 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 662598004980 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 662598004981 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 662598004982 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 662598004983 metal binding triad; other site 662598004984 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 662598004985 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 662598004986 metal binding triad; other site 662598004987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 662598004988 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 662598004989 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 662598004990 quinone interaction residues [chemical binding]; other site 662598004991 active site 662598004992 catalytic residues [active] 662598004993 FMN binding site [chemical binding]; other site 662598004994 substrate binding site [chemical binding]; other site 662598004995 acyl carrier protein; Provisional; Region: acpP; PRK00982 662598004996 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 662598004997 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 662598004998 dimer interface [polypeptide binding]; other site 662598004999 active site 662598005000 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 662598005001 Sodium Bile acid symporter family; Region: SBF; cl17470 662598005002 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 662598005003 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 662598005004 putative substrate translocation pore; other site 662598005005 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 662598005006 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 662598005007 putative ADP-binding pocket [chemical binding]; other site 662598005008 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 662598005009 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 662598005010 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 662598005011 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 662598005012 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 662598005013 tetramer interface [polypeptide binding]; other site 662598005014 heme binding pocket [chemical binding]; other site 662598005015 NADPH binding site [chemical binding]; other site 662598005016 Predicted membrane protein [Function unknown]; Region: COG1971 662598005017 Domain of unknown function DUF; Region: DUF204; pfam02659 662598005018 Domain of unknown function DUF; Region: DUF204; pfam02659 662598005019 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 662598005020 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 662598005021 active site 662598005022 Zn binding site [ion binding]; other site 662598005023 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 662598005024 Mechanosensitive ion channel; Region: MS_channel; pfam00924 662598005025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 662598005026 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 662598005027 Mg2+ binding site [ion binding]; other site 662598005028 G-X-G motif; other site 662598005029 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 662598005030 anchoring element; other site 662598005031 dimer interface [polypeptide binding]; other site 662598005032 ATP binding site [chemical binding]; other site 662598005033 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 662598005034 active site 662598005035 putative metal-binding site [ion binding]; other site 662598005036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 662598005037 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 662598005038 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 662598005039 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 662598005041 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 662598005042 putative cation:proton antiport protein; Provisional; Region: PRK10669 662598005043 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 662598005044 TrkA-N domain; Region: TrkA_N; pfam02254 662598005045 TrkA-C domain; Region: TrkA_C; pfam02080 662598005046 ferredoxin; Provisional; Region: PRK08764 662598005047 Putative Fe-S cluster; Region: FeS; cl17515 662598005048 4Fe-4S binding domain; Region: Fer4; pfam00037 662598005049 4Fe-4S binding domain; Region: Fer4; pfam00037 662598005050 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 662598005051 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 662598005052 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 662598005053 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 662598005054 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 662598005055 metal binding site 2 [ion binding]; metal-binding site 662598005056 putative DNA binding helix; other site 662598005057 metal binding site 1 [ion binding]; metal-binding site 662598005058 dimer interface [polypeptide binding]; other site 662598005059 structural Zn2+ binding site [ion binding]; other site 662598005060 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 662598005061 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 662598005062 dihydrodipicolinate reductase; Provisional; Region: PRK00048 662598005063 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 662598005064 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 662598005065 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 662598005066 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 662598005067 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 662598005068 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 662598005069 RNA binding surface [nucleotide binding]; other site 662598005070 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 662598005071 active site 662598005072 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 662598005073 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 662598005074 homodimer interface [polypeptide binding]; other site 662598005075 oligonucleotide binding site [chemical binding]; other site 662598005076 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 662598005077 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 662598005078 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 662598005079 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 662598005080 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 662598005081 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 662598005082 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 662598005083 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 662598005084 RNA/DNA hybrid binding site [nucleotide binding]; other site 662598005085 active site 662598005086 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 662598005087 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 662598005088 P-loop; other site 662598005089 Magnesium ion binding site [ion binding]; other site 662598005090 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 662598005091 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 662598005092 Magnesium ion binding site [ion binding]; other site 662598005093 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 662598005094 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598005095 S-adenosylmethionine binding site [chemical binding]; other site 662598005096 Predicted membrane protein [Function unknown]; Region: COG1289 662598005097 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 662598005098 ribosome recycling factor; Reviewed; Region: frr; PRK00083 662598005099 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 662598005100 hinge region; other site 662598005101 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 662598005102 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 662598005103 catalytic residue [active] 662598005104 putative FPP diphosphate binding site; other site 662598005105 putative FPP binding hydrophobic cleft; other site 662598005106 dimer interface [polypeptide binding]; other site 662598005107 putative IPP diphosphate binding site; other site 662598005108 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 662598005109 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 662598005110 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 662598005111 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 662598005112 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 662598005113 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 662598005114 zinc metallopeptidase RseP; Provisional; Region: PRK10779 662598005115 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 662598005116 active site 662598005117 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 662598005118 protein binding site [polypeptide binding]; other site 662598005119 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 662598005120 protein binding site [polypeptide binding]; other site 662598005121 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 662598005122 putative substrate binding region [chemical binding]; other site 662598005123 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 662598005124 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 662598005125 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 662598005126 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 662598005127 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 662598005128 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 662598005129 Surface antigen; Region: Bac_surface_Ag; pfam01103 662598005130 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 662598005131 periplasmic chaperone; Provisional; Region: PRK10780 662598005132 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 662598005133 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 662598005134 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 662598005135 trimer interface [polypeptide binding]; other site 662598005136 active site 662598005137 UDP-GlcNAc binding site [chemical binding]; other site 662598005138 lipid binding site [chemical binding]; lipid-binding site 662598005139 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 662598005140 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 662598005141 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 662598005142 active site 662598005143 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 662598005144 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 662598005145 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 662598005146 hydroxyglutarate oxidase; Provisional; Region: PRK11728 662598005147 zinc transporter ZupT; Provisional; Region: PRK04201 662598005148 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 662598005149 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 662598005150 HIGH motif; other site 662598005151 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 662598005152 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 662598005153 active site 662598005154 KMSKS motif; other site 662598005155 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 662598005156 tRNA binding surface [nucleotide binding]; other site 662598005157 anticodon binding site; other site 662598005158 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 662598005159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 662598005160 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 662598005161 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 662598005162 dimerization interface [polypeptide binding]; other site 662598005163 cell division topological specificity factor MinE; Provisional; Region: PRK13989 662598005164 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 662598005165 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 662598005166 Switch I; other site 662598005167 Switch II; other site 662598005168 septum formation inhibitor; Reviewed; Region: minC; PRK04516 662598005169 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 662598005170 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 662598005171 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 662598005172 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 662598005173 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 662598005174 alphaNTD homodimer interface [polypeptide binding]; other site 662598005175 alphaNTD - beta interaction site [polypeptide binding]; other site 662598005176 alphaNTD - beta' interaction site [polypeptide binding]; other site 662598005177 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 662598005178 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 662598005179 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 662598005180 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 662598005181 RNA binding surface [nucleotide binding]; other site 662598005182 30S ribosomal protein S11; Validated; Region: PRK05309 662598005183 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 662598005184 30S ribosomal protein S13; Region: bact_S13; TIGR03631 662598005185 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 662598005186 rRNA binding site [nucleotide binding]; other site 662598005187 predicted 30S ribosome binding site; other site 662598005188 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 662598005189 SecY translocase; Region: SecY; pfam00344 662598005190 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 662598005191 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 662598005192 23S rRNA binding site [nucleotide binding]; other site 662598005193 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 662598005194 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 662598005195 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 662598005196 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 662598005197 5S rRNA interface [nucleotide binding]; other site 662598005198 23S rRNA interface [nucleotide binding]; other site 662598005199 L5 interface [polypeptide binding]; other site 662598005200 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 662598005201 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 662598005202 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 662598005203 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 662598005204 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 662598005205 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 662598005206 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 662598005207 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 662598005208 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 662598005209 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 662598005210 RNA binding site [nucleotide binding]; other site 662598005211 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 662598005212 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 662598005213 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 662598005214 23S rRNA interface [nucleotide binding]; other site 662598005215 putative translocon interaction site; other site 662598005216 signal recognition particle (SRP54) interaction site; other site 662598005217 L23 interface [polypeptide binding]; other site 662598005218 trigger factor interaction site; other site 662598005219 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 662598005220 23S rRNA interface [nucleotide binding]; other site 662598005221 5S rRNA interface [nucleotide binding]; other site 662598005222 putative antibiotic binding site [chemical binding]; other site 662598005223 L25 interface [polypeptide binding]; other site 662598005224 L27 interface [polypeptide binding]; other site 662598005225 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 662598005226 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 662598005227 G-X-X-G motif; other site 662598005228 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 662598005229 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 662598005230 putative translocon binding site; other site 662598005231 protein-rRNA interface [nucleotide binding]; other site 662598005232 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 662598005233 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 662598005234 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 662598005235 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 662598005236 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 662598005237 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 662598005238 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 662598005239 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 662598005240 elongation factor Tu; Reviewed; Region: PRK00049 662598005241 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 662598005242 G1 box; other site 662598005243 GEF interaction site [polypeptide binding]; other site 662598005244 GTP/Mg2+ binding site [chemical binding]; other site 662598005245 Switch I region; other site 662598005246 G2 box; other site 662598005247 G3 box; other site 662598005248 Switch II region; other site 662598005249 G4 box; other site 662598005250 G5 box; other site 662598005251 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 662598005252 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 662598005253 Antibiotic Binding Site [chemical binding]; other site 662598005254 elongation factor G; Reviewed; Region: PRK00007 662598005255 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 662598005256 G1 box; other site 662598005257 putative GEF interaction site [polypeptide binding]; other site 662598005258 GTP/Mg2+ binding site [chemical binding]; other site 662598005259 Switch I region; other site 662598005260 G2 box; other site 662598005261 G3 box; other site 662598005262 Switch II region; other site 662598005263 G4 box; other site 662598005264 G5 box; other site 662598005265 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 662598005266 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 662598005267 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 662598005268 30S ribosomal protein S7; Validated; Region: PRK05302 662598005269 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 662598005270 S17 interaction site [polypeptide binding]; other site 662598005271 S8 interaction site; other site 662598005272 16S rRNA interaction site [nucleotide binding]; other site 662598005273 streptomycin interaction site [chemical binding]; other site 662598005274 23S rRNA interaction site [nucleotide binding]; other site 662598005275 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 662598005276 Protein of unknown function (DUF560); Region: DUF560; pfam04575 662598005277 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 662598005278 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 662598005279 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 662598005280 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 662598005281 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 662598005282 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 662598005283 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 662598005284 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 662598005285 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 662598005286 DNA binding site [nucleotide binding] 662598005287 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 662598005288 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 662598005289 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 662598005290 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 662598005291 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 662598005292 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 662598005293 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 662598005294 RPB3 interaction site [polypeptide binding]; other site 662598005295 RPB1 interaction site [polypeptide binding]; other site 662598005296 RPB11 interaction site [polypeptide binding]; other site 662598005297 RPB10 interaction site [polypeptide binding]; other site 662598005298 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 662598005299 core dimer interface [polypeptide binding]; other site 662598005300 peripheral dimer interface [polypeptide binding]; other site 662598005301 L10 interface [polypeptide binding]; other site 662598005302 L11 interface [polypeptide binding]; other site 662598005303 putative EF-Tu interaction site [polypeptide binding]; other site 662598005304 putative EF-G interaction site [polypeptide binding]; other site 662598005305 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 662598005306 23S rRNA interface [nucleotide binding]; other site 662598005307 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 662598005308 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 662598005309 mRNA/rRNA interface [nucleotide binding]; other site 662598005310 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 662598005311 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 662598005312 23S rRNA interface [nucleotide binding]; other site 662598005313 L7/L12 interface [polypeptide binding]; other site 662598005314 putative thiostrepton binding site; other site 662598005315 L25 interface [polypeptide binding]; other site 662598005316 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 662598005317 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 662598005318 putative homodimer interface [polypeptide binding]; other site 662598005319 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 662598005320 heterodimer interface [polypeptide binding]; other site 662598005321 homodimer interface [polypeptide binding]; other site 662598005322 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 662598005323 elongation factor Tu; Reviewed; Region: PRK00049 662598005324 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 662598005325 G1 box; other site 662598005326 GEF interaction site [polypeptide binding]; other site 662598005327 GTP/Mg2+ binding site [chemical binding]; other site 662598005328 Switch I region; other site 662598005329 G2 box; other site 662598005330 G3 box; other site 662598005331 Switch II region; other site 662598005332 G4 box; other site 662598005333 G5 box; other site 662598005334 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 662598005335 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 662598005336 Antibiotic Binding Site [chemical binding]; other site 662598005337 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 662598005338 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 662598005339 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598005340 S-adenosylmethionine binding site [chemical binding]; other site 662598005341 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 662598005342 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 662598005343 non-specific DNA binding site [nucleotide binding]; other site 662598005344 salt bridge; other site 662598005345 sequence-specific DNA binding site [nucleotide binding]; other site 662598005346 DNA topoisomerase I; Validated; Region: PRK06599 662598005347 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 662598005348 active site 662598005349 interdomain interaction site; other site 662598005350 putative metal-binding site [ion binding]; other site 662598005351 nucleotide binding site [chemical binding]; other site 662598005352 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 662598005353 domain I; other site 662598005354 DNA binding groove [nucleotide binding] 662598005355 phosphate binding site [ion binding]; other site 662598005356 domain II; other site 662598005357 domain III; other site 662598005358 nucleotide binding site [chemical binding]; other site 662598005359 catalytic site [active] 662598005360 domain IV; other site 662598005361 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 662598005362 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 662598005363 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 662598005364 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 662598005365 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Smg; COG2922 662598005366 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 662598005367 DNA protecting protein DprA; Region: dprA; TIGR00732 662598005368 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 662598005369 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 662598005370 active site 662598005371 phosphorylation site [posttranslational modification] 662598005372 intermolecular recognition site; other site 662598005373 dimerization interface [polypeptide binding]; other site 662598005374 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 662598005375 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 662598005376 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 662598005377 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 662598005378 dimerization interface [polypeptide binding]; other site 662598005379 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 662598005380 dimer interface [polypeptide binding]; other site 662598005381 phosphorylation site [posttranslational modification] 662598005382 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 662598005383 ATP binding site [chemical binding]; other site 662598005384 Mg2+ binding site [ion binding]; other site 662598005385 G-X-G motif; other site 662598005386 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 662598005387 16S rRNA methyltransferase B; Provisional; Region: PRK10901 662598005388 NusB family; Region: NusB; pfam01029 662598005389 putative RNA binding site [nucleotide binding]; other site 662598005390 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 662598005391 S-adenosylmethionine binding site [chemical binding]; other site 662598005392 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 662598005393 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 662598005394 putative active site [active] 662598005395 substrate binding site [chemical binding]; other site 662598005396 putative cosubstrate binding site; other site 662598005397 catalytic site [active] 662598005398 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 662598005399 substrate binding site [chemical binding]; other site 662598005400 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 662598005401 active site 662598005402 catalytic residues [active] 662598005403 metal binding site [ion binding]; metal-binding site 662598005404 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 662598005405 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 662598005406 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 662598005407 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 662598005408 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 662598005409 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 662598005410 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 662598005411 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 662598005412 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 662598005413 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 662598005414 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 662598005415 Coenzyme A binding pocket [chemical binding]; other site 662598005416 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 662598005417 putative active site [active] 662598005418 pyruvate kinase; Provisional; Region: PRK05826 662598005419 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 662598005420 domain interfaces; other site 662598005421 active site 662598005422 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 662598005423 cyanate hydratase; Validated; Region: PRK02866 662598005424 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 662598005425 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 662598005426 Fic family protein [Function unknown]; Region: COG3177 662598005427 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 662598005428 Fic/DOC family; Region: Fic; pfam02661 662598005429 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 662598005430 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 662598005431 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 662598005432 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 662598005433 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 662598005434 RNA binding site [nucleotide binding]; other site 662598005435 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 662598005436 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 662598005437 NAD binding site [chemical binding]; other site 662598005438 homodimer interface [polypeptide binding]; other site 662598005439 active site 662598005440 substrate binding site [chemical binding]; other site 662598005441 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 662598005442 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 662598005443 NAD binding site [chemical binding]; other site 662598005444 substrate binding site [chemical binding]; other site 662598005445 homodimer interface [polypeptide binding]; other site 662598005446 active site 662598005447 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 662598005448 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 662598005449 substrate binding site; other site 662598005450 tetramer interface; other site 662598005451 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 662598005452 Predicted membrane protein [Function unknown]; Region: COG1297 662598005453 putative oligopeptide transporter, OPT family; Region: TIGR00733 662598005454 chaperone protein DnaJ; Provisional; Region: PRK10767 662598005455 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 662598005456 HSP70 interaction site [polypeptide binding]; other site 662598005457 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 662598005458 substrate binding site [polypeptide binding]; other site 662598005459 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 662598005460 Zn binding sites [ion binding]; other site 662598005461 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 662598005462 dimer interface [polypeptide binding]; other site 662598005463 comEA protein; Region: comE; TIGR01259 662598005464 Helix-hairpin-helix motif; Region: HHH; pfam00633 662598005465 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 662598005466 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 662598005467 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 662598005468 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 662598005469 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 662598005470 catalytic residue [active] 662598005471 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 662598005472 SPOC domain; Region: SPOC; pfam07744 662598005473 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 662598005474 Walker A motif; other site 662598005475 ATP binding site [chemical binding]; other site 662598005476 Walker B motif; other site 662598005477 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 662598005478 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 662598005479 Walker A motif; other site 662598005480 ATP binding site [chemical binding]; other site 662598005481 Walker B motif; other site 662598005482 TIGR01666 family membrane protein; Region: YCCS 662598005483 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 662598005484 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 662598005485 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 662598005486 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 662598005487 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 662598005488 GIY-YIG motif/motif A; other site 662598005489 putative active site [active] 662598005490 putative metal binding site [ion binding]; other site 662598005491 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 662598005492 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 662598005493 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 662598005494 P loop; other site 662598005495 GTP binding site [chemical binding]; other site 662598005496 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 662598005497 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 662598005498 catalytic residues [active] 662598005499 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 662598005500 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 662598005501 Competence-damaged protein; Region: CinA; pfam02464 662598005502 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 662598005503 Conserved TM helix; Region: TM_helix; pfam05552 662598005504 Mechanosensitive ion channel; Region: MS_channel; pfam00924 662598005505 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 662598005506 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 662598005507 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 662598005508 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 662598005509 motif II; other site 662598005510 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 662598005511 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 662598005512 Substrate binding site; other site 662598005513 Mg++ binding site; other site 662598005514 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 662598005515 active site 662598005516 substrate binding site [chemical binding]; other site 662598005517 CoA binding site [chemical binding]; other site 662598005518 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 662598005519 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 662598005520 PhnA protein; Region: PhnA; pfam03831 662598005521 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 662598005522 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 662598005523 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 662598005524 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 662598005525 Imelysin; Region: Peptidase_M75; pfam09375 662598005526 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 662598005527 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 662598005528 MltA specific insert domain; Region: MltA; pfam03562 662598005529 3D domain; Region: 3D; pfam06725 662598005530 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 662598005531 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 662598005532 glutaminase active site [active] 662598005533 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 662598005534 dimer interface [polypeptide binding]; other site 662598005535 active site 662598005536 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 662598005537 dimer interface [polypeptide binding]; other site 662598005538 active site 662598005539 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 662598005540 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 662598005541 active site 662598005542 HIGH motif; other site 662598005543 KMSKS motif; other site 662598005544 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 662598005545 tRNA binding surface [nucleotide binding]; other site 662598005546 anticodon binding site; other site 662598005547 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 662598005548 dimer interface [polypeptide binding]; other site 662598005549 putative tRNA-binding site [nucleotide binding]; other site 662598005550 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 662598005551 glycerate dehydrogenase; Provisional; Region: PRK06487 662598005552 putative ligand binding site [chemical binding]; other site 662598005553 putative NAD binding site [chemical binding]; other site 662598005554 catalytic site [active] 662598005556 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 662598005557 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 662598005558 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 662598005559 Pilin (bacterial filament); Region: Pilin; pfam00114 662598005560 Pilin (bacterial filament); Region: Pilin; pfam00114 662598005561 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 662598005562 Pilin (bacterial filament); Region: Pilin; pfam00114 662598005563 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 662598005564 Pilin (bacterial filament); Region: Pilin; pfam00114 662598005565 Pilin (bacterial filament); Region: Pilin; pfam00114 662598005566 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 662598005567 Pilin (bacterial filament); Region: Pilin; pfam00114 662598005568 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 662598005569 Pilin (bacterial filament); Region: Pilin; pfam00114 662598005570 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 662598005571 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 662598005572 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331