-- dump date 20140619_093422 -- class Genbank::misc_feature -- table misc_feature_note -- id note 59374000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 59374000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 59374000003 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 59374000004 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 59374000005 Walker A motif; other site 59374000006 ATP binding site [chemical binding]; other site 59374000007 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 59374000008 DnaA box-binding interface [nucleotide binding]; other site 59374000009 Predicted amidohydrolase [General function prediction only]; Region: COG0388 59374000010 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 59374000011 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 59374000012 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 59374000013 Ligand Binding Site [chemical binding]; other site 59374000014 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 59374000015 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 59374000016 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 59374000017 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 59374000018 active site 59374000019 catalytic residues [active] 59374000020 metal binding site [ion binding]; metal-binding site 59374000021 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 59374000022 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 59374000023 histidinol dehydrogenase; Region: hisD; TIGR00069 59374000024 NAD binding site [chemical binding]; other site 59374000025 dimerization interface [polypeptide binding]; other site 59374000026 product binding site; other site 59374000027 substrate binding site [chemical binding]; other site 59374000028 zinc binding site [ion binding]; other site 59374000029 catalytic residues [active] 59374000030 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 59374000031 Colicin V production protein; Region: Colicin_V; pfam02674 59374000032 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374000033 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 59374000034 active site 59374000035 ATP binding site [chemical binding]; other site 59374000036 substrate binding site [chemical binding]; other site 59374000037 activation loop (A-loop); other site 59374000038 L-aspartate oxidase; Provisional; Region: PRK06175 59374000039 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 59374000040 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 59374000041 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 59374000042 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 59374000043 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 59374000044 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374000045 ligand binding site [chemical binding]; other site 59374000046 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 59374000047 S1 domain; Region: S1_2; pfam13509 59374000048 S1 domain; Region: S1_2; pfam13509 59374000049 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 59374000050 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000051 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000052 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 59374000053 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 59374000054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374000055 Walker A/P-loop; other site 59374000056 ATP binding site [chemical binding]; other site 59374000057 Q-loop/lid; other site 59374000058 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 59374000059 ABC transporter signature motif; other site 59374000060 Walker B; other site 59374000061 D-loop; other site 59374000062 ABC transporter; Region: ABC_tran_2; pfam12848 59374000063 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 59374000064 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 59374000065 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 59374000066 membrane-bound complex binding site; other site 59374000067 hinge residues; other site 59374000068 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 59374000069 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 59374000070 substrate binding pocket [chemical binding]; other site 59374000071 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 59374000072 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 59374000073 dimer interface [polypeptide binding]; other site 59374000074 conserved gate region; other site 59374000075 putative PBP binding loops; other site 59374000076 ABC-ATPase subunit interface; other site 59374000077 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 59374000078 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 59374000079 Walker A/P-loop; other site 59374000080 ATP binding site [chemical binding]; other site 59374000081 Q-loop/lid; other site 59374000082 ABC transporter signature motif; other site 59374000083 Walker B; other site 59374000084 D-loop; other site 59374000085 H-loop/switch region; other site 59374000086 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374000087 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 59374000088 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 59374000089 dihydropteroate synthase; Region: DHPS; TIGR01496 59374000090 substrate binding pocket [chemical binding]; other site 59374000091 dimer interface [polypeptide binding]; other site 59374000092 inhibitor binding site; inhibition site 59374000093 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 59374000094 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 59374000095 Walker A motif; other site 59374000096 ATP binding site [chemical binding]; other site 59374000097 Walker B motif; other site 59374000098 arginine finger; other site 59374000099 Peptidase family M41; Region: Peptidase_M41; pfam01434 59374000100 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 59374000101 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 59374000102 Ligand Binding Site [chemical binding]; other site 59374000103 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 59374000104 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 59374000105 S-adenosylmethionine synthetase; Validated; Region: PRK05250 59374000106 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 59374000107 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 59374000108 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 59374000109 Uncharacterized conserved protein [Function unknown]; Region: COG0327 59374000110 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 59374000111 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 59374000112 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374000113 Protein HOTHEAD; Region: PLN02785 59374000114 PhoH-like protein; Region: PhoH; pfam02562 59374000115 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 59374000116 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 59374000117 putative substrate translocation pore; other site 59374000118 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374000119 putative acyl-acceptor binding pocket; other site 59374000120 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 59374000121 acyl-activating enzyme (AAE) consensus motif; other site 59374000122 AMP binding site [chemical binding]; other site 59374000123 active site 59374000124 CoA binding site [chemical binding]; other site 59374000125 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 59374000126 Domain of unknown function (DUF303); Region: DUF303; pfam03629 59374000127 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 59374000128 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 59374000129 active site 59374000130 dimerization interface [polypeptide binding]; other site 59374000131 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 59374000132 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 59374000133 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 59374000134 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 59374000135 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 59374000136 Phosphopantetheine attachment site; Region: PP-binding; cl09936 59374000137 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 59374000138 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 59374000139 dimer interface [polypeptide binding]; other site 59374000140 active site 59374000141 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 59374000142 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 59374000143 active site 59374000144 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 59374000145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000146 NAD(P) binding site [chemical binding]; other site 59374000147 active site 59374000148 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 59374000149 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374000150 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 59374000151 putative acyl-acceptor binding pocket; other site 59374000152 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 59374000153 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 59374000154 active site 59374000155 nucleophile elbow; other site 59374000156 glutamate dehydrogenase; Provisional; Region: PRK09414 59374000157 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 59374000158 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 59374000159 NAD(P) binding site [chemical binding]; other site 59374000160 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 59374000161 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374000162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374000163 metal binding site [ion binding]; metal-binding site 59374000164 active site 59374000165 I-site; other site 59374000166 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 59374000167 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 59374000168 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 59374000169 active site 59374000170 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 59374000171 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 59374000172 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 59374000173 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374000174 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 59374000175 Uncharacterized conserved protein [Function unknown]; Region: COG4198 59374000176 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 59374000177 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 59374000178 GTP-binding protein LepA; Provisional; Region: PRK05433 59374000179 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 59374000180 G1 box; other site 59374000181 putative GEF interaction site [polypeptide binding]; other site 59374000182 GTP/Mg2+ binding site [chemical binding]; other site 59374000183 Switch I region; other site 59374000184 G2 box; other site 59374000185 G3 box; other site 59374000186 Switch II region; other site 59374000187 G4 box; other site 59374000188 G5 box; other site 59374000189 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 59374000190 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 59374000191 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 59374000192 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; cd00317 59374000193 active site 59374000194 Fn3 associated; Region: Fn3_assoc; pfam13287 59374000195 CotH protein; Region: CotH; pfam08757 59374000196 Methyltransferase domain; Region: Methyltransf_23; pfam13489 59374000197 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 59374000198 S-adenosylmethionine binding site [chemical binding]; other site 59374000199 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 59374000200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 59374000201 Uncharacterized conserved protein [Function unknown]; Region: COG2308 59374000202 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 59374000203 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 59374000204 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 59374000205 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 59374000206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 59374000207 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 59374000208 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 59374000209 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 59374000210 dimer interface [polypeptide binding]; other site 59374000211 anticodon binding site; other site 59374000212 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 59374000213 homodimer interface [polypeptide binding]; other site 59374000214 motif 1; other site 59374000215 active site 59374000216 motif 2; other site 59374000217 GAD domain; Region: GAD; pfam02938 59374000218 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 59374000219 active site 59374000220 motif 3; other site 59374000221 V-type ATP synthase subunit E; Provisional; Region: PRK01558 59374000222 V-type ATP synthase subunit A; Provisional; Region: PRK04192 59374000223 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 59374000224 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 59374000225 Walker A motif/ATP binding site; other site 59374000226 Walker B motif; other site 59374000227 V-type ATP synthase subunit B; Provisional; Region: PRK02118 59374000228 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 59374000229 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 59374000230 Walker A motif homologous position; other site 59374000231 Walker B motif; other site 59374000232 V-type ATP synthase subunit D; Provisional; Region: PRK02195 59374000233 V-type ATP synthase subunit I; Validated; Region: PRK05771 59374000234 V-type ATP synthase subunit K; Validated; Region: PRK06649 59374000235 V-type ATP synthase subunit K; Validated; Region: PRK06649 59374000236 ATP synthase subunit C; Region: ATP-synt_C; cl00466 59374000237 Phosphotransferase enzyme family; Region: APH; pfam01636 59374000238 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 59374000239 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 59374000240 active site 59374000241 phosphorylation site [posttranslational modification] 59374000242 Methylamine utilisation protein MauE; Region: MauE; pfam07291 59374000243 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 59374000244 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 59374000245 active site 59374000246 HIGH motif; other site 59374000247 KMSKS motif; other site 59374000248 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 59374000249 tRNA binding surface [nucleotide binding]; other site 59374000250 anticodon binding site; other site 59374000251 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 59374000252 putative tRNA-binding site [nucleotide binding]; other site 59374000253 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000254 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000255 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000256 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000257 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 59374000258 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000259 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 59374000260 FMN binding site [chemical binding]; other site 59374000261 dimer interface [polypeptide binding]; other site 59374000262 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 59374000263 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 59374000264 active site 59374000265 metal binding site [ion binding]; metal-binding site 59374000266 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 59374000267 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 59374000268 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 59374000269 tetramer interface [polypeptide binding]; other site 59374000270 active site 59374000271 Fibrobacter succinogenes paralogous family TIGR02172; Region: Fb_sc_TIGR02172 59374000272 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 59374000273 active site 59374000274 ATP binding site [chemical binding]; other site 59374000275 substrate binding site [chemical binding]; other site 59374000276 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 59374000277 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 59374000278 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 59374000279 ATP-grasp domain; Region: ATP-grasp_4; cl17255 59374000280 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 59374000281 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 59374000282 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 59374000283 ATP binding site [chemical binding]; other site 59374000284 putative Mg++ binding site [ion binding]; other site 59374000285 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 59374000286 nucleotide binding region [chemical binding]; other site 59374000287 ATP-binding site [chemical binding]; other site 59374000288 TRCF domain; Region: TRCF; pfam03461 59374000289 TatD related DNase; Region: TatD_DNase; pfam01026 59374000290 active site 59374000291 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000292 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000293 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 59374000294 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 59374000295 GatB domain; Region: GatB_Yqey; smart00845 59374000296 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 59374000297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374000298 DNA-binding site [nucleotide binding]; DNA binding site 59374000299 Transcriptional regulators [Transcription]; Region: PurR; COG1609 59374000300 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 59374000301 Glucose inhibited division protein A; Region: GIDA; pfam01134 59374000302 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 59374000303 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 59374000304 NifU-like domain; Region: NifU; cl00484 59374000305 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 59374000306 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 59374000307 ligand binding site; other site 59374000308 oligomer interface; other site 59374000309 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 59374000310 dimer interface [polypeptide binding]; other site 59374000311 N-terminal domain interface [polypeptide binding]; other site 59374000312 sulfate 1 binding site; other site 59374000313 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 59374000314 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 59374000315 S-adenosylmethionine binding site [chemical binding]; other site 59374000316 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 59374000317 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 59374000318 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 59374000319 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 59374000320 dimer interface [polypeptide binding]; other site 59374000321 PYR/PP interface [polypeptide binding]; other site 59374000322 TPP binding site [chemical binding]; other site 59374000323 substrate binding site [chemical binding]; other site 59374000324 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 59374000325 Domain of unknown function; Region: EKR; pfam10371 59374000326 4Fe-4S binding domain; Region: Fer4_6; pfam12837 59374000327 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 59374000328 TPP-binding site [chemical binding]; other site 59374000329 dimer interface [polypeptide binding]; other site 59374000330 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 59374000331 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000332 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; cl09108 59374000333 phosphate binding site [ion binding]; other site 59374000334 Glycosyl hydrolase family 43; Region: GH43_4; cd08983 59374000335 active site 59374000336 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 59374000337 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 59374000338 active site 59374000339 phosphorylation site [posttranslational modification] 59374000340 intermolecular recognition site; other site 59374000341 dimerization interface [polypeptide binding]; other site 59374000342 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374000343 Zn2+ binding site [ion binding]; other site 59374000344 Mg2+ binding site [ion binding]; other site 59374000345 PAS domain; Region: PAS_9; pfam13426 59374000346 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 59374000347 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 59374000348 dimer interface [polypeptide binding]; other site 59374000349 phosphorylation site [posttranslational modification] 59374000350 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 59374000351 ATP binding site [chemical binding]; other site 59374000352 Mg2+ binding site [ion binding]; other site 59374000353 G-X-G motif; other site 59374000354 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374000355 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 59374000356 active site 59374000357 phosphorylation site [posttranslational modification] 59374000358 intermolecular recognition site; other site 59374000359 dimerization interface [polypeptide binding]; other site 59374000360 Response regulator receiver domain; Region: Response_reg; pfam00072 59374000361 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 59374000362 active site 59374000363 phosphorylation site [posttranslational modification] 59374000364 intermolecular recognition site; other site 59374000365 dimerization interface [polypeptide binding]; other site 59374000366 Hpt domain; Region: Hpt; pfam01627 59374000367 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 59374000368 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 59374000369 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 59374000370 intersubunit interface [polypeptide binding]; other site 59374000371 active site 59374000372 zinc binding site [ion binding]; other site 59374000373 Na+ binding site [ion binding]; other site 59374000374 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 59374000375 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374000376 ligand binding site [chemical binding]; other site 59374000377 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 59374000378 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 59374000379 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 59374000380 active site 59374000381 Zn binding site [ion binding]; other site 59374000382 Predicted transcriptional regulators [Transcription]; Region: COG1695 59374000383 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 59374000384 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 59374000385 Glycoside hydrolase family 94 N-terminal-like domain of uncharacterized function; Region: GH94N_like_3; cd11750 59374000386 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 59374000387 PAS fold; Region: PAS; pfam00989 59374000388 prolyl-tRNA synthetase; Provisional; Region: PRK09194 59374000389 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 59374000390 dimer interface [polypeptide binding]; other site 59374000391 motif 1; other site 59374000392 active site 59374000393 motif 2; other site 59374000394 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 59374000395 putative deacylase active site [active] 59374000396 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 59374000397 active site 59374000398 motif 3; other site 59374000399 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 59374000400 anticodon binding site; other site 59374000401 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 59374000402 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 59374000403 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 59374000404 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 59374000405 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 59374000406 catalytic residues [active] 59374000407 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 59374000408 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 59374000409 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 59374000410 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 59374000411 thiS-thiF/thiG interaction site; other site 59374000412 thiamine biosynthesis protein ThiF, family 2; Region: thiF_fam2; TIGR02354 59374000413 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 59374000414 ATP binding site [chemical binding]; other site 59374000415 substrate interface [chemical binding]; other site 59374000416 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 59374000417 ThiS interaction site; other site 59374000418 putative active site [active] 59374000419 tetramer interface [polypeptide binding]; other site 59374000420 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 59374000421 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 59374000422 FeS/SAM binding site; other site 59374000423 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 59374000424 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374000425 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 59374000426 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 59374000427 thiamine phosphate binding site [chemical binding]; other site 59374000428 active site 59374000429 pyrophosphate binding site [ion binding]; other site 59374000430 Type III pantothenate kinase; Region: Pan_kinase; cl17198 59374000431 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 59374000432 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 59374000433 NAD(P) binding site [chemical binding]; other site 59374000434 homodimer interface [polypeptide binding]; other site 59374000435 substrate binding site [chemical binding]; other site 59374000436 active site 59374000437 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 59374000438 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 59374000439 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374000440 ligand binding site [chemical binding]; other site 59374000441 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 59374000442 Chain length determinant protein; Region: Wzz; pfam02706 59374000443 Chain length determinant protein; Region: Wzz; cl15801 59374000444 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 59374000445 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 59374000446 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 59374000447 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 59374000448 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374000449 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 59374000450 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 59374000451 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 59374000452 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 59374000453 HSP70 interaction site [polypeptide binding]; other site 59374000454 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 59374000455 Zn binding sites [ion binding]; other site 59374000456 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 59374000457 dimer interface [polypeptide binding]; other site 59374000458 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 59374000459 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 59374000460 nucleotide binding site [chemical binding]; other site 59374000461 NEF interaction site [polypeptide binding]; other site 59374000462 SBD interface [polypeptide binding]; other site 59374000463 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 59374000464 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 59374000465 RelB antitoxin; Region: RelB; cl01171 59374000466 PIN domain; Region: PIN_3; pfam13470 59374000467 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374000468 substrate binding site [chemical binding]; other site 59374000469 active site 59374000470 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374000471 metal binding site [ion binding]; metal-binding site 59374000472 ligand binding site [chemical binding]; other site 59374000473 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374000474 putative metal binding site [ion binding]; other site 59374000475 GrpE; Region: GrpE; pfam01025 59374000476 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 59374000477 dimer interface [polypeptide binding]; other site 59374000478 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 59374000479 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 59374000480 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374000481 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 59374000482 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 59374000483 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 59374000484 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 59374000485 FeS/SAM binding site; other site 59374000486 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 59374000487 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 59374000488 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 59374000489 catalytic site [active] 59374000490 subunit interface [polypeptide binding]; other site 59374000491 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 59374000492 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374000493 ATP-grasp domain; Region: ATP-grasp_4; cl17255 59374000494 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 59374000495 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374000496 ATP-grasp domain; Region: ATP-grasp_4; cl17255 59374000497 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 59374000498 IMP binding site; other site 59374000499 dimer interface [polypeptide binding]; other site 59374000500 interdomain contacts; other site 59374000501 partial ornithine binding site; other site 59374000502 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 59374000503 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000504 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374000505 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374000506 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 59374000507 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 59374000508 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 59374000509 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 59374000510 ATP binding site [chemical binding]; other site 59374000511 putative Mg++ binding site [ion binding]; other site 59374000512 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 59374000513 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 59374000514 nucleotide binding region [chemical binding]; other site 59374000515 ATP-binding site [chemical binding]; other site 59374000516 SprT homologues; Region: SprT; cl01182 59374000517 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 59374000518 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 59374000519 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 59374000520 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 59374000521 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 59374000522 active site 59374000523 substrate-binding site [chemical binding]; other site 59374000524 metal-binding site [ion binding] 59374000525 GTP binding site [chemical binding]; other site 59374000526 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 59374000527 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 59374000528 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 59374000529 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 59374000530 FeS/SAM binding site; other site 59374000531 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 59374000532 active site 59374000533 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 59374000534 Ligand Binding Site [chemical binding]; other site 59374000535 AAA domain; Region: AAA_26; pfam13500 59374000536 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 59374000537 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 59374000538 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 59374000539 substrate-cofactor binding pocket; other site 59374000540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000541 catalytic residue [active] 59374000542 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 59374000543 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374000544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374000545 metal binding site [ion binding]; metal-binding site 59374000546 active site 59374000547 I-site; other site 59374000548 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 59374000549 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 59374000550 inhibitor-cofactor binding pocket; inhibition site 59374000551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000552 catalytic residue [active] 59374000553 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 59374000554 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 59374000555 Serine hydrolase; Region: Ser_hydrolase; pfam06821 59374000556 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 59374000557 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 59374000558 active site 59374000559 catalytic residues [active] 59374000560 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 59374000561 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 59374000562 dimer interface [polypeptide binding]; other site 59374000563 ssDNA binding site [nucleotide binding]; other site 59374000564 tetramer (dimer of dimers) interface [polypeptide binding]; other site 59374000565 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 59374000566 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 59374000567 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 59374000568 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 59374000569 alanine racemase; Reviewed; Region: alr; PRK00053 59374000570 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 59374000571 active site 59374000572 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374000573 dimer interface [polypeptide binding]; other site 59374000574 substrate binding site [chemical binding]; other site 59374000575 catalytic residues [active] 59374000576 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 59374000577 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 59374000578 DNA binding site [nucleotide binding] 59374000579 active site 59374000580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000581 NAD(P) binding site [chemical binding]; other site 59374000582 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 59374000583 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 59374000584 active site 59374000585 ADP/pyrophosphate binding site [chemical binding]; other site 59374000586 dimerization interface [polypeptide binding]; other site 59374000587 allosteric effector site; other site 59374000588 fructose-1,6-bisphosphate binding site; other site 59374000589 peptide chain release factor 2; Validated; Region: prfB; PRK00578 59374000590 PCRF domain; Region: PCRF; pfam03462 59374000591 RF-1 domain; Region: RF-1; pfam00472 59374000592 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 59374000593 SurA N-terminal domain; Region: SurA_N_3; cl07813 59374000594 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 59374000595 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 59374000596 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 59374000597 putative active site; other site 59374000598 catalytic triad [active] 59374000599 putative dimer interface [polypeptide binding]; other site 59374000600 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 59374000601 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 59374000602 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 59374000603 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 59374000604 active site 59374000605 RNA/DNA hybrid binding site [nucleotide binding]; other site 59374000606 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 59374000607 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 59374000608 active site 59374000609 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 59374000610 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 59374000611 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 59374000612 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 59374000613 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 59374000614 multifunctional aminopeptidase A; Provisional; Region: PRK00913 59374000615 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 59374000616 interface (dimer of trimers) [polypeptide binding]; other site 59374000617 Substrate-binding/catalytic site; other site 59374000618 Zn-binding sites [ion binding]; other site 59374000619 GMP synthase; Reviewed; Region: guaA; PRK00074 59374000620 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 59374000621 AMP/PPi binding site [chemical binding]; other site 59374000622 candidate oxyanion hole; other site 59374000623 catalytic triad [active] 59374000624 potential glutamine specificity residues [chemical binding]; other site 59374000625 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 59374000626 ATP Binding subdomain [chemical binding]; other site 59374000627 Ligand Binding sites [chemical binding]; other site 59374000628 Dimerization subdomain; other site 59374000629 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 59374000630 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 59374000631 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 59374000632 dimer interface [polypeptide binding]; other site 59374000633 conserved gate region; other site 59374000634 putative PBP binding loops; other site 59374000635 ABC-ATPase subunit interface; other site 59374000636 dihydrodipicolinate reductase; Region: dapB_plant; TIGR02130 59374000637 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 59374000638 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 59374000639 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 59374000640 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 59374000641 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 59374000642 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 59374000643 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 59374000644 N-acetyl-D-glucosamine binding site [chemical binding]; other site 59374000645 catalytic residue [active] 59374000646 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 59374000647 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 59374000648 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 59374000649 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 59374000650 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 59374000651 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 59374000652 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374000653 ligand binding site [chemical binding]; other site 59374000654 molecular chaperone DnaK; Provisional; Region: PRK13410 59374000655 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 59374000656 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 59374000657 FeS/SAM binding site; other site 59374000658 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 59374000659 active site 59374000660 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 59374000661 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 59374000662 dimer interface [polypeptide binding]; other site 59374000663 active site 59374000664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000665 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 59374000666 NAD(P) binding site [chemical binding]; other site 59374000667 active site 59374000668 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 59374000669 active site 2 [active] 59374000670 active site 1 [active] 59374000671 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 59374000672 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 59374000673 active site 59374000674 Predicted exporter [General function prediction only]; Region: COG4258 59374000675 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 59374000676 active site 59374000677 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 59374000678 active sites [active] 59374000679 tetramer interface [polypeptide binding]; other site 59374000680 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 59374000681 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 59374000682 putative acyl-acceptor binding pocket; other site 59374000683 Predicted membrane protein [Function unknown]; Region: COG4648 59374000684 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 59374000685 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 59374000686 acyl-activating enzyme (AAE) consensus motif; other site 59374000687 AMP binding site [chemical binding]; other site 59374000688 active site 59374000689 CoA binding site [chemical binding]; other site 59374000690 acyl carrier protein; Provisional; Region: PRK05350 59374000691 Phosphopantetheine attachment site; Region: PP-binding; cl09936 59374000692 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 59374000693 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 59374000694 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 59374000695 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374000696 putative acyl-acceptor binding pocket; other site 59374000697 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 59374000698 argininosuccinate lyase; Provisional; Region: PRK00855 59374000699 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 59374000700 active sites [active] 59374000701 tetramer interface [polypeptide binding]; other site 59374000702 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374000703 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000704 hypothetical protein; Provisional; Region: PRK09040 59374000705 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374000706 ligand binding site [chemical binding]; other site 59374000707 Prominin; Region: Prominin; pfam05478 59374000708 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 59374000709 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 59374000710 nucleoside/Zn binding site; other site 59374000711 dimer interface [polypeptide binding]; other site 59374000712 catalytic motif [active] 59374000713 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 59374000714 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 59374000715 FeS/SAM binding site; other site 59374000716 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 59374000717 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 59374000718 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 59374000719 dimer interface [polypeptide binding]; other site 59374000720 active site 59374000721 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 59374000722 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 59374000723 acyl-activating enzyme (AAE) consensus motif; other site 59374000724 AMP binding site [chemical binding]; other site 59374000725 active site 59374000726 CoA binding site [chemical binding]; other site 59374000727 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 59374000728 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 59374000729 inhibitor-cofactor binding pocket; inhibition site 59374000730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000731 catalytic residue [active] 59374000732 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 59374000733 Mechanosensitive ion channel; Region: MS_channel; pfam00924 59374000734 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; cd00384 59374000735 dimer interface [polypeptide binding]; other site 59374000736 active site 59374000737 Schiff base residues; other site 59374000738 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 59374000739 putative active site [active] 59374000740 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 59374000741 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 59374000742 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 59374000743 active site 59374000744 SAM binding site [chemical binding]; other site 59374000745 homodimer interface [polypeptide binding]; other site 59374000746 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 59374000747 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 59374000748 active site 59374000749 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 59374000750 active site 59374000751 Zn binding site [ion binding]; other site 59374000752 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 59374000753 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; cl17708 59374000754 domain interfaces; other site 59374000755 active site 59374000756 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 59374000757 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 59374000758 tRNA; other site 59374000759 putative tRNA binding site [nucleotide binding]; other site 59374000760 putative NADP binding site [chemical binding]; other site 59374000761 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 59374000762 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 59374000763 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 59374000764 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 59374000765 FeS/SAM binding site; other site 59374000766 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 59374000767 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 59374000768 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 59374000769 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 59374000770 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 59374000771 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 59374000772 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374000773 catalytic residue [active] 59374000774 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 59374000775 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 59374000776 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 59374000777 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 59374000778 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 59374000779 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 59374000780 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 59374000781 putative catalytic cysteine [active] 59374000782 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 59374000783 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 59374000784 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 59374000785 ATP binding site [chemical binding]; other site 59374000786 putative Mg++ binding site [ion binding]; other site 59374000787 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 59374000788 nucleotide binding region [chemical binding]; other site 59374000789 ATP-binding site [chemical binding]; other site 59374000790 Restriction endonuclease; Region: Mrr_cat; pfam04471 59374000791 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 59374000792 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 59374000793 ligand binding site [chemical binding]; other site 59374000794 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 59374000795 glycyl-tRNA synthetase; Provisional; Region: PRK04173 59374000796 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 59374000797 motif 1; other site 59374000798 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 59374000799 active site 59374000800 motif 2; other site 59374000801 motif 3; other site 59374000802 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 59374000803 anticodon binding site; other site 59374000804 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 59374000805 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 59374000806 HflX GTPase family; Region: HflX; cd01878 59374000807 G1 box; other site 59374000808 GTP/Mg2+ binding site [chemical binding]; other site 59374000809 Switch I region; other site 59374000810 G2 box; other site 59374000811 G3 box; other site 59374000812 Switch II region; other site 59374000813 G4 box; other site 59374000814 G5 box; other site 59374000815 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 59374000816 tetramer interfaces [polypeptide binding]; other site 59374000817 binuclear metal-binding site [ion binding]; other site 59374000818 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 59374000819 Na2 binding site [ion binding]; other site 59374000820 putative substrate binding site 1 [chemical binding]; other site 59374000821 Na binding site 1 [ion binding]; other site 59374000822 putative substrate binding site 2 [chemical binding]; other site 59374000823 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 59374000824 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 59374000825 dimer interface [polypeptide binding]; other site 59374000826 active site 59374000827 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 59374000828 catalytic site [active] 59374000829 putative active site [active] 59374000830 putative substrate binding site [chemical binding]; other site 59374000831 dimer interface [polypeptide binding]; other site 59374000832 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 59374000833 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 59374000834 hypothetical protein; Provisional; Region: PRK13690 59374000835 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 59374000836 membrane-bound complex binding site; other site 59374000837 hinge residues; other site 59374000838 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 59374000839 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 59374000840 substrate binding pocket [chemical binding]; other site 59374000841 membrane-bound complex binding site; other site 59374000842 hinge residues; other site 59374000843 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 59374000844 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 59374000845 substrate binding pocket [chemical binding]; other site 59374000846 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374000847 Domain of unknown function (DUF4419); Region: DUF4419; pfam14388 59374000848 Domain of unknown function (DUF4419); Region: DUF4419; pfam14388 59374000849 Domain of unknown function (DUF4419); Region: DUF4419; pfam14388 59374000850 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 59374000851 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 59374000852 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 59374000853 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 59374000854 dimerization interface [polypeptide binding]; other site 59374000855 ATP binding site [chemical binding]; other site 59374000856 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 59374000857 dimerization interface [polypeptide binding]; other site 59374000858 ATP binding site [chemical binding]; other site 59374000859 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 59374000860 putative active site [active] 59374000861 catalytic triad [active] 59374000862 WxcM-like, C-terminal; Region: FdtA; pfam05523 59374000863 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 59374000864 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 59374000865 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 59374000866 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 59374000867 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 59374000868 Substrate binding site; other site 59374000869 metal-binding site 59374000870 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 59374000871 putative trimer interface [polypeptide binding]; other site 59374000872 putative CoA binding site [chemical binding]; other site 59374000873 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 59374000874 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 59374000875 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 59374000876 trimer interface [polypeptide binding]; other site 59374000877 active site 59374000878 UDP-GlcNAc binding site [chemical binding]; other site 59374000879 lipid binding site [chemical binding]; lipid-binding site 59374000880 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 59374000881 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 59374000882 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 59374000883 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 59374000884 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 59374000885 trimer interface [polypeptide binding]; other site 59374000886 putative metal binding site [ion binding]; other site 59374000887 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 59374000888 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 59374000889 NAD(P) binding site [chemical binding]; other site 59374000890 catalytic residues [active] 59374000891 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 59374000892 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 59374000893 putative active site [active] 59374000894 metal binding site [ion binding]; metal-binding site 59374000895 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 59374000896 active site 59374000897 glycogen branching enzyme; Provisional; Region: PRK05402 59374000898 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 59374000899 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 59374000900 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 59374000901 active site 59374000902 catalytic site [active] 59374000903 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 59374000904 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 59374000905 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 59374000906 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 59374000907 active site 59374000908 DNA binding site [nucleotide binding] 59374000909 Int/Topo IB signature motif; other site 59374000910 Carbohydrate binding domain (family 11); Region: CBM_11; pfam03425 59374000911 Carbohydrate binding domain (family 11); Region: CBM_11; pfam03425 59374000912 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 59374000913 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 59374000914 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 59374000915 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 59374000916 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 59374000917 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 59374000918 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 59374000919 hypothetical protein; Provisional; Region: PRK11820 59374000920 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 59374000921 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 59374000922 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 59374000923 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 59374000924 active site 59374000925 putative substrate binding pocket [chemical binding]; other site 59374000926 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 59374000927 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 59374000928 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 59374000929 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374000930 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 59374000931 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 59374000932 RNA binding surface [nucleotide binding]; other site 59374000933 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 59374000934 active site 59374000935 lipoprotein signal peptidase; Provisional; Region: PRK14787 59374000936 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 59374000937 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 59374000938 active site lid residues [active] 59374000939 substrate binding pocket [chemical binding]; other site 59374000940 catalytic residues [active] 59374000941 substrate-Mg2+ binding site; other site 59374000942 aspartate-rich region 1; other site 59374000943 aspartate-rich region 2; other site 59374000944 hypothetical protein; Provisional; Region: PHA02838 59374000945 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 59374000946 DnaA N-terminal domain; Region: DnaA_N; pfam11638 59374000947 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 59374000948 Walker A motif; other site 59374000949 ATP binding site [chemical binding]; other site 59374000950 Walker B motif; other site 59374000951 arginine finger; other site 59374000952 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 59374000953 DnaA box-binding interface [nucleotide binding]; other site 59374000954 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 59374000955 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 59374000956 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 59374000957 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 59374000958 Protein export membrane protein; Region: SecD_SecF; cl14618 59374000959 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 59374000960 trimer interface [polypeptide binding]; other site 59374000961 active site 59374000962 Peptidase family C25; Region: Peptidase_C25; pfam01364 59374000963 active site 59374000964 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 59374000965 RF-1 domain; Region: RF-1; cl17422 59374000966 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 59374000967 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 59374000968 G1 box; other site 59374000969 putative GEF interaction site [polypeptide binding]; other site 59374000970 GTP/Mg2+ binding site [chemical binding]; other site 59374000971 Switch I region; other site 59374000972 G2 box; other site 59374000973 G3 box; other site 59374000974 Switch II region; other site 59374000975 G4 box; other site 59374000976 G5 box; other site 59374000977 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 59374000978 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 59374000979 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 59374000980 substrate binding site [chemical binding]; other site 59374000981 dimer interface [polypeptide binding]; other site 59374000982 ATP binding site [chemical binding]; other site 59374000983 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374000984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374000985 metal binding site [ion binding]; metal-binding site 59374000986 active site 59374000987 I-site; other site 59374000988 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 59374000989 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 59374000990 folate binding site [chemical binding]; other site 59374000991 NADP+ binding site [chemical binding]; other site 59374000992 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 59374000993 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 59374000994 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374000995 active site 59374000996 metal binding site [ion binding]; metal-binding site 59374000997 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 59374000998 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 59374000999 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 59374001000 tetramer (dimer of dimers) interface [polypeptide binding]; other site 59374001001 active site 59374001002 dimer interface [polypeptide binding]; other site 59374001003 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 59374001004 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 59374001005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374001006 Zn2+ binding site [ion binding]; other site 59374001007 Mg2+ binding site [ion binding]; other site 59374001008 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001009 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001010 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001011 RelB antitoxin; Region: RelB; cl01171 59374001012 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 59374001013 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 59374001014 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 59374001015 Peptidase family U32; Region: Peptidase_U32; pfam01136 59374001016 Collagenase; Region: DUF3656; pfam12392 59374001017 Peptidase family U32; Region: Peptidase_U32; cl03113 59374001018 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 59374001019 binding surface 59374001020 TPR motif; other site 59374001021 TPR repeat; Region: TPR_11; pfam13414 59374001022 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 59374001023 binding surface 59374001024 TPR repeat; Region: TPR_11; pfam13414 59374001025 TPR motif; other site 59374001026 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 59374001027 binding surface 59374001028 TPR motif; other site 59374001029 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 59374001030 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 59374001031 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 59374001032 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 59374001033 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 59374001034 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 59374001035 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 59374001036 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 59374001037 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 59374001038 active site 59374001039 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 59374001040 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 59374001041 active site 59374001042 (T/H)XGH motif; other site 59374001043 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 59374001044 UbiA prenyltransferase family; Region: UbiA; pfam01040 59374001045 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 59374001046 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 59374001047 active site 59374001048 tetramer interface [polypeptide binding]; other site 59374001049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 59374001050 active site 59374001051 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374001052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374001053 NAD(P) binding site [chemical binding]; other site 59374001054 active site 59374001055 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 59374001056 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 59374001057 ATP-grasp domain; Region: ATP-grasp_4; cl17255 59374001058 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 59374001059 Glycoprotease family; Region: Peptidase_M22; pfam00814 59374001060 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 59374001061 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374001062 Coenzyme A binding pocket [chemical binding]; other site 59374001063 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374001064 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374001065 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 59374001066 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 59374001067 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 59374001068 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 59374001069 active site 59374001070 Substrate binding site; other site 59374001071 Mg++ binding site; other site 59374001072 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 59374001073 putative CoA binding site [chemical binding]; other site 59374001074 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 59374001075 oligomerisation interface [polypeptide binding]; other site 59374001076 mobile loop; other site 59374001077 roof hairpin; other site 59374001078 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 59374001079 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 59374001080 ring oligomerisation interface [polypeptide binding]; other site 59374001081 ATP/Mg binding site [chemical binding]; other site 59374001082 stacking interactions; other site 59374001083 hinge regions; other site 59374001084 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 59374001085 Transglycosylase; Region: Transgly; pfam00912 59374001086 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 59374001087 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 59374001088 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374001089 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 59374001090 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 59374001091 substrate binding site [chemical binding]; other site 59374001092 ligand binding site [chemical binding]; other site 59374001093 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 59374001094 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 59374001095 substrate binding site [chemical binding]; other site 59374001096 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 59374001097 DNA methylase; Region: N6_N4_Mtase; pfam01555 59374001098 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 59374001099 non-specific DNA binding site [nucleotide binding]; other site 59374001100 salt bridge; other site 59374001101 sequence-specific DNA binding site [nucleotide binding]; other site 59374001102 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 59374001103 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 59374001104 TPR motif; other site 59374001105 binding surface 59374001106 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 59374001107 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374001108 Coenzyme A binding pocket [chemical binding]; other site 59374001109 Bacterial PH domain; Region: DUF304; pfam03703 59374001110 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 59374001111 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 59374001112 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 59374001113 NYN domain; Region: NYN; pfam01936 59374001114 Uncharacterized conserved protein [Function unknown]; Region: COG1432 59374001115 putative metal binding site [ion binding]; other site 59374001116 OST-HTH/LOTUS domain; Region: OST-HTH; pfam12872 59374001117 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 59374001118 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 59374001119 Protein phosphatase 2C; Region: PP2C_2; pfam13672 59374001120 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 59374001121 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374001122 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 59374001123 active site 59374001124 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 59374001125 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 59374001126 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 59374001127 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 59374001128 inhibitor-cofactor binding pocket; inhibition site 59374001129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001130 catalytic residue [active] 59374001131 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374001132 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 59374001133 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 59374001134 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 59374001135 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 59374001136 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 59374001137 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 59374001138 catalytic residues [active] 59374001139 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 59374001140 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 59374001141 phosphate binding site [ion binding]; other site 59374001142 hypothetical protein; Provisional; Region: PRK07907 59374001143 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 59374001144 active site 59374001145 metal binding site [ion binding]; metal-binding site 59374001146 dimer interface [polypeptide binding]; other site 59374001147 NAD-dependent deacetylase; Provisional; Region: PRK00481 59374001148 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 59374001149 NAD+ binding site [chemical binding]; other site 59374001150 substrate binding site [chemical binding]; other site 59374001151 Zn binding site [ion binding]; other site 59374001152 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001153 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 59374001154 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 59374001155 Walker A/P-loop; other site 59374001156 ATP binding site [chemical binding]; other site 59374001157 Q-loop/lid; other site 59374001158 ABC transporter signature motif; other site 59374001159 Walker B; other site 59374001160 D-loop; other site 59374001161 H-loop/switch region; other site 59374001162 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 59374001163 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 59374001164 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 59374001165 dimer interface [polypeptide binding]; other site 59374001166 conserved gate region; other site 59374001167 putative PBP binding loops; other site 59374001168 ABC-ATPase subunit interface; other site 59374001169 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 59374001170 radical SAM enzyme, rSAM/lipoprotein system; Region: rSAM_w_lipo; TIGR04133 59374001171 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 59374001172 FeS/SAM binding site; other site 59374001173 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 59374001174 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 59374001175 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 59374001176 aspartate aminotransferase; Provisional; Region: PRK05764 59374001177 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 59374001178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001179 homodimer interface [polypeptide binding]; other site 59374001180 catalytic residue [active] 59374001181 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 59374001182 Catalytic domain of Protein Kinases; Region: PKc; cd00180 59374001183 active site 59374001184 ATP binding site [chemical binding]; other site 59374001185 substrate binding site [chemical binding]; other site 59374001186 activation loop (A-loop); other site 59374001187 hypothetical protein; Reviewed; Region: PRK12497 59374001188 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 59374001189 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 59374001190 TPR motif; other site 59374001191 binding surface 59374001192 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 59374001193 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 59374001194 active site 59374001195 metal binding site [ion binding]; metal-binding site 59374001196 homotetramer interface [polypeptide binding]; other site 59374001197 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 59374001198 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 59374001199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374001200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374001201 metal binding site [ion binding]; metal-binding site 59374001202 active site 59374001203 I-site; other site 59374001204 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 59374001205 Domain of unknown function DUF; Region: DUF204; pfam02659 59374001206 Domain of unknown function DUF; Region: DUF204; pfam02659 59374001207 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 59374001208 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 59374001209 nucleotide binding pocket [chemical binding]; other site 59374001210 K-X-D-G motif; other site 59374001211 catalytic site [active] 59374001212 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 59374001213 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 59374001214 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 59374001215 Dimer interface [polypeptide binding]; other site 59374001216 BRCT sequence motif; other site 59374001217 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374001218 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 59374001219 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 59374001220 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 59374001221 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 59374001222 RmuC family; Region: RmuC; pfam02646 59374001223 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 59374001224 metal ion-dependent adhesion site (MIDAS); other site 59374001225 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 59374001226 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374001227 active site 59374001228 ATP binding site [chemical binding]; other site 59374001229 substrate binding site [chemical binding]; other site 59374001230 activation loop (A-loop); other site 59374001231 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 59374001232 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 59374001233 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 59374001234 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 59374001235 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 59374001236 glutamine binding [chemical binding]; other site 59374001237 catalytic triad [active] 59374001238 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 59374001239 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 59374001240 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374001241 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 59374001242 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 59374001243 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 59374001244 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 59374001245 CRISPR repeat region, Nmeni subtype 59374001246 CRISPR spacer 59374001247 CRISPR spacer 59374001248 CRISPR spacer 59374001249 CRISPR spacer 59374001250 CRISPR spacer 59374001251 CRISPR spacer 59374001252 CRISPR spacer 59374001253 CRISPR spacer 59374001254 CRISPR spacer 59374001255 CRISPR spacer 59374001256 CRISPR spacer 59374001257 CRISPR spacer 59374001258 CRISPR spacer 59374001259 CRISPR spacer 59374001260 CRISPR spacer 59374001261 CRISPR spacer 59374001262 CRISPR spacer 59374001263 CRISPR spacer 59374001264 CRISPR spacer 59374001265 CRISPR spacer 59374001266 CRISPR spacer 59374001267 CRISPR spacer 59374001268 CRISPR spacer 59374001269 CRISPR spacer 59374001270 CRISPR spacer 59374001271 CRISPR spacer 59374001272 CRISPR spacer 59374001273 CRISPR spacer 59374001274 CRISPR spacer 59374001275 CRISPR spacer 59374001276 CRISPR spacer 59374001277 CRISPR spacer 59374001278 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 59374001279 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 59374001280 4Fe-4S binding domain; Region: Fer4; pfam00037 59374001281 4Fe-4S binding domain; Region: Fer4; pfam00037 59374001282 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 59374001283 L-aspartate oxidase; Provisional; Region: PRK06175 59374001284 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 59374001285 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 59374001286 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 59374001287 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 59374001288 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 59374001289 Active Sites [active] 59374001290 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 59374001291 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 59374001292 CysD dimerization site [polypeptide binding]; other site 59374001293 G1 box; other site 59374001294 putative GEF interaction site [polypeptide binding]; other site 59374001295 GTP/Mg2+ binding site [chemical binding]; other site 59374001296 Switch I region; other site 59374001297 G2 box; other site 59374001298 G3 box; other site 59374001299 Switch II region; other site 59374001300 G4 box; other site 59374001301 G5 box; other site 59374001302 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 59374001303 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 59374001304 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 59374001305 substrate binding pocket [chemical binding]; other site 59374001306 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 59374001307 membrane-bound complex binding site; other site 59374001308 hinge residues; other site 59374001309 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 59374001310 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 59374001311 dimer interface [polypeptide binding]; other site 59374001312 conserved gate region; other site 59374001313 putative PBP binding loops; other site 59374001314 ABC-ATPase subunit interface; other site 59374001315 sulfate transport protein; Provisional; Region: cysT; CHL00187 59374001316 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 59374001317 dimer interface [polypeptide binding]; other site 59374001318 conserved gate region; other site 59374001319 putative PBP binding loops; other site 59374001320 ABC-ATPase subunit interface; other site 59374001321 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 59374001322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374001323 Walker A/P-loop; other site 59374001324 ATP binding site [chemical binding]; other site 59374001325 Q-loop/lid; other site 59374001326 ABC transporter signature motif; other site 59374001327 Walker B; other site 59374001328 D-loop; other site 59374001329 H-loop/switch region; other site 59374001330 TOBE domain; Region: TOBE_2; pfam08402 59374001331 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 59374001332 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 59374001333 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 59374001334 homodimer interface [polypeptide binding]; other site 59374001335 substrate-cofactor binding pocket; other site 59374001336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001337 catalytic residue [active] 59374001338 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 59374001339 Cupin domain; Region: Cupin_2; pfam07883 59374001340 biotin synthase; Region: bioB; TIGR00433 59374001341 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 59374001342 FeS/SAM binding site; other site 59374001343 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 59374001344 LysE type translocator; Region: LysE; cl00565 59374001345 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 59374001346 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 59374001347 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 59374001348 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 59374001349 homodimer interface [polypeptide binding]; other site 59374001350 substrate-cofactor binding pocket; other site 59374001351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001352 catalytic residue [active] 59374001353 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 59374001354 CPxP motif; other site 59374001355 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 59374001356 thiS-thiF/thiG interaction site; other site 59374001357 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 59374001358 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 59374001359 ATP binding site [chemical binding]; other site 59374001360 substrate interface [chemical binding]; other site 59374001361 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 59374001362 MPN+ (JAMM) motif; other site 59374001363 Zinc-binding site [ion binding]; other site 59374001364 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 59374001365 MPN+ (JAMM) motif; other site 59374001366 Zinc-binding site [ion binding]; other site 59374001367 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 59374001368 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 59374001369 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 59374001370 ATP binding site [chemical binding]; other site 59374001371 substrate interface [chemical binding]; other site 59374001372 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 59374001373 active site residue [active] 59374001374 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 59374001375 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 59374001376 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374001377 catalytic residue [active] 59374001378 serine O-acetyltransferase; Region: cysE; TIGR01172 59374001379 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 59374001380 trimer interface [polypeptide binding]; other site 59374001381 active site 59374001382 substrate binding site [chemical binding]; other site 59374001383 CoA binding site [chemical binding]; other site 59374001384 Amb_all domain; Region: Amb_all; smart00656 59374001385 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 59374001386 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 59374001387 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 59374001388 active site 59374001389 ribulose/triose binding site [chemical binding]; other site 59374001390 phosphate binding site [ion binding]; other site 59374001391 substrate (anthranilate) binding pocket [chemical binding]; other site 59374001392 product (indole) binding pocket [chemical binding]; other site 59374001393 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 59374001394 active site 59374001395 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 59374001396 DHH family; Region: DHH; pfam01368 59374001397 DHHA2 domain; Region: DHHA2; pfam02833 59374001398 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 59374001399 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 59374001400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001401 catalytic residue [active] 59374001402 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 59374001403 substrate binding site [chemical binding]; other site 59374001404 active site 59374001405 catalytic residues [active] 59374001406 heterodimer interface [polypeptide binding]; other site 59374001407 aconitate hydratase; Validated; Region: PRK07229 59374001408 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 59374001409 substrate binding site [chemical binding]; other site 59374001410 ligand binding site [chemical binding]; other site 59374001411 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 59374001412 substrate binding site [chemical binding]; other site 59374001413 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374001414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374001415 metal binding site [ion binding]; metal-binding site 59374001416 active site 59374001417 I-site; other site 59374001418 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 59374001419 Na binding site [ion binding]; other site 59374001420 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 59374001421 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 59374001422 putative substrate translocation pore; other site 59374001423 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374001424 putative acyl-acceptor binding pocket; other site 59374001425 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 59374001426 acyl-activating enzyme (AAE) consensus motif; other site 59374001427 AMP binding site [chemical binding]; other site 59374001428 active site 59374001429 CoA binding site [chemical binding]; other site 59374001430 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_1; cd02199 59374001431 homotrimer interaction site [polypeptide binding]; other site 59374001432 putative active site [active] 59374001433 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 59374001434 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 59374001435 gamma-glutamyl kinase; Provisional; Region: PRK05429 59374001436 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 59374001437 nucleotide binding site [chemical binding]; other site 59374001438 homotetrameric interface [polypeptide binding]; other site 59374001439 putative phosphate binding site [ion binding]; other site 59374001440 putative allosteric binding site; other site 59374001441 PUA domain; Region: PUA; pfam01472 59374001442 ATP-dependent helicase HepA; Validated; Region: PRK04914 59374001443 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 59374001444 ATP binding site [chemical binding]; other site 59374001445 putative Mg++ binding site [ion binding]; other site 59374001446 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 59374001447 nucleotide binding region [chemical binding]; other site 59374001448 ATP-binding site [chemical binding]; other site 59374001449 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 59374001450 RDD family; Region: RDD; pfam06271 59374001451 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 59374001452 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 59374001453 hinge; other site 59374001454 active site 59374001455 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 59374001456 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 59374001457 Walker A/P-loop; other site 59374001458 ATP binding site [chemical binding]; other site 59374001459 Q-loop/lid; other site 59374001460 ABC transporter signature motif; other site 59374001461 Walker B; other site 59374001462 D-loop; other site 59374001463 H-loop/switch region; other site 59374001464 FecCD transport family; Region: FecCD; pfam01032 59374001465 dimer interface [polypeptide binding]; other site 59374001466 putative PBP binding regions; other site 59374001467 ABC-ATPase subunit interface; other site 59374001468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 59374001469 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 59374001470 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374001471 ligand binding site [chemical binding]; other site 59374001472 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 59374001473 TolB amino-terminal domain; Region: TolB_N; pfam04052 59374001474 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 59374001475 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 59374001476 TonB C terminal; Region: TonB_2; pfam13103 59374001477 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 59374001478 TolR protein; Region: tolR; TIGR02801 59374001479 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 59374001480 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 59374001481 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374001482 Endonuclease I; Region: Endonuclease_1; pfam04231 59374001483 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 59374001484 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 59374001485 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 59374001486 RNA binding surface [nucleotide binding]; other site 59374001487 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374001488 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374001489 DNA-binding site [nucleotide binding]; DNA binding site 59374001490 Transcriptional regulators [Transcription]; Region: PurR; COG1609 59374001491 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 59374001492 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 59374001493 ATP binding site [chemical binding]; other site 59374001494 active site 59374001495 substrate binding site [chemical binding]; other site 59374001496 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 59374001497 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 59374001498 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 59374001499 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 59374001500 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 59374001501 radical SAM enzyme, rSAM/lipoprotein system; Region: rSAM_w_lipo; TIGR04133 59374001502 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 59374001503 FeS/SAM binding site; other site 59374001504 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 59374001505 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 59374001506 Surface antigen; Region: Bac_surface_Ag; pfam01103 59374001507 cell surface protein SprA; Region: surface_SprA; TIGR04189 59374001508 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 59374001509 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 59374001510 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 59374001511 G1 box; other site 59374001512 GTP/Mg2+ binding site [chemical binding]; other site 59374001513 G2 box; other site 59374001514 Switch I region; other site 59374001515 G3 box; other site 59374001516 Switch II region; other site 59374001517 G4 box; other site 59374001518 G5 box; other site 59374001519 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 59374001520 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 59374001521 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 59374001522 inhibitor-cofactor binding pocket; inhibition site 59374001523 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001524 catalytic residue [active] 59374001525 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 59374001526 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 59374001527 DHH family; Region: DHH; pfam01368 59374001528 DHHA1 domain; Region: DHHA1; pfam02272 59374001529 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 59374001530 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 59374001531 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 59374001532 Mg++ binding site [ion binding]; other site 59374001533 putative catalytic motif [active] 59374001534 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374001535 active site 59374001536 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 59374001537 putative acyl-acceptor binding pocket; other site 59374001538 Smr domain; Region: Smr; pfam01713 59374001539 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 59374001540 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374001541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 59374001542 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001543 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 59374001544 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 59374001545 dimer interface [polypeptide binding]; other site 59374001546 active site 59374001547 metal binding site [ion binding]; metal-binding site 59374001548 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 59374001549 heterotetramer interface [polypeptide binding]; other site 59374001550 active site pocket [active] 59374001551 cleavage site 59374001552 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 59374001553 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 59374001554 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 59374001555 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 59374001556 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 59374001557 Secretin and TonB N terminus short domain; Region: STN; pfam07660 59374001558 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 59374001559 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 59374001560 Pilus assembly protein, PilP; Region: PilP; pfam04351 59374001561 Pilus assembly protein, PilO; Region: PilO; cl01234 59374001562 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 59374001563 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 59374001564 Competence protein A; Region: Competence_A; pfam11104 59374001565 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 59374001566 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 59374001567 PilZ domain; Region: PilZ; pfam07238 59374001568 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 59374001569 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 59374001570 active site 59374001571 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 59374001572 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 59374001573 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 59374001574 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 59374001575 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 59374001576 active site 59374001577 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; cd00317 59374001578 active site 59374001579 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 59374001580 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374001581 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 59374001582 putative active site [active] 59374001583 putative Zn binding site [ion binding]; other site 59374001584 Bacitracin resistance protein BacA; Region: BacA; pfam02673 59374001585 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 59374001586 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 59374001587 KilA-N domain; Region: KilA-N; pfam04383 59374001588 heat shock protein 90; Provisional; Region: PRK05218 59374001589 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 59374001590 ATP binding site [chemical binding]; other site 59374001591 Mg2+ binding site [ion binding]; other site 59374001592 G-X-G motif; other site 59374001593 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374001594 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374001595 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374001596 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 59374001597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374001598 DNA-binding site [nucleotide binding]; DNA binding site 59374001599 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 59374001600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001601 homodimer interface [polypeptide binding]; other site 59374001602 catalytic residue [active] 59374001603 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 59374001604 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 59374001605 active site 59374001606 multimer interface [polypeptide binding]; other site 59374001607 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 59374001608 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 59374001609 predicted active site [active] 59374001610 catalytic triad [active] 59374001611 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 59374001612 hypothetical protein; Provisional; Region: PRK13663 59374001613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 59374001614 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 59374001615 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 59374001616 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 59374001617 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 59374001618 active site 59374001619 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 59374001620 Part of AAA domain; Region: AAA_19; pfam13245 59374001621 Family description; Region: UvrD_C_2; pfam13538 59374001622 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 59374001623 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 59374001624 substrate binding site; other site 59374001625 dimer interface; other site 59374001626 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 59374001627 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 59374001628 putative tRNA-binding site [nucleotide binding]; other site 59374001629 B3/4 domain; Region: B3_4; pfam03483 59374001630 tRNA synthetase B5 domain; Region: B5; smart00874 59374001631 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 59374001632 dimer interface [polypeptide binding]; other site 59374001633 motif 1; other site 59374001634 motif 3; other site 59374001635 motif 2; other site 59374001636 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 59374001637 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 59374001638 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 59374001639 Walker A motif; other site 59374001640 ATP binding site [chemical binding]; other site 59374001641 Walker B motif; other site 59374001642 arginine finger; other site 59374001643 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 59374001644 hypothetical protein; Validated; Region: PRK00153 59374001645 Outer membrane efflux protein; Region: OEP; pfam02321 59374001646 Outer membrane efflux protein; Region: OEP; pfam02321 59374001647 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 59374001648 HlyD family secretion protein; Region: HlyD_3; pfam13437 59374001649 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 59374001650 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 59374001651 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 59374001652 Walker A motif; other site 59374001653 ATP binding site [chemical binding]; other site 59374001654 Walker B motif; other site 59374001655 DNA primase, catalytic core; Region: dnaG; TIGR01391 59374001656 CHC2 zinc finger; Region: zf-CHC2; cl17510 59374001657 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 59374001658 active site 59374001659 metal binding site [ion binding]; metal-binding site 59374001660 interdomain interaction site; other site 59374001661 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 59374001662 FAD binding domain; Region: FAD_binding_4; pfam01565 59374001663 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 59374001664 Predicted integral membrane protein [Function unknown]; Region: COG5652 59374001665 FecR protein; Region: FecR; pfam04773 59374001666 PUA domain; Region: PUA; cl00607 59374001667 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 59374001668 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 59374001669 putative RNA binding site [nucleotide binding]; other site 59374001670 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 59374001671 S-adenosylmethionine binding site [chemical binding]; other site 59374001672 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 59374001673 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 59374001674 N- and C-terminal domain interface [polypeptide binding]; other site 59374001675 active site 59374001676 MgATP binding site [chemical binding]; other site 59374001677 catalytic site [active] 59374001678 metal binding site [ion binding]; metal-binding site 59374001679 xylulose binding site [chemical binding]; other site 59374001680 putative homodimer interface [polypeptide binding]; other site 59374001681 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 59374001682 binding surface 59374001683 TPR repeat; Region: TPR_11; pfam13414 59374001684 TPR motif; other site 59374001685 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 59374001686 binding surface 59374001687 Tetratricopeptide repeat; Region: TPR_16; pfam13432 59374001688 TPR motif; other site 59374001689 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 59374001690 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001691 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001692 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 59374001693 putative DNA binding site [nucleotide binding]; other site 59374001694 dimerization interface [polypeptide binding]; other site 59374001695 putative Zn2+ binding site [ion binding]; other site 59374001696 Methyltransferase domain; Region: Methyltransf_23; pfam13489 59374001697 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 59374001698 S-adenosylmethionine binding site [chemical binding]; other site 59374001699 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 59374001700 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 59374001701 GIY-YIG motif/motif A; other site 59374001702 putative active site [active] 59374001703 putative metal binding site [ion binding]; other site 59374001704 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 59374001705 catalytic triad [active] 59374001706 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 59374001707 ketol-acid reductoisomerase; Validated; Region: PRK05225 59374001708 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 59374001709 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 59374001710 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 59374001711 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374001712 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001713 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 59374001714 active site 59374001715 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 59374001716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374001717 NAD(P) binding site [chemical binding]; other site 59374001718 active site 59374001719 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 59374001720 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 59374001721 non-specific DNA binding site [nucleotide binding]; other site 59374001722 salt bridge; other site 59374001723 sequence-specific DNA binding site [nucleotide binding]; other site 59374001724 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 59374001725 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 59374001726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374001727 Coenzyme A binding pocket [chemical binding]; other site 59374001728 Predicted membrane protein [Function unknown]; Region: COG4270 59374001729 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 59374001730 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 59374001731 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374001732 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 59374001733 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 59374001734 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 59374001735 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 59374001736 dimer interface [polypeptide binding]; other site 59374001737 active site 59374001738 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374001739 catalytic residues [active] 59374001740 substrate binding site [chemical binding]; other site 59374001741 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 59374001742 Fe-S metabolism associated domain; Region: SufE; cl00951 59374001743 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 59374001744 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 59374001745 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 59374001746 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374001747 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374001748 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374001749 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374001750 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 59374001751 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374001752 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 59374001753 DNA repair protein RadA; Provisional; Region: PRK11823 59374001754 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 59374001755 Walker A motif; other site 59374001756 ATP binding site [chemical binding]; other site 59374001757 Walker B motif; other site 59374001758 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 59374001759 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374001760 metal binding site [ion binding]; metal-binding site 59374001761 active site 59374001762 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 59374001763 Response regulator receiver domain; Region: Response_reg; pfam00072 59374001764 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 59374001765 active site 59374001766 phosphorylation site [posttranslational modification] 59374001767 intermolecular recognition site; other site 59374001768 dimerization interface [polypeptide binding]; other site 59374001769 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 59374001770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374001771 NAD(P) binding site [chemical binding]; other site 59374001772 active site 59374001773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374001774 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 59374001775 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 59374001776 sequence-specific DNA binding site [nucleotide binding]; other site 59374001777 salt bridge; other site 59374001778 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 59374001779 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 59374001780 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 59374001781 S-adenosylmethionine binding site [chemical binding]; other site 59374001782 hypothetical protein; Provisional; Region: PRK04233 59374001783 SEC-C motif; Region: SEC-C; pfam02810 59374001784 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 59374001785 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 59374001786 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374001787 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001788 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 59374001789 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 59374001790 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374001791 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 59374001792 GTP1/OBG; Region: GTP1_OBG; pfam01018 59374001793 Obg GTPase; Region: Obg; cd01898 59374001794 G1 box; other site 59374001795 GTP/Mg2+ binding site [chemical binding]; other site 59374001796 Switch I region; other site 59374001797 G2 box; other site 59374001798 G3 box; other site 59374001799 Switch II region; other site 59374001800 G4 box; other site 59374001801 G5 box; other site 59374001802 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 59374001803 IHF dimer interface [polypeptide binding]; other site 59374001804 IHF - DNA interface [nucleotide binding]; other site 59374001805 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 59374001806 SmpB-tmRNA interface; other site 59374001807 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 59374001808 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 59374001809 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 59374001810 active site 59374001811 metal binding site [ion binding]; metal-binding site 59374001812 hypothetical protein; Validated; Region: PRK00110 59374001813 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 59374001814 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 59374001815 active site 59374001816 substrate binding site [chemical binding]; other site 59374001817 metal binding site [ion binding]; metal-binding site 59374001818 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374001819 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 59374001820 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 59374001821 dimer interface [polypeptide binding]; other site 59374001822 active site 59374001823 catalytic residue [active] 59374001824 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 59374001825 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 59374001826 DNA gyrase subunit A; Validated; Region: PRK05560 59374001827 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 59374001828 CAP-like domain; other site 59374001829 active site 59374001830 primary dimer interface [polypeptide binding]; other site 59374001831 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374001832 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374001833 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374001834 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374001835 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374001836 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374001837 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 59374001838 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 59374001839 TIGR02147 family protein; Region: Fsuc_second 59374001840 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001841 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 59374001842 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 59374001843 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 59374001844 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 59374001845 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 59374001846 anti sigma factor interaction site; other site 59374001847 regulatory phosphorylation site [posttranslational modification]; other site 59374001848 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 59374001849 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; cl00075 59374001850 ATP binding site [chemical binding]; other site 59374001851 Mg2+ binding site [ion binding]; other site 59374001852 G-X-G motif; other site 59374001853 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 59374001854 putative active site [active] 59374001855 nucleotide binding site [chemical binding]; other site 59374001856 nudix motif; other site 59374001857 putative metal binding site [ion binding]; other site 59374001858 Lipopolysaccharide-assembly; Region: LptE; pfam04390 59374001859 PA14 domain; Region: PA14; cl08459 59374001860 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 59374001861 Phosphoglycerate kinase; Region: PGK; pfam00162 59374001862 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 59374001863 substrate binding site [chemical binding]; other site 59374001864 hinge regions; other site 59374001865 ADP binding site [chemical binding]; other site 59374001866 catalytic site [active] 59374001867 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 59374001868 homooctamer interface [polypeptide binding]; other site 59374001869 active site 59374001870 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 59374001871 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 59374001872 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 59374001873 Walker A motif; other site 59374001874 ATP binding site [chemical binding]; other site 59374001875 Walker B motif; other site 59374001876 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 59374001877 SpoVG; Region: SpoVG; cl00915 59374001878 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 59374001879 putative ligand binding site [chemical binding]; other site 59374001880 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 59374001881 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 59374001882 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 59374001883 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 59374001884 pseudouridine synthase; Region: TIGR00093 59374001885 active site 59374001886 fumarate hydratase; Provisional; Region: PRK15389 59374001887 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 59374001888 Fumarase C-terminus; Region: Fumerase_C; pfam05683 59374001889 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 59374001890 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374001891 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374001892 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374001893 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 59374001894 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 59374001895 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; cl17736 59374001896 active site 59374001897 phosphorylation site [posttranslational modification] 59374001898 intermolecular recognition site; other site 59374001899 dimerization interface [polypeptide binding]; other site 59374001900 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 59374001901 Walker A motif; other site 59374001902 ATP binding site [chemical binding]; other site 59374001903 Walker B motif; other site 59374001904 arginine finger; other site 59374001905 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 59374001906 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 59374001907 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 59374001908 putative RNA binding site [nucleotide binding]; other site 59374001909 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 59374001910 S-adenosylmethionine binding site [chemical binding]; other site 59374001911 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 59374001912 ATP cone domain; Region: ATP-cone; pfam03477 59374001913 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 59374001914 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 59374001915 TPP-binding site [chemical binding]; other site 59374001916 dimer interface [polypeptide binding]; other site 59374001917 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 59374001918 PYR/PP interface [polypeptide binding]; other site 59374001919 dimer interface [polypeptide binding]; other site 59374001920 TPP binding site [chemical binding]; other site 59374001921 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 59374001922 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 59374001923 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 59374001924 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 59374001925 Ligand binding site; other site 59374001926 Putative Catalytic site; other site 59374001927 DXD motif; other site 59374001928 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 59374001929 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 59374001930 catalytic site [active] 59374001931 G-X2-G-X-G-K; other site 59374001932 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 59374001933 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374001934 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374001935 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 59374001936 primosome assembly protein PriA; Validated; Region: PRK05580 59374001937 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 59374001938 ATP binding site [chemical binding]; other site 59374001939 putative Mg++ binding site [ion binding]; other site 59374001940 helicase superfamily c-terminal domain; Region: HELICc; smart00490 59374001941 HEAT repeats; Region: HEAT_2; pfam13646 59374001942 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 59374001943 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 59374001944 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 59374001945 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 59374001946 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 59374001947 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 59374001948 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 59374001949 Cna protein B-type domain; Region: Cna_B_2; pfam13715 59374001950 Predicted amidohydrolase [General function prediction only]; Region: COG0388 59374001951 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 59374001952 active site 59374001953 catalytic triad [active] 59374001954 dimer interface [polypeptide binding]; other site 59374001955 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 59374001956 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 59374001957 serine acetyltransferase; Provisional; Region: cysE; PRK11132 59374001958 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 59374001959 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 59374001960 trimer interface [polypeptide binding]; other site 59374001961 active site 59374001962 substrate binding site [chemical binding]; other site 59374001963 CoA binding site [chemical binding]; other site 59374001964 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 59374001965 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 59374001966 minor groove reading motif; other site 59374001967 helix-hairpin-helix signature motif; other site 59374001968 substrate binding pocket [chemical binding]; other site 59374001969 active site 59374001970 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 59374001971 TPR repeat; Region: TPR_11; pfam13414 59374001972 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 59374001973 binding surface 59374001974 TPR motif; other site 59374001975 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 59374001976 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374001977 active site 59374001978 HIGH motif; other site 59374001979 nucleotide binding site [chemical binding]; other site 59374001980 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 59374001981 KMSKS motif; other site 59374001982 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 59374001983 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 59374001984 EamA-like transporter family; Region: EamA; pfam00892 59374001985 EamA-like transporter family; Region: EamA; pfam00892 59374001986 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 59374001987 ThiC-associated domain; Region: ThiC-associated; pfam13667 59374001988 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 59374001989 ThiC family; Region: ThiC; pfam01964 59374001990 AAA domain; Region: AAA_25; pfam13481 59374001991 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 59374001992 Walker A motif; other site 59374001993 ATP binding site [chemical binding]; other site 59374001994 Walker B motif; other site 59374001995 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 59374001996 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 59374001997 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 59374001998 dimer interface [polypeptide binding]; other site 59374001999 phosphorylation site [posttranslational modification] 59374002000 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 59374002001 ATP binding site [chemical binding]; other site 59374002002 Mg2+ binding site [ion binding]; other site 59374002003 G-X-G motif; other site 59374002004 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 59374002005 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 59374002006 active site 59374002007 phosphorylation site [posttranslational modification] 59374002008 intermolecular recognition site; other site 59374002009 dimerization interface [polypeptide binding]; other site 59374002010 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 59374002011 DNA binding site [nucleotide binding] 59374002012 PQQ-like domain; Region: PQQ_2; pfam13360 59374002013 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 59374002014 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 59374002015 substrate binding site [chemical binding]; other site 59374002016 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 59374002017 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 59374002018 murein peptide amidase A; Provisional; Region: PRK10602 59374002019 active site 59374002020 Zn binding site [ion binding]; other site 59374002021 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 59374002022 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 59374002023 active site 59374002024 putative DNA-binding cleft [nucleotide binding]; other site 59374002025 dimer interface [polypeptide binding]; other site 59374002026 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 59374002027 CHC2 zinc finger; Region: zf-CHC2; cl17510 59374002028 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 59374002029 active site 59374002030 metal binding site [ion binding]; metal-binding site 59374002031 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374002032 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 59374002033 phosphoglycolate phosphatase; Provisional; Region: PRK13222 59374002034 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 59374002035 motif II; other site 59374002036 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 59374002037 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 59374002038 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374002039 catalytic residue [active] 59374002040 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 59374002041 Ligand Binding Site [chemical binding]; other site 59374002042 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 59374002043 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 59374002044 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 59374002045 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 59374002046 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 59374002047 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 59374002048 FeS/SAM binding site; other site 59374002049 TRAM domain; Region: TRAM; pfam01938 59374002050 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 59374002051 tetramerization interface [polypeptide binding]; other site 59374002052 active site 59374002053 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 59374002054 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 59374002055 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 59374002056 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 59374002057 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 59374002058 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 59374002059 active site 59374002060 HIGH motif; other site 59374002061 KMSK motif region; other site 59374002062 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 59374002063 tRNA binding surface [nucleotide binding]; other site 59374002064 anticodon binding site; other site 59374002065 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002066 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 59374002067 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 59374002068 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 59374002069 putative active site [active] 59374002070 putative substrate binding site [chemical binding]; other site 59374002071 putative cosubstrate binding site; other site 59374002072 catalytic site [active] 59374002073 Eukaryotic cytochrome b(561); Region: Cyt_b561; cl14616 59374002074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 59374002075 active site 59374002076 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 59374002077 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 59374002078 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 59374002079 ATP binding site [chemical binding]; other site 59374002080 Mg++ binding site [ion binding]; other site 59374002081 motif III; other site 59374002082 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 59374002083 nucleotide binding region [chemical binding]; other site 59374002084 ATP-binding site [chemical binding]; other site 59374002085 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 59374002086 active site 59374002087 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374002088 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 59374002089 elongation factor G; Reviewed; Region: PRK12740 59374002090 G1 box; other site 59374002091 putative GEF interaction site [polypeptide binding]; other site 59374002092 GTP/Mg2+ binding site [chemical binding]; other site 59374002093 Switch I region; other site 59374002094 G2 box; other site 59374002095 G3 box; other site 59374002096 Switch II region; other site 59374002097 G4 box; other site 59374002098 G5 box; other site 59374002099 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 59374002100 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 59374002101 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_C; cd04097 59374002102 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 59374002103 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 59374002104 homodimer interface [polypeptide binding]; other site 59374002105 metal binding site [ion binding]; metal-binding site 59374002106 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 59374002107 homodimer interface [polypeptide binding]; other site 59374002108 active site 59374002109 putative chemical substrate binding site [chemical binding]; other site 59374002110 metal binding site [ion binding]; metal-binding site 59374002111 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 59374002112 DNA protecting protein DprA; Region: dprA; TIGR00732 59374002113 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 59374002114 Septum formation initiator; Region: DivIC; pfam04977 59374002115 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 59374002116 Protein export membrane protein; Region: SecD_SecF; cl14618 59374002117 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 59374002118 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 59374002119 HlyD family secretion protein; Region: HlyD_3; pfam13437 59374002120 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 59374002121 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 59374002122 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 59374002123 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 59374002124 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 59374002125 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 59374002126 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374002127 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 59374002128 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 59374002129 active site 59374002130 HIGH motif; other site 59374002131 dimer interface [polypeptide binding]; other site 59374002132 KMSKS motif; other site 59374002133 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 59374002134 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 59374002135 catalytic site [active] 59374002136 putative active site [active] 59374002137 putative substrate binding site [chemical binding]; other site 59374002138 HRDC domain; Region: HRDC; pfam00570 59374002139 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 59374002140 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 59374002141 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 59374002142 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 59374002143 CotH protein; Region: CotH; pfam08757 59374002144 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374002145 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 59374002146 dimer interface [polypeptide binding]; other site 59374002147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002148 catalytic residue [active] 59374002149 TIGR02147 family protein; Region: Fsuc_second 59374002150 Rubrerythrin [Energy production and conversion]; Region: COG1592 59374002151 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 59374002152 binuclear metal center [ion binding]; other site 59374002153 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 59374002154 iron binding site [ion binding]; other site 59374002155 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 59374002156 arginine decarboxylase; Provisional; Region: PRK05354 59374002157 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 59374002158 dimer interface [polypeptide binding]; other site 59374002159 active site 59374002160 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374002161 catalytic residues [active] 59374002162 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 59374002163 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374002164 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 59374002165 Probable Catalytic site; other site 59374002166 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374002167 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 59374002168 Probable Catalytic site; other site 59374002169 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374002170 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374002171 active site 59374002172 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 59374002173 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 59374002174 putative NADH binding site [chemical binding]; other site 59374002175 putative active site [active] 59374002176 nudix motif; other site 59374002177 putative metal binding site [ion binding]; other site 59374002178 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 59374002179 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 59374002180 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 59374002181 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 59374002182 aspartoacylase; Provisional; Region: PRK02259 59374002183 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 59374002184 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 59374002185 Sulfatase; Region: Sulfatase; cl17466 59374002186 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 59374002187 Sulfatase; Region: Sulfatase; cl17466 59374002188 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 59374002189 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; cl00148 59374002190 CAP-like domain; other site 59374002191 active site 59374002192 primary dimer interface [polypeptide binding]; other site 59374002193 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 59374002194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374002195 Walker A/P-loop; other site 59374002196 ATP binding site [chemical binding]; other site 59374002197 Q-loop/lid; other site 59374002198 ABC transporter signature motif; other site 59374002199 Walker B; other site 59374002200 D-loop; other site 59374002201 H-loop/switch region; other site 59374002202 SurA N-terminal domain; Region: SurA_N; pfam09312 59374002203 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 59374002204 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 59374002205 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 59374002206 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374002207 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 59374002208 ATP binding site [chemical binding]; other site 59374002209 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 59374002210 putative Mg++ binding site [ion binding]; other site 59374002211 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 59374002212 nucleotide binding region [chemical binding]; other site 59374002213 ATP-binding site [chemical binding]; other site 59374002214 Helicase associated domain (HA2); Region: HA2; pfam04408 59374002215 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 59374002216 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 59374002217 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 59374002218 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 59374002219 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374002220 DNA primase; Validated; Region: dnaG; PRK05667 59374002221 CHC2 zinc finger; Region: zf-CHC2; pfam01807 59374002222 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 59374002223 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 59374002224 active site 59374002225 metal binding site [ion binding]; metal-binding site 59374002226 interdomain interaction site; other site 59374002227 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 59374002228 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 59374002229 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 59374002230 Walker A/P-loop; other site 59374002231 ATP binding site [chemical binding]; other site 59374002232 Q-loop/lid; other site 59374002233 ABC transporter signature motif; other site 59374002234 Walker B; other site 59374002235 D-loop; other site 59374002236 H-loop/switch region; other site 59374002237 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 59374002238 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 59374002239 putative transporter; Provisional; Region: PRK11660 59374002240 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 59374002241 Sulfate transporter family; Region: Sulfate_transp; pfam00916 59374002242 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 59374002243 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 59374002244 CPxP motif; other site 59374002245 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 59374002246 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 59374002247 DXD motif; other site 59374002248 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 59374002249 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 59374002250 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374002251 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 59374002252 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 59374002253 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 59374002254 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 59374002255 TIGR02147 family protein; Region: Fsuc_second 59374002256 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 59374002257 aspartate racemase; Region: asp_race; TIGR00035 59374002258 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 59374002259 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 59374002260 ATP binding site [chemical binding]; other site 59374002261 Mg2+ binding site [ion binding]; other site 59374002262 G-X-G motif; other site 59374002263 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 59374002264 ATP binding site [chemical binding]; other site 59374002265 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 59374002266 active site 59374002267 putative metal-binding site [ion binding]; other site 59374002268 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 59374002269 FOG: CBS domain [General function prediction only]; Region: COG0517 59374002270 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 59374002271 Transporter associated domain; Region: CorC_HlyC; smart01091 59374002272 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 59374002273 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 59374002274 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 59374002275 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 59374002276 putative metal binding residues [ion binding]; other site 59374002277 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 59374002278 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 59374002279 active site 59374002280 motif I; other site 59374002281 motif II; other site 59374002282 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 59374002283 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 59374002284 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 59374002285 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 59374002286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002287 ATP-grasp domain; Region: ATP-grasp; pfam02222 59374002288 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 59374002289 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002290 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002291 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002292 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002293 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002294 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002295 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002296 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002297 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002298 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 59374002299 cell division protein FtsZ; Validated; Region: PRK09330 59374002300 nucleotide binding site [chemical binding]; other site 59374002301 SulA interaction site; other site 59374002302 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 59374002303 Cell division protein FtsA; Region: FtsA; smart00842 59374002304 Cell division protein FtsA; Region: FtsA; pfam14450 59374002305 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 59374002306 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 59374002307 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 59374002308 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 59374002309 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374002310 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 59374002311 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 59374002312 active site 59374002313 homodimer interface [polypeptide binding]; other site 59374002314 cell division protein FtsW; Region: ftsW; TIGR02614 59374002315 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 59374002316 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 59374002317 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 59374002318 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374002319 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 59374002320 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 59374002321 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374002322 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 59374002323 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 59374002324 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 59374002325 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 59374002326 MraW methylase family; Region: Methyltransf_5; cl17771 59374002327 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 59374002328 cell division protein MraZ; Reviewed; Region: PRK00326 59374002329 MraZ protein; Region: MraZ; pfam02381 59374002330 MraZ protein; Region: MraZ; pfam02381 59374002331 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 59374002332 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 59374002333 catalytic residues [active] 59374002334 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 59374002335 FAD binding site [chemical binding]; other site 59374002336 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 59374002337 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 59374002338 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374002339 ligand binding site [chemical binding]; other site 59374002340 HD domain; Region: HD_4; pfam13328 59374002341 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 59374002342 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374002343 catalytic residue [active] 59374002344 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 59374002345 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 59374002346 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 59374002347 putative active site [active] 59374002348 dimerization interface [polypeptide binding]; other site 59374002349 putative tRNAtyr binding site [nucleotide binding]; other site 59374002350 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 59374002351 active site 59374002352 homodimer interface [polypeptide binding]; other site 59374002353 homotetramer interface [polypeptide binding]; other site 59374002354 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 59374002355 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 59374002356 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374002357 GTP-binding protein YchF; Reviewed; Region: PRK09601 59374002358 YchF GTPase; Region: YchF; cd01900 59374002359 G1 box; other site 59374002360 GTP/Mg2+ binding site [chemical binding]; other site 59374002361 Switch I region; other site 59374002362 G2 box; other site 59374002363 Switch II region; other site 59374002364 G3 box; other site 59374002365 G4 box; other site 59374002366 G5 box; other site 59374002367 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 59374002368 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374002369 Uncharacterized conserved protein [Function unknown]; Region: COG1262 59374002370 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 59374002371 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 59374002372 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 59374002373 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 59374002374 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 59374002375 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 59374002376 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 59374002377 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374002378 Walker A/P-loop; other site 59374002379 ATP binding site [chemical binding]; other site 59374002380 Q-loop/lid; other site 59374002381 ABC transporter signature motif; other site 59374002382 Walker B; other site 59374002383 D-loop; other site 59374002384 H-loop/switch region; other site 59374002385 TIGR02147 family protein; Region: Fsuc_second 59374002386 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 59374002387 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 59374002388 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 59374002389 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 59374002390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 59374002391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 59374002392 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 59374002393 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 59374002394 Chloramphenicol acetyltransferase; Region: CAT; cl02008 59374002395 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 59374002396 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 59374002397 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 59374002398 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 59374002399 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 59374002400 GAF domain; Region: GAF_3; pfam13492 59374002401 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 59374002402 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 59374002403 Walker A motif; other site 59374002404 ATP binding site [chemical binding]; other site 59374002405 Walker B motif; other site 59374002406 arginine finger; other site 59374002407 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 59374002408 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374002409 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 59374002410 active site 59374002411 ATP binding site [chemical binding]; other site 59374002412 substrate binding site [chemical binding]; other site 59374002413 activation loop (A-loop); other site 59374002414 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 59374002415 binding surface 59374002416 TPR motif; other site 59374002417 TPR repeat; Region: TPR_11; pfam13414 59374002418 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 59374002419 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 59374002420 nudix motif; other site 59374002421 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 59374002422 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 59374002423 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 59374002424 dimerization interface [polypeptide binding]; other site 59374002425 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374002426 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374002427 metal binding site [ion binding]; metal-binding site 59374002428 active site 59374002429 I-site; other site 59374002430 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 59374002431 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 59374002432 FMN binding site [chemical binding]; other site 59374002433 active site 59374002434 catalytic residues [active] 59374002435 substrate binding site [chemical binding]; other site 59374002436 ornithine carbamoyltransferase; Provisional; Region: PRK00779 59374002437 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 59374002438 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 59374002439 biotin synthase; Region: bioB; TIGR00433 59374002440 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 59374002441 FeS/SAM binding site; other site 59374002442 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 59374002443 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 59374002444 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cd04434 59374002445 active site 59374002446 zinc binding site [ion binding]; other site 59374002447 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374002448 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 59374002449 dimer interface [polypeptide binding]; other site 59374002450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002451 catalytic residue [active] 59374002452 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 59374002453 classical (c) SDRs; Region: SDR_c; cd05233 59374002454 NAD(P) binding site [chemical binding]; other site 59374002455 active site 59374002456 NlpC/P60 family; Region: NLPC_P60; pfam00877 59374002457 ribonuclease PH; Reviewed; Region: rph; PRK00173 59374002458 Ribonuclease PH; Region: RNase_PH_bact; cd11362 59374002459 hexamer interface [polypeptide binding]; other site 59374002460 active site 59374002461 TIGR02147 family protein; Region: Fsuc_second 59374002462 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 59374002463 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 59374002464 putative active site [active] 59374002465 oxyanion strand; other site 59374002466 catalytic triad [active] 59374002467 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 59374002468 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 59374002469 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002470 argininosuccinate synthase; Provisional; Region: PRK13820 59374002471 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 59374002472 ANP binding site [chemical binding]; other site 59374002473 Substrate Binding Site II [chemical binding]; other site 59374002474 Substrate Binding Site I [chemical binding]; other site 59374002475 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 59374002476 mce related protein; Region: MCE; pfam02470 59374002477 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 59374002478 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 59374002479 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 59374002480 generic binding surface II; other site 59374002481 ssDNA binding site; other site 59374002482 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 59374002483 ATP binding site [chemical binding]; other site 59374002484 putative Mg++ binding site [ion binding]; other site 59374002485 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 59374002486 nucleotide binding region [chemical binding]; other site 59374002487 ATP-binding site [chemical binding]; other site 59374002488 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 59374002489 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 59374002490 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 59374002491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374002492 Walker A/P-loop; other site 59374002493 ATP binding site [chemical binding]; other site 59374002494 Q-loop/lid; other site 59374002495 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 59374002496 ABC transporter; Region: ABC_tran_2; pfam12848 59374002497 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 59374002498 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 59374002499 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 59374002500 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 59374002501 trimer interface [polypeptide binding]; other site 59374002502 active site 59374002503 substrate binding site [chemical binding]; other site 59374002504 CoA binding site [chemical binding]; other site 59374002505 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 59374002506 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 59374002507 ATP binding site [chemical binding]; other site 59374002508 putative Mg++ binding site [ion binding]; other site 59374002509 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 59374002510 nucleotide binding region [chemical binding]; other site 59374002511 ATP-binding site [chemical binding]; other site 59374002512 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 59374002513 HRDC domain; Region: HRDC; pfam00570 59374002514 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 59374002515 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 59374002516 homodimer interface [polypeptide binding]; other site 59374002517 substrate-cofactor binding pocket; other site 59374002518 catalytic residue [active] 59374002519 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 59374002520 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 59374002521 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374002522 FIST N domain; Region: FIST; pfam08495 59374002523 FIST C domain; Region: FIST_C; pfam10442 59374002524 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374002525 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374002526 metal binding site [ion binding]; metal-binding site 59374002527 active site 59374002528 I-site; other site 59374002529 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374002530 Zn2+ binding site [ion binding]; other site 59374002531 Mg2+ binding site [ion binding]; other site 59374002532 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 59374002533 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 59374002534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002535 homodimer interface [polypeptide binding]; other site 59374002536 catalytic residue [active] 59374002537 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 59374002538 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 59374002539 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374002540 Zn2+ binding site [ion binding]; other site 59374002541 Mg2+ binding site [ion binding]; other site 59374002542 TIGR02147 family protein; Region: Fsuc_second 59374002543 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 59374002544 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 59374002545 FMN binding site [chemical binding]; other site 59374002546 active site 59374002547 catalytic residues [active] 59374002548 substrate binding site [chemical binding]; other site 59374002549 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 59374002550 IHF dimer interface [polypeptide binding]; other site 59374002551 IHF - DNA interface [nucleotide binding]; other site 59374002552 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 59374002553 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 59374002554 RNA binding surface [nucleotide binding]; other site 59374002555 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 59374002556 active site 59374002557 uracil binding [chemical binding]; other site 59374002558 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 59374002559 Outer membrane efflux protein; Region: OEP; pfam02321 59374002560 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 59374002561 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 59374002562 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 59374002563 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 59374002564 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 59374002565 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 59374002566 active site 59374002567 hydrophilic channel; other site 59374002568 dimerization interface [polypeptide binding]; other site 59374002569 catalytic residues [active] 59374002570 active site lid [active] 59374002571 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 59374002572 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 59374002573 dimerization interface 3.5A [polypeptide binding]; other site 59374002574 active site 59374002575 AAA ATPase domain; Region: AAA_15; pfam13175 59374002576 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374002577 Walker A/P-loop; other site 59374002578 ATP binding site [chemical binding]; other site 59374002579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374002580 Walker B; other site 59374002581 D-loop; other site 59374002582 H-loop/switch region; other site 59374002583 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 59374002584 active site 59374002585 metal binding site [ion binding]; metal-binding site 59374002586 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 59374002587 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 59374002588 TIGR02147 family protein; Region: Fsuc_second 59374002589 Pectic acid lyase; Region: Pec_lyase; pfam09492 59374002590 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374002591 Ca binding site [ion binding]; other site 59374002592 Ca binding site (active) [ion binding]; other site 59374002593 ligand binding site [chemical binding]; other site 59374002594 putative pectinesterase; Region: PLN02432; cl01911 59374002595 Pectinesterase; Region: Pectinesterase; pfam01095 59374002596 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374002597 Ca binding site [ion binding]; other site 59374002598 Ca binding site (active) [ion binding]; other site 59374002599 ligand binding site [chemical binding]; other site 59374002600 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374002601 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374002602 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 59374002603 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 59374002604 ATP binding site [chemical binding]; other site 59374002605 Mg2+ binding site [ion binding]; other site 59374002606 G-X-G motif; other site 59374002607 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 59374002608 ATP binding site [chemical binding]; other site 59374002609 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 59374002610 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 59374002611 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 59374002612 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 59374002613 PHP domain; Region: PHP; pfam02811 59374002614 active site 59374002615 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 59374002616 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 59374002617 generic binding surface I; other site 59374002618 generic binding surface II; other site 59374002619 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374002620 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 59374002621 Probable Catalytic site; other site 59374002622 metal-binding site 59374002623 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl17353 59374002624 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 59374002625 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 59374002626 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 59374002627 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 59374002628 glutamate racemase; Provisional; Region: PRK00865 59374002629 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 59374002630 Part of AAA domain; Region: AAA_19; pfam13245 59374002631 Family description; Region: UvrD_C_2; pfam13538 59374002632 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 59374002633 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 59374002634 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374002635 putative acyl-acceptor binding pocket; other site 59374002636 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 59374002637 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374002638 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 59374002639 Methyltransferase domain; Region: Methyltransf_31; pfam13847 59374002640 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 59374002641 S-adenosylmethionine binding site [chemical binding]; other site 59374002642 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 59374002643 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 59374002644 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374002645 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 59374002646 DNA binding residues [nucleotide binding] 59374002647 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 59374002648 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 59374002649 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 59374002650 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374002651 active site 59374002652 HIGH motif; other site 59374002653 nucleotide binding site [chemical binding]; other site 59374002654 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 59374002655 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 59374002656 active site 59374002657 KMSKS motif; other site 59374002658 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 59374002659 tRNA binding surface [nucleotide binding]; other site 59374002660 anticodon binding site; other site 59374002661 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 59374002662 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002663 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002664 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002665 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002666 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002667 amidophosphoribosyltransferase; Provisional; Region: PRK05793 59374002668 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 59374002669 active site 59374002670 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 59374002671 active site 59374002672 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 59374002673 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374002674 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 59374002675 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374002676 active site 59374002677 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 59374002678 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374002679 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 59374002680 Probable Catalytic site; other site 59374002681 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 59374002682 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 59374002683 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 59374002684 Uncharacterized conserved protein [Function unknown]; Region: COG1543 59374002685 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 59374002686 active site 59374002687 substrate binding site [chemical binding]; other site 59374002688 catalytic site [active] 59374002689 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 59374002690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 59374002691 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 59374002692 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 59374002693 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 59374002694 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 59374002695 homodimer interface [polypeptide binding]; other site 59374002696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002697 catalytic residue [active] 59374002698 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 59374002699 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 59374002700 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 59374002701 M6 family metalloprotease domain; Region: M6dom_TIGR03296 59374002702 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 59374002703 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 59374002704 trmE is a tRNA modification GTPase; Region: trmE; cd04164 59374002705 G1 box; other site 59374002706 GTP/Mg2+ binding site [chemical binding]; other site 59374002707 Switch I region; other site 59374002708 G2 box; other site 59374002709 Switch II region; other site 59374002710 G3 box; other site 59374002711 G4 box; other site 59374002712 G5 box; other site 59374002713 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 59374002714 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 59374002715 Ca binding site [ion binding]; other site 59374002716 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 59374002717 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374002718 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 59374002719 putative metal binding site [ion binding]; other site 59374002720 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 59374002721 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374002722 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 59374002723 active site 59374002724 catalytic site [active] 59374002725 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 59374002726 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 59374002727 active site 59374002728 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 59374002729 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 59374002730 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 59374002731 Predicted transcriptional regulator [Transcription]; Region: COG2378 59374002732 WYL domain; Region: WYL; pfam13280 59374002733 BON domain; Region: BON; pfam04972 59374002734 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 59374002735 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 59374002736 HIGH motif; other site 59374002737 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 59374002738 active site 59374002739 KMSKS motif; other site 59374002740 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 59374002741 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 59374002742 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 59374002743 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 59374002744 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 59374002745 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 59374002746 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 59374002747 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 59374002748 Walker A/P-loop; other site 59374002749 ATP binding site [chemical binding]; other site 59374002750 Q-loop/lid; other site 59374002751 ABC transporter signature motif; other site 59374002752 Walker B; other site 59374002753 D-loop; other site 59374002754 H-loop/switch region; other site 59374002755 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 59374002756 Permease; Region: Permease; pfam02405 59374002757 replicative DNA helicase; Region: DnaB; TIGR00665 59374002758 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 59374002759 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 59374002760 Walker A motif; other site 59374002761 ATP binding site [chemical binding]; other site 59374002762 Walker B motif; other site 59374002763 DNA binding loops [nucleotide binding] 59374002764 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 59374002765 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 59374002766 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374002767 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 59374002768 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 59374002769 RNA binding site [nucleotide binding]; other site 59374002770 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 59374002771 RNA binding site [nucleotide binding]; other site 59374002772 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 59374002773 RNA binding site [nucleotide binding]; other site 59374002774 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 59374002775 RNA binding site [nucleotide binding]; other site 59374002776 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 59374002777 RNA binding site [nucleotide binding]; other site 59374002778 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 59374002779 RNA binding site [nucleotide binding]; other site 59374002780 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 59374002781 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 59374002782 Cystatin-like domain; Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains; Region: CY; cl09238 59374002783 putative proteinase inhibition site; other site 59374002784 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 59374002785 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374002786 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 59374002787 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 59374002788 catalytic residues [active] 59374002789 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 59374002790 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 59374002791 putative switch regulator; other site 59374002792 non-specific DNA interactions [nucleotide binding]; other site 59374002793 DNA binding site [nucleotide binding] 59374002794 sequence specific DNA binding site [nucleotide binding]; other site 59374002795 putative cAMP binding site [chemical binding]; other site 59374002796 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 59374002797 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 59374002798 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 59374002799 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374002800 active site 59374002801 HIGH motif; other site 59374002802 nucleotide binding site [chemical binding]; other site 59374002803 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374002804 active site 59374002805 KMSKS motif; other site 59374002806 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 59374002807 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 59374002808 Predicted membrane protein [Function unknown]; Region: COG4763 59374002809 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374002810 excinuclease ABC subunit B; Provisional; Region: PRK05298 59374002811 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 59374002812 ATP binding site [chemical binding]; other site 59374002813 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 59374002814 nucleotide binding region [chemical binding]; other site 59374002815 ATP-binding site [chemical binding]; other site 59374002816 Ultra-violet resistance protein B; Region: UvrB; pfam12344 59374002817 UvrB/uvrC motif; Region: UVR; pfam02151 59374002818 phosphoglyceromutase; Provisional; Region: PRK05434 59374002819 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 59374002820 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 59374002821 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374002822 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 59374002823 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 59374002824 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 59374002825 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 59374002826 dimer interface [polypeptide binding]; other site 59374002827 motif 1; other site 59374002828 active site 59374002829 motif 2; other site 59374002830 motif 3; other site 59374002831 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 59374002832 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 59374002833 Substrate binding site; other site 59374002834 Cupin domain; Region: Cupin_2; cl17218 59374002835 polysaccharide export protein Wza; Provisional; Region: PRK15078 59374002836 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 59374002837 SLBB domain; Region: SLBB; pfam10531 59374002838 SLBB domain; Region: SLBB; pfam10531 59374002839 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 59374002840 Low molecular weight phosphatase family; Region: LMWPc; cd00115 59374002841 active site 59374002842 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 59374002843 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 59374002844 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 59374002845 NAD binding site [chemical binding]; other site 59374002846 substrate binding site [chemical binding]; other site 59374002847 homodimer interface [polypeptide binding]; other site 59374002848 active site 59374002849 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 59374002850 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 59374002851 substrate binding site; other site 59374002852 tetramer interface; other site 59374002853 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 59374002854 ATP binding site [chemical binding]; other site 59374002855 putative Mg++ binding site [ion binding]; other site 59374002856 helicase superfamily c-terminal domain; Region: HELICc; smart00490 59374002857 nucleotide binding region [chemical binding]; other site 59374002858 ATP-binding site [chemical binding]; other site 59374002859 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 59374002860 Predicted permease; Region: DUF318; cl17795 59374002861 Predicted permease; Region: DUF318; cl17795 59374002862 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 59374002863 metal-binding site [ion binding] 59374002864 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 59374002865 dimerization interface [polypeptide binding]; other site 59374002866 putative DNA binding site [nucleotide binding]; other site 59374002867 putative Zn2+ binding site [ion binding]; other site 59374002868 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 59374002869 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 59374002870 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 59374002871 putative substrate binding site [chemical binding]; other site 59374002872 putative ATP binding site [chemical binding]; other site 59374002873 DNA polymerase I; Provisional; Region: PRK05755 59374002874 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 59374002875 active site 59374002876 metal binding site 1 [ion binding]; metal-binding site 59374002877 putative 5' ssDNA interaction site; other site 59374002878 metal binding site 3; metal-binding site 59374002879 metal binding site 2 [ion binding]; metal-binding site 59374002880 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 59374002881 putative DNA binding site [nucleotide binding]; other site 59374002882 putative metal binding site [ion binding]; other site 59374002883 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 59374002884 active site 59374002885 catalytic site [active] 59374002886 substrate binding site [chemical binding]; other site 59374002887 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 59374002888 active site 59374002889 DNA binding site [nucleotide binding] 59374002890 catalytic site [active] 59374002891 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374002892 TIGR02147 family protein; Region: Fsuc_second 59374002893 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 59374002894 Malic enzyme, N-terminal domain; Region: malic; pfam00390 59374002895 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 59374002896 putative NAD(P) binding site [chemical binding]; other site 59374002897 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 59374002898 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 59374002899 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 59374002900 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 59374002901 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 59374002902 23S rRNA binding site [nucleotide binding]; other site 59374002903 L21 binding site [polypeptide binding]; other site 59374002904 L13 binding site [polypeptide binding]; other site 59374002905 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 59374002906 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 59374002907 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 59374002908 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 59374002909 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 59374002910 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 59374002911 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 59374002912 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 59374002913 S-adenosylmethionine binding site [chemical binding]; other site 59374002914 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374002915 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374002916 Major Facilitator Superfamily; Region: MFS_1; pfam07690 59374002917 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 59374002918 putative substrate translocation pore; other site 59374002919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374002920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374002921 metal binding site [ion binding]; metal-binding site 59374002922 active site 59374002923 I-site; other site 59374002924 TIGR02147 family protein; Region: Fsuc_second 59374002925 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 59374002926 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374002927 Walker A motif; other site 59374002928 ATP binding site [chemical binding]; other site 59374002929 Walker B motif; other site 59374002930 arginine finger; other site 59374002931 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 59374002932 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374002933 Walker A motif; other site 59374002934 ATP binding site [chemical binding]; other site 59374002935 Walker B motif; other site 59374002936 arginine finger; other site 59374002937 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002938 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002939 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002940 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002941 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002942 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002943 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374002944 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 59374002945 DNA protecting protein DprA; Region: dprA; TIGR00732 59374002946 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 59374002947 Family description; Region: VCBS; pfam13517 59374002948 Family description; Region: VCBS; pfam13517 59374002949 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 59374002950 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 59374002951 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 59374002952 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 59374002953 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 59374002954 Family description; Region: VCBS; pfam13517 59374002955 Family description; Region: VCBS; pfam13517 59374002956 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 59374002957 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 59374002958 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 59374002959 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 59374002960 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 59374002961 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 59374002962 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 59374002963 hypothetical protein; Provisional; Region: PRK07208 59374002964 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 59374002965 Predicted membrane protein [Function unknown]; Region: COG2246 59374002966 GtrA-like protein; Region: GtrA; pfam04138 59374002967 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 59374002968 active site 59374002969 catalytic residues [active] 59374002970 TIGR02147 family protein; Region: Fsuc_second 59374002971 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 59374002972 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374002973 ATP-grasp domain; Region: ATP-grasp_4; cl17255 59374002974 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 59374002975 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374002976 ATP-grasp domain; Region: ATP-grasp_4; cl17255 59374002977 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 59374002978 IMP binding site; other site 59374002979 dimer interface [polypeptide binding]; other site 59374002980 interdomain contacts; other site 59374002981 partial ornithine binding site; other site 59374002982 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 59374002983 IHF - DNA interface [nucleotide binding]; other site 59374002984 IHF dimer interface [polypeptide binding]; other site 59374002985 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 59374002986 Domain of unknown function DUF20; Region: UPF0118; pfam01594 59374002987 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002988 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002989 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 59374002990 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374002991 ligand binding site [chemical binding]; other site 59374002992 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 59374002993 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 59374002994 active site 59374002995 catalytic residues [active] 59374002996 metal binding site [ion binding]; metal-binding site 59374002997 homodimer binding site [polypeptide binding]; other site 59374002998 tetrathionate reductase subunit A; Provisional; Region: PRK14991 59374002999 Histidine kinase; Region: His_kinase; pfam06580 59374003000 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 59374003001 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 59374003002 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374003003 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 59374003004 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 59374003005 DNA binding residues [nucleotide binding] 59374003006 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 59374003007 C-terminal peptidase (prc); Region: prc; TIGR00225 59374003008 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 59374003009 protein binding site [polypeptide binding]; other site 59374003010 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 59374003011 Catalytic dyad [active] 59374003012 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 59374003013 Permease; Region: Permease; pfam02405 59374003014 Protein of unknown function (DUF721); Region: DUF721; pfam05258 59374003015 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 59374003016 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 59374003017 substrate binding pocket [chemical binding]; other site 59374003018 chain length determination region; other site 59374003019 substrate-Mg2+ binding site; other site 59374003020 catalytic residues [active] 59374003021 aspartate-rich region 1; other site 59374003022 active site lid residues [active] 59374003023 aspartate-rich region 2; other site 59374003024 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 59374003025 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 59374003026 oligomer interface [polypeptide binding]; other site 59374003027 Cl binding site [ion binding]; other site 59374003028 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 59374003029 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 59374003030 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 59374003031 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 59374003032 Protein export membrane protein; Region: SecD_SecF; pfam02355 59374003033 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 59374003034 active site 59374003035 homodimer interface [polypeptide binding]; other site 59374003036 catalytic site [active] 59374003037 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 59374003038 Oxygen tolerance; Region: BatD; pfam13584 59374003039 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 59374003040 TPR motif; other site 59374003041 binding surface 59374003042 TPR repeat; Region: TPR_11; pfam13414 59374003043 Herpesvirus glycoprotein M; Region: Herpes_glycop; cl17339 59374003044 Bacterial SH3 domain homologues; Region: SH3b; smart00287 59374003045 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 59374003046 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 59374003047 Ligand Binding Site [chemical binding]; other site 59374003048 cell surface protein SprA; Region: surface_SprA; TIGR04189 59374003049 Motility related/secretion protein; Region: SprA_N; pfam14349 59374003050 Motility related/secretion protein; Region: SprA_N; pfam14349 59374003051 AIPR protein; Region: AIPR; pfam10592 59374003052 Leucine rich repeat; Region: LRR_8; pfam13855 59374003053 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 59374003054 Leucine rich repeat; Region: LRR_8; pfam13855 59374003055 C-terminal peptidase (prc); Region: prc; TIGR00225 59374003056 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 59374003057 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 59374003058 Active site serine [active] 59374003059 PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal)...; Region: PDZ_signaling; cd00992 59374003060 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 59374003061 Active site serine [active] 59374003062 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 59374003063 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374003064 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 59374003065 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 59374003066 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 59374003067 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 59374003068 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 59374003069 glutaminase active site [active] 59374003070 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 59374003071 dimer interface [polypeptide binding]; other site 59374003072 active site 59374003073 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 59374003074 dimer interface [polypeptide binding]; other site 59374003075 active site 59374003076 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 59374003077 active site 59374003078 substrate binding site [chemical binding]; other site 59374003079 catalytic site [active] 59374003080 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374003081 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 59374003082 ATP binding site [chemical binding]; other site 59374003083 putative Mg++ binding site [ion binding]; other site 59374003084 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 59374003085 nucleotide binding region [chemical binding]; other site 59374003086 ATP-binding site [chemical binding]; other site 59374003087 Part of AAA domain; Region: AAA_19; pfam13245 59374003088 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 59374003089 Family description; Region: UvrD_C_2; pfam13538 59374003090 ORF6N domain; Region: ORF6N; pfam10543 59374003091 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 59374003092 putative active site [active] 59374003093 catalytic site [active] 59374003094 ScpA/B protein; Region: ScpA_ScpB; cl00598 59374003095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374003096 Coenzyme A binding pocket [chemical binding]; other site 59374003097 Fibrobacter succinogenes paralogous family TIGR02172; Region: Fb_sc_TIGR02172 59374003098 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 59374003099 Fibrobacter succinogenes paralogous family TIGR02172; Region: Fb_sc_TIGR02172 59374003100 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 59374003101 active site 59374003102 substrate binding site [chemical binding]; other site 59374003103 ATP binding site [chemical binding]; other site 59374003104 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 59374003105 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 59374003106 ABC-2 type transporter; Region: ABC2_membrane; cl17235 59374003107 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 59374003108 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 59374003109 ABC-2 type transporter; Region: ABC2_membrane; cl17235 59374003110 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 59374003111 HlyD family secretion protein; Region: HlyD_3; pfam13437 59374003112 Outer membrane efflux protein; Region: OEP; pfam02321 59374003113 Outer membrane efflux protein; Region: OEP; pfam02321 59374003114 Lamin Tail Domain; Region: LTD; pfam00932 59374003115 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 59374003116 putative metal binding residues [ion binding]; other site 59374003117 signature motif; other site 59374003118 dimer interface [polypeptide binding]; other site 59374003119 active site 59374003120 polyP binding site; other site 59374003121 substrate binding site [chemical binding]; other site 59374003122 acceptor-phosphate pocket; other site 59374003123 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 59374003124 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 59374003125 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 59374003126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 59374003127 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003128 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374003129 putative oxidoreductase; Provisional; Region: PRK12831 59374003130 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 59374003131 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 59374003132 Transcriptional regulator; Region: Rrf2; cl17282 59374003133 Rrf2 family protein; Region: rrf2_super; TIGR00738 59374003134 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374003135 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374003136 TPR repeat; Region: TPR_11; pfam13414 59374003137 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 59374003138 binding surface 59374003139 TPR motif; other site 59374003140 TPR repeat; Region: TPR_11; pfam13414 59374003141 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 59374003142 binding surface 59374003143 TPR motif; other site 59374003144 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 59374003145 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 59374003146 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 59374003147 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 59374003148 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 59374003149 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 59374003150 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 59374003151 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 59374003152 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 59374003153 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374003154 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 59374003155 DNA binding residues [nucleotide binding] 59374003156 Nitroreductase family; Region: Nitroreductase; pfam00881 59374003157 FMN binding site [chemical binding]; other site 59374003158 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 59374003159 additional DNA contacts [nucleotide binding]; other site 59374003160 mismatch recognition site; other site 59374003161 active site 59374003162 zinc binding site [ion binding]; other site 59374003163 DNA intercalation site [nucleotide binding]; other site 59374003164 peptidase T; Region: peptidase-T; TIGR01882 59374003165 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 59374003166 metal binding site [ion binding]; metal-binding site 59374003167 dimer interface [polypeptide binding]; other site 59374003168 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 59374003169 transmembrane helices; other site 59374003170 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 59374003171 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 59374003172 TrkA-C domain; Region: TrkA_C; pfam02080 59374003173 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 59374003174 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374003175 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 59374003176 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 59374003177 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 59374003178 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 59374003179 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 59374003180 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 59374003181 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 59374003182 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 59374003183 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 59374003184 active site 59374003185 8-oxo-dGMP binding site [chemical binding]; other site 59374003186 nudix motif; other site 59374003187 metal binding site [ion binding]; metal-binding site 59374003188 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 59374003189 catalytic residues [active] 59374003190 dimer interface [polypeptide binding]; other site 59374003191 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 59374003192 MarR family; Region: MarR; pfam01047 59374003193 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 59374003194 Low molecular weight phosphatase family; Region: LMWPc; cd00115 59374003195 active site 59374003196 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 59374003197 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374003198 putative metal binding site [ion binding]; other site 59374003199 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 59374003200 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 59374003201 cofactor binding site; other site 59374003202 DNA binding site [nucleotide binding] 59374003203 substrate interaction site [chemical binding]; other site 59374003204 SinI restriction endonuclease; Region: RE_SinI; pfam09570 59374003205 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 59374003206 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 59374003207 non-specific DNA binding site [nucleotide binding]; other site 59374003208 salt bridge; other site 59374003209 sequence-specific DNA binding site [nucleotide binding]; other site 59374003210 ORF6N domain; Region: ORF6N; pfam10543 59374003211 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 59374003212 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374003213 Divergent AAA domain; Region: AAA_4; pfam04326 59374003214 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 59374003215 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 59374003216 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 59374003217 elongation factor Ts; Provisional; Region: tsf; PRK09377 59374003218 UBA/TS-N domain; Region: UBA; pfam00627 59374003219 Elongation factor TS; Region: EF_TS; pfam00889 59374003220 Elongation factor TS; Region: EF_TS; pfam00889 59374003221 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 59374003222 Ligand binding site [chemical binding]; other site 59374003223 Electron transfer flavoprotein domain; Region: ETF; pfam01012 59374003224 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 59374003225 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 59374003226 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 59374003227 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 59374003228 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 59374003229 active site 59374003230 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 59374003231 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374003232 Walker A/P-loop; other site 59374003233 ATP binding site [chemical binding]; other site 59374003234 Q-loop/lid; other site 59374003235 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374003236 ABC transporter signature motif; other site 59374003237 Walker B; other site 59374003238 D-loop; other site 59374003239 H-loop/switch region; other site 59374003240 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374003241 Walker A/P-loop; other site 59374003242 ATP binding site [chemical binding]; other site 59374003243 Q-loop/lid; other site 59374003244 ABC transporter signature motif; other site 59374003245 Walker B; other site 59374003246 D-loop; other site 59374003247 H-loop/switch region; other site 59374003248 radical SAM peptide maturase, FibroRumin system; Region: rSAM_FibroRumin; TIGR04136 59374003249 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 59374003250 FeS/SAM binding site; other site 59374003251 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 59374003252 PIN domain; Region: PIN_3; pfam13470 59374003253 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 59374003254 Fibrobacter succinogenes paralogous family TIGR02172; Region: Fb_sc_TIGR02172 59374003255 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 59374003256 active site 59374003257 ATP binding site [chemical binding]; other site 59374003258 substrate binding site [chemical binding]; other site 59374003259 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 59374003260 putative phosphate binding site [ion binding]; other site 59374003261 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 59374003262 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374003263 Coenzyme A binding pocket [chemical binding]; other site 59374003264 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 59374003265 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 59374003266 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 59374003267 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 59374003268 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374003269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374003270 NAD(P) binding site [chemical binding]; other site 59374003271 active site 59374003272 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 59374003273 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 59374003274 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 59374003275 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 59374003276 motif II; other site 59374003277 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 59374003278 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 59374003279 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 59374003280 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 59374003281 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374003282 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 59374003283 active site 59374003284 nucleotide binding site [chemical binding]; other site 59374003285 HIGH motif; other site 59374003286 KMSKS motif; other site 59374003287 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374003288 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 59374003289 Probable Catalytic site; other site 59374003290 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 59374003291 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 59374003292 Probable Catalytic site; other site 59374003293 metal-binding site 59374003294 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374003295 Divergent AAA domain; Region: AAA_4; pfam04326 59374003296 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 59374003297 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 59374003298 putative DNA binding site [nucleotide binding]; other site 59374003299 putative Zn2+ binding site [ion binding]; other site 59374003300 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 59374003301 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 59374003302 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 59374003303 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 59374003304 23S rRNA interface [nucleotide binding]; other site 59374003305 L3 interface [polypeptide binding]; other site 59374003306 Domain of unknown function DUF21; Region: DUF21; pfam01595 59374003307 FOG: CBS domain [General function prediction only]; Region: COG0517 59374003308 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 59374003309 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 59374003310 tandem repeat interface [polypeptide binding]; other site 59374003311 oligomer interface [polypeptide binding]; other site 59374003312 active site residues [active] 59374003313 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 59374003314 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 59374003315 tandem repeat interface [polypeptide binding]; other site 59374003316 oligomer interface [polypeptide binding]; other site 59374003317 active site residues [active] 59374003318 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374003319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374003320 NAD(P) binding site [chemical binding]; other site 59374003321 active site 59374003322 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 59374003323 substrate binding site; other site 59374003324 dimer interface; other site 59374003325 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 59374003326 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 59374003327 putative active site [active] 59374003328 catalytic site [active] 59374003329 putative metal binding site [ion binding]; other site 59374003330 oligomer interface [polypeptide binding]; other site 59374003331 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 59374003332 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 59374003333 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 59374003334 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 59374003335 Probable Catalytic site; other site 59374003336 metal-binding site 59374003337 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 59374003338 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 59374003339 LicD family; Region: LicD; cl01378 59374003340 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 59374003341 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374003342 active site 59374003343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374003344 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374003345 NAD(P) binding site [chemical binding]; other site 59374003346 active site 59374003347 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 59374003348 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374003349 active site 59374003350 metal binding site [ion binding]; metal-binding site 59374003351 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 59374003352 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 59374003353 PYR/PP interface [polypeptide binding]; other site 59374003354 dimer interface [polypeptide binding]; other site 59374003355 TPP binding site [chemical binding]; other site 59374003356 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 59374003357 TPP-binding site; other site 59374003358 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374003359 active site 59374003360 nucleotide binding site [chemical binding]; other site 59374003361 HIGH motif; other site 59374003362 KMSKS motif; other site 59374003363 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 59374003364 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 59374003365 tetramer interface [polypeptide binding]; other site 59374003366 active site 59374003367 Mg2+/Mn2+ binding site [ion binding]; other site 59374003368 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 59374003369 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 59374003370 extended (e) SDRs; Region: SDR_e; cd08946 59374003371 NAD(P) binding site [chemical binding]; other site 59374003372 active site 59374003373 substrate binding site [chemical binding]; other site 59374003374 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 59374003375 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 59374003376 UDP-galactopyranose mutase; Region: GLF; pfam03275 59374003377 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 59374003378 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 59374003379 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 59374003380 Lamin Tail Domain; Region: LTD; pfam00932 59374003381 CotH protein; Region: CotH; pfam08757 59374003382 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 59374003383 EamA-like transporter family; Region: EamA; cl17759 59374003384 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 59374003385 binding surface 59374003386 TPR motif; other site 59374003387 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 59374003388 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 59374003389 N-acetyl-D-glucosamine binding site [chemical binding]; other site 59374003390 catalytic residue [active] 59374003391 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 59374003392 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 59374003393 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 59374003394 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 59374003395 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 59374003396 dimerization domain swap beta strand [polypeptide binding]; other site 59374003397 regulatory protein interface [polypeptide binding]; other site 59374003398 active site 59374003399 regulatory phosphorylation site [posttranslational modification]; other site 59374003400 mce related protein; Region: MCE; pfam02470 59374003401 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 59374003402 RNA polymerase beta' subunit; Region: rpoC1; CHL00018 59374003403 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 59374003404 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 59374003405 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 59374003406 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 59374003407 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 59374003408 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 59374003409 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 59374003410 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374003411 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 59374003412 DNA binding site [nucleotide binding] 59374003413 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 59374003414 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 59374003415 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 59374003416 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 59374003417 Aerotolerance regulator N-terminal; Region: BatA; cl06567 59374003418 von Willebrand factor type A domain; Region: VWA_2; pfam13519 59374003419 metal ion-dependent adhesion site (MIDAS); other site 59374003420 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374003421 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374003422 metal binding site [ion binding]; metal-binding site 59374003423 active site 59374003424 I-site; other site 59374003425 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 59374003426 metal ion-dependent adhesion site (MIDAS); other site 59374003427 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 59374003428 AzlC protein; Region: AzlC; cl00570 59374003429 YceG-like family; Region: YceG; pfam02618 59374003430 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 59374003431 dimerization interface [polypeptide binding]; other site 59374003432 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 59374003433 active site 59374003434 nucleophile elbow; other site 59374003435 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 59374003436 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 59374003437 Walker A motif; other site 59374003438 ATP binding site [chemical binding]; other site 59374003439 Walker B motif; other site 59374003440 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 59374003441 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 59374003442 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 59374003443 Walker A/P-loop; other site 59374003444 ATP binding site [chemical binding]; other site 59374003445 Q-loop/lid; other site 59374003446 ABC transporter signature motif; other site 59374003447 Walker B; other site 59374003448 D-loop; other site 59374003449 H-loop/switch region; other site 59374003450 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003451 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003452 TIGR02147 family protein; Region: Fsuc_second 59374003453 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003454 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003455 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003456 TIGR02147 family protein; Region: Fsuc_second 59374003457 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003458 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003459 TIGR02147 family protein; Region: Fsuc_second 59374003460 GSCFA family; Region: GSCFA; pfam08885 59374003461 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003462 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003463 TIGR02147 family protein; Region: Fsuc_second 59374003464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374003465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374003466 metal binding site [ion binding]; metal-binding site 59374003467 active site 59374003468 I-site; other site 59374003469 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 59374003470 dimer interface [polypeptide binding]; other site 59374003471 conserved gate region; other site 59374003472 ABC-ATPase subunit interface; other site 59374003473 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 59374003474 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374003475 Walker A/P-loop; other site 59374003476 ATP binding site [chemical binding]; other site 59374003477 Q-loop/lid; other site 59374003478 ABC transporter signature motif; other site 59374003479 Walker B; other site 59374003480 D-loop; other site 59374003481 H-loop/switch region; other site 59374003482 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 59374003483 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 59374003484 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 59374003485 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 59374003486 non-specific DNA binding site [nucleotide binding]; other site 59374003487 salt bridge; other site 59374003488 sequence-specific DNA binding site [nucleotide binding]; other site 59374003489 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 59374003490 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 59374003491 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 59374003492 motif 1; other site 59374003493 active site 59374003494 motif 2; other site 59374003495 motif 3; other site 59374003496 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 59374003497 DHHA1 domain; Region: DHHA1; pfam02272 59374003498 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 59374003499 active site 59374003500 catalytic residues [active] 59374003501 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 59374003502 Pyruvate formate lyase 1; Region: PFL1; cd01678 59374003503 coenzyme A binding site [chemical binding]; other site 59374003504 active site 59374003505 catalytic residues [active] 59374003506 glycine loop; other site 59374003507 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 59374003508 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 59374003509 FeS/SAM binding site; other site 59374003510 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374003511 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 59374003512 ATP binding site [chemical binding]; other site 59374003513 putative Mg++ binding site [ion binding]; other site 59374003514 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 59374003515 nucleotide binding region [chemical binding]; other site 59374003516 ATP-binding site [chemical binding]; other site 59374003517 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 59374003518 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 59374003519 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 59374003520 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 59374003521 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 59374003522 Walker A motif; other site 59374003523 ATP binding site [chemical binding]; other site 59374003524 Walker B motif; other site 59374003525 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 59374003526 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 59374003527 catalytic residues [active] 59374003528 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 59374003529 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 59374003530 motif 1; other site 59374003531 dimer interface [polypeptide binding]; other site 59374003532 active site 59374003533 motif 2; other site 59374003534 motif 3; other site 59374003535 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003536 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 59374003537 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 59374003538 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374003539 catalytic residue [active] 59374003540 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 59374003541 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 59374003542 putative ATP binding site [chemical binding]; other site 59374003543 putative substrate interface [chemical binding]; other site 59374003544 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 59374003545 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 59374003546 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 59374003547 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 59374003548 AAA domain; Region: AAA_14; pfam13173 59374003549 Fic/DOC family; Region: Fic; cl00960 59374003550 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 59374003551 PLD-like domain; Region: PLDc_2; pfam13091 59374003552 putative active site [active] 59374003553 catalytic site [active] 59374003554 Predicted transcriptional regulator [Transcription]; Region: COG2378 59374003555 WYL domain; Region: WYL; pfam13280 59374003556 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 59374003557 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 59374003558 homodimer interface [polypeptide binding]; other site 59374003559 substrate-cofactor binding pocket; other site 59374003560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374003561 catalytic residue [active] 59374003562 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374003563 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 59374003564 dimer interface [polypeptide binding]; other site 59374003565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374003566 catalytic residue [active] 59374003567 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 59374003568 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 59374003569 Ligand Binding Site [chemical binding]; other site 59374003570 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 59374003571 TolA protein; Region: tolA_full; TIGR02794 59374003572 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 59374003573 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 59374003574 nitrogenase iron protein; Region: nifH; TIGR01287 59374003575 Nucleotide-binding sites [chemical binding]; other site 59374003576 Walker A motif; other site 59374003577 Switch I region of nucleotide binding site; other site 59374003578 Fe4S4 binding sites [ion binding]; other site 59374003579 Switch II region of nucleotide binding site; other site 59374003580 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 59374003581 Radical SAM superfamily; Region: Radical_SAM; pfam04055 59374003582 FeS/SAM binding site; other site 59374003583 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 59374003584 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 59374003585 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 59374003586 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 59374003587 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 59374003588 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 59374003589 homodimer interface [polypeptide binding]; other site 59374003590 substrate-cofactor binding pocket; other site 59374003591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374003592 catalytic residue [active] 59374003593 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374003594 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 59374003595 dimer interface [polypeptide binding]; other site 59374003596 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374003597 catalytic residue [active] 59374003598 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 59374003599 Leucine carboxyl methyltransferase; Region: LCM; cl01306 59374003600 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 59374003601 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 59374003602 dimer interface [polypeptide binding]; other site 59374003603 conserved gate region; other site 59374003604 putative PBP binding loops; other site 59374003605 ABC-ATPase subunit interface; other site 59374003606 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 59374003607 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 59374003608 Walker A/P-loop; other site 59374003609 ATP binding site [chemical binding]; other site 59374003610 Q-loop/lid; other site 59374003611 ABC transporter signature motif; other site 59374003612 Walker B; other site 59374003613 D-loop; other site 59374003614 H-loop/switch region; other site 59374003615 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 59374003616 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 59374003617 substrate binding pocket [chemical binding]; other site 59374003618 membrane-bound complex binding site; other site 59374003619 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 59374003620 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 59374003621 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 59374003622 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 59374003623 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 59374003624 nitrogenase iron protein; Region: nifH; TIGR01287 59374003625 Nucleotide-binding sites [chemical binding]; other site 59374003626 Walker A motif; other site 59374003627 Switch I region of nucleotide binding site; other site 59374003628 Fe4S4 binding sites [ion binding]; other site 59374003629 Switch II region of nucleotide binding site; other site 59374003630 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 59374003631 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 59374003632 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 59374003633 Coenzyme A binding pocket [chemical binding]; other site 59374003634 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374003635 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 59374003636 dimer interface [polypeptide binding]; other site 59374003637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374003638 catalytic residue [active] 59374003639 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 59374003640 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 59374003641 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; cl17432 59374003642 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 59374003643 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; cl17432 59374003644 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374003645 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 59374003646 dimer interface [polypeptide binding]; other site 59374003647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374003648 catalytic residue [active] 59374003649 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 59374003650 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 59374003651 dimer interface [polypeptide binding]; other site 59374003652 conserved gate region; other site 59374003653 putative PBP binding loops; other site 59374003654 ABC-ATPase subunit interface; other site 59374003655 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 59374003656 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 59374003657 Walker A/P-loop; other site 59374003658 ATP binding site [chemical binding]; other site 59374003659 Q-loop/lid; other site 59374003660 ABC transporter signature motif; other site 59374003661 Walker B; other site 59374003662 D-loop; other site 59374003663 H-loop/switch region; other site 59374003664 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 59374003665 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 59374003666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374003667 homodimer interface [polypeptide binding]; other site 59374003668 catalytic residue [active] 59374003669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 59374003670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 59374003671 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 59374003672 dimerization interface [polypeptide binding]; other site 59374003673 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 59374003674 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 59374003675 FtsX-like permease family; Region: FtsX; pfam02687 59374003676 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 59374003677 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 59374003678 S-adenosylmethionine binding site [chemical binding]; other site 59374003679 Fic family protein [Function unknown]; Region: COG3177 59374003680 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 59374003681 Fic/DOC family; Region: Fic; pfam02661 59374003682 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374003683 Divergent AAA domain; Region: AAA_4; pfam04326 59374003684 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 59374003685 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 59374003686 putative DNA binding site [nucleotide binding]; other site 59374003687 putative Zn2+ binding site [ion binding]; other site 59374003688 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 59374003689 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 59374003690 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374003691 putative acyl-acceptor binding pocket; other site 59374003692 RNB domain; Region: RNB; pfam00773 59374003693 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 59374003694 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 59374003695 RNA binding site [nucleotide binding]; other site 59374003696 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 59374003697 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374003698 catalytic core [active] 59374003699 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 59374003700 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 59374003701 S-adenosylmethionine binding site [chemical binding]; other site 59374003702 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 59374003703 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374003704 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 59374003705 Na binding site [ion binding]; other site 59374003706 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 59374003707 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 59374003708 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 59374003709 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 59374003710 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 59374003711 Walker A motif; other site 59374003712 ATP binding site [chemical binding]; other site 59374003713 Walker B motif; other site 59374003714 arginine finger; other site 59374003715 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 59374003716 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 59374003717 EamA-like transporter family; Region: EamA; pfam00892 59374003718 EamA-like transporter family; Region: EamA; pfam00892 59374003719 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 59374003720 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 59374003721 homodimer interface [polypeptide binding]; other site 59374003722 substrate-cofactor binding pocket; other site 59374003723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374003724 catalytic residue [active] 59374003725 putative transporter; Validated; Region: PRK03818 59374003726 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 59374003727 TrkA-C domain; Region: TrkA_C; pfam02080 59374003728 TrkA-C domain; Region: TrkA_C; pfam02080 59374003729 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 59374003730 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 59374003731 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 59374003732 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 59374003733 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 59374003734 DNA binding residues [nucleotide binding] 59374003735 putative dimer interface [polypeptide binding]; other site 59374003736 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 59374003737 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 59374003738 nudix motif; other site 59374003739 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 59374003740 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 59374003741 active site 59374003742 nucleophile elbow; other site 59374003743 TIGR02147 family protein; Region: Fsuc_second 59374003744 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 59374003745 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 59374003746 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 59374003747 homodimer interface [polypeptide binding]; other site 59374003748 putative metal binding site [ion binding]; other site 59374003749 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 59374003750 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 59374003751 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 59374003752 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 59374003753 recombination protein RecR; Reviewed; Region: recR; PRK00076 59374003754 RecR protein; Region: RecR; pfam02132 59374003755 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 59374003756 putative active site [active] 59374003757 putative metal-binding site [ion binding]; other site 59374003758 tetramer interface [polypeptide binding]; other site 59374003759 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 59374003760 G1 box; other site 59374003761 GTP/Mg2+ binding site [chemical binding]; other site 59374003762 Switch I region; other site 59374003763 G2 box; other site 59374003764 G3 box; other site 59374003765 Switch II region; other site 59374003766 G4 box; other site 59374003767 G5 box; other site 59374003768 Permease; Region: Permease; pfam02405 59374003769 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 59374003770 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374003771 Walker A/P-loop; other site 59374003772 ATP binding site [chemical binding]; other site 59374003773 Q-loop/lid; other site 59374003774 ABC transporter signature motif; other site 59374003775 Walker B; other site 59374003776 D-loop; other site 59374003777 H-loop/switch region; other site 59374003778 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374003779 ligand binding site [chemical binding]; other site 59374003780 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 59374003781 Walker A motif; other site 59374003782 ATP binding site [chemical binding]; other site 59374003783 Walker B motif; other site 59374003784 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 59374003785 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 59374003786 Walker A motif; other site 59374003787 ATP binding site [chemical binding]; other site 59374003788 Walker B motif; other site 59374003789 arginine finger; other site 59374003790 Predicted transcriptional regulator [Transcription]; Region: COG2378 59374003791 WYL domain; Region: WYL; pfam13280 59374003792 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 59374003793 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374003794 Zn2+ binding site [ion binding]; other site 59374003795 Mg2+ binding site [ion binding]; other site 59374003796 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 59374003797 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 59374003798 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 59374003799 HIGH motif; other site 59374003800 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 59374003801 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374003802 active site 59374003803 KMSKS motif; other site 59374003804 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 59374003805 tRNA binding surface [nucleotide binding]; other site 59374003806 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 59374003807 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 59374003808 S-adenosylmethionine binding site [chemical binding]; other site 59374003809 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 59374003810 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 59374003811 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 59374003812 substrate binding pocket [chemical binding]; other site 59374003813 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 59374003814 B12 binding site [chemical binding]; other site 59374003815 cobalt ligand [ion binding]; other site 59374003816 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 59374003817 Nitrogen regulatory protein P-II; Region: P-II; smart00938 59374003818 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 59374003819 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 59374003820 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 59374003821 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374003822 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 59374003823 DNA binding residues [nucleotide binding] 59374003824 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 59374003825 dimer interface [polypeptide binding]; other site 59374003826 Y-family of DNA polymerases; Region: PolY; cl12025 59374003827 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 59374003828 active site 59374003829 DNA binding site [nucleotide binding] 59374003830 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 59374003831 TolA C-terminal; Region: TolA; pfam06519 59374003832 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 59374003833 GAF domain; Region: GAF; pfam01590 59374003834 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374003835 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374003836 metal binding site [ion binding]; metal-binding site 59374003837 active site 59374003838 I-site; other site 59374003839 exonuclease SbcC; Region: sbcc; TIGR00618 59374003840 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374003841 Walker A/P-loop; other site 59374003842 ATP binding site [chemical binding]; other site 59374003843 Q-loop/lid; other site 59374003844 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374003845 ABC transporter signature motif; other site 59374003846 Walker B; other site 59374003847 D-loop; other site 59374003848 H-loop/switch region; other site 59374003849 exonuclease subunit SbcD; Provisional; Region: PRK10966 59374003850 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 59374003851 active site 59374003852 metal binding site [ion binding]; metal-binding site 59374003853 DNA binding site [nucleotide binding] 59374003854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 59374003855 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 59374003856 dimer interface [polypeptide binding]; other site 59374003857 phosphorylation site [posttranslational modification] 59374003858 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 59374003859 ATP binding site [chemical binding]; other site 59374003860 Mg2+ binding site [ion binding]; other site 59374003861 G-X-G motif; other site 59374003862 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374003863 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 59374003864 active site 59374003865 phosphorylation site [posttranslational modification] 59374003866 intermolecular recognition site; other site 59374003867 dimerization interface [polypeptide binding]; other site 59374003868 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374003869 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 59374003870 active site 59374003871 phosphorylation site [posttranslational modification] 59374003872 intermolecular recognition site; other site 59374003873 dimerization interface [polypeptide binding]; other site 59374003874 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 59374003875 Part of AAA domain; Region: AAA_19; pfam13245 59374003876 AAA domain; Region: AAA_30; pfam13604 59374003877 Family description; Region: UvrD_C_2; pfam13538 59374003878 Competence protein CoiA-like family; Region: CoiA; cl11541 59374003879 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374003880 Divergent AAA domain; Region: AAA_4; pfam04326 59374003881 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 59374003882 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 59374003883 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 59374003884 BRO family, N-terminal domain; Region: Bro-N; pfam02498 59374003885 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 59374003886 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 59374003887 putative dimer interface [polypeptide binding]; other site 59374003888 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 59374003889 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 59374003890 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 59374003891 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 59374003892 putative DNA binding helix; other site 59374003893 metal binding site 2 [ion binding]; metal-binding site 59374003894 metal binding site 1 [ion binding]; metal-binding site 59374003895 dimer interface [polypeptide binding]; other site 59374003896 structural Zn2+ binding site [ion binding]; other site 59374003897 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 59374003898 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 59374003899 intersubunit interface [polypeptide binding]; other site 59374003900 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 59374003901 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 59374003902 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 59374003903 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; cl00462 59374003904 ABC-ATPase subunit interface; other site 59374003905 dimer interface [polypeptide binding]; other site 59374003906 putative PBP binding regions; other site 59374003907 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 59374003908 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 59374003909 Protein of unknown function DUF58; Region: DUF58; pfam01882 59374003910 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 59374003911 metal ion-dependent adhesion site (MIDAS); other site 59374003912 elongation factor G; Reviewed; Region: PRK13351 59374003913 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 59374003914 G1 box; other site 59374003915 GTP/Mg2+ binding site [chemical binding]; other site 59374003916 G2 box; other site 59374003917 Switch I region; other site 59374003918 G3 box; other site 59374003919 Switch II region; other site 59374003920 G4 box; other site 59374003921 G5 box; other site 59374003922 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 59374003923 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 59374003924 synthetase active site [active] 59374003925 NTP binding site [chemical binding]; other site 59374003926 metal binding site [ion binding]; metal-binding site 59374003927 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 59374003928 HD domain; Region: HD_4; pfam13328 59374003929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 59374003930 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 59374003931 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 59374003932 active site 59374003933 dimer interface [polypeptide binding]; other site 59374003934 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 59374003935 dimer interface [polypeptide binding]; other site 59374003936 active site 59374003937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374003938 metal binding site [ion binding]; metal-binding site 59374003939 active site 59374003940 I-site; other site 59374003941 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 59374003942 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374003943 catalytic core [active] 59374003944 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374003945 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374003946 MoxR-like ATPases [General function prediction only]; Region: COG0714 59374003947 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 59374003948 Walker A motif; other site 59374003949 ATP binding site [chemical binding]; other site 59374003950 Walker B motif; other site 59374003951 arginine finger; other site 59374003952 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 59374003953 BRO family, N-terminal domain; Region: Bro-N; pfam02498 59374003954 Entericidin EcnA/B family; Region: Entericidin; cl02322 59374003955 TfoX N-terminal domain; Region: TfoX_N; pfam04993 59374003956 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 59374003957 Domain of unknown function (DUF373); Region: DUF373; cl12079 59374003958 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 59374003959 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 59374003960 Oxygen tolerance; Region: BatD; pfam13584 59374003961 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003962 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003963 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374003964 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003965 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 59374003966 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 59374003967 Walker A/P-loop; other site 59374003968 ATP binding site [chemical binding]; other site 59374003969 Q-loop/lid; other site 59374003970 ABC transporter signature motif; other site 59374003971 Walker B; other site 59374003972 D-loop; other site 59374003973 H-loop/switch region; other site 59374003974 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 59374003975 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 59374003976 Walker A/P-loop; other site 59374003977 ATP binding site [chemical binding]; other site 59374003978 Q-loop/lid; other site 59374003979 ABC transporter signature motif; other site 59374003980 Walker B; other site 59374003981 D-loop; other site 59374003982 H-loop/switch region; other site 59374003983 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 59374003984 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 59374003985 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 59374003986 dimer interface [polypeptide binding]; other site 59374003987 conserved gate region; other site 59374003988 putative PBP binding loops; other site 59374003989 ABC-ATPase subunit interface; other site 59374003990 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 59374003991 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 59374003992 dimer interface [polypeptide binding]; other site 59374003993 conserved gate region; other site 59374003994 putative PBP binding loops; other site 59374003995 ABC-ATPase subunit interface; other site 59374003996 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 59374003997 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 59374003998 substrate binding site [chemical binding]; other site 59374003999 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 59374004000 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 59374004001 GIY-YIG motif/motif A; other site 59374004002 active site 59374004003 catalytic site [active] 59374004004 putative DNA binding site [nucleotide binding]; other site 59374004005 metal binding site [ion binding]; metal-binding site 59374004006 UvrB/uvrC motif; Region: UVR; pfam02151 59374004007 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 59374004008 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 59374004009 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 59374004010 Beta-lactamase; Region: Beta-lactamase; pfam00144 59374004011 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 59374004012 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 59374004013 mce related protein; Region: MCE; pfam02470 59374004014 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 59374004015 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 59374004016 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 59374004017 Hpr binding site; other site 59374004018 active site 59374004019 homohexamer subunit interaction site [polypeptide binding]; other site 59374004020 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 59374004021 30S subunit binding site; other site 59374004022 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 59374004023 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 59374004024 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 59374004025 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 59374004026 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 59374004027 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 59374004028 Walker A/P-loop; other site 59374004029 ATP binding site [chemical binding]; other site 59374004030 Q-loop/lid; other site 59374004031 ABC transporter signature motif; other site 59374004032 Walker B; other site 59374004033 D-loop; other site 59374004034 H-loop/switch region; other site 59374004035 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 59374004036 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 59374004037 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 59374004038 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 59374004039 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 59374004040 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374004041 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374004042 metal binding site [ion binding]; metal-binding site 59374004043 active site 59374004044 I-site; other site 59374004045 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 59374004046 Transglycosylase; Region: Transgly; pfam00912 59374004047 hypothetical protein; Provisional; Region: PRK10621 59374004048 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 59374004049 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 59374004050 GIY-YIG motif/motif A; other site 59374004051 putative active site [active] 59374004052 putative metal binding site [ion binding]; other site 59374004053 Na+/H+ antiporter 1; Region: Na_H_antiport_1; pfam06965 59374004054 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 59374004055 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 59374004056 dimer interface [polypeptide binding]; other site 59374004057 phosphorylation site [posttranslational modification] 59374004058 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 59374004059 ATP binding site [chemical binding]; other site 59374004060 Mg2+ binding site [ion binding]; other site 59374004061 G-X-G motif; other site 59374004062 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374004063 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 59374004064 active site 59374004065 phosphorylation site [posttranslational modification] 59374004066 intermolecular recognition site; other site 59374004067 dimerization interface [polypeptide binding]; other site 59374004068 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 59374004069 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 59374004070 dimer interface [polypeptide binding]; other site 59374004071 phosphorylation site [posttranslational modification] 59374004072 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 59374004073 ATP binding site [chemical binding]; other site 59374004074 Mg2+ binding site [ion binding]; other site 59374004075 G-X-G motif; other site 59374004076 Response regulator receiver domain; Region: Response_reg; pfam00072 59374004077 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 59374004078 active site 59374004079 phosphorylation site [posttranslational modification] 59374004080 intermolecular recognition site; other site 59374004081 dimerization interface [polypeptide binding]; other site 59374004082 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 59374004083 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 59374004084 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 59374004085 active site 59374004086 enolase; Provisional; Region: eno; PRK00077 59374004087 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 59374004088 dimer interface [polypeptide binding]; other site 59374004089 metal binding site [ion binding]; metal-binding site 59374004090 substrate binding pocket [chemical binding]; other site 59374004091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374004092 DNA-binding site [nucleotide binding]; DNA binding site 59374004093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374004094 DNA-binding site [nucleotide binding]; DNA binding site 59374004095 Transcriptional regulators [Transcription]; Region: PurR; COG1609 59374004096 Periplasmic binding protein-like domain; Region: Peripla_BP_3; pfam13377 59374004097 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 59374004098 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 59374004099 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 59374004100 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 59374004101 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 59374004102 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 59374004103 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 59374004104 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 59374004105 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 59374004106 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 59374004107 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 59374004108 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 59374004109 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 59374004110 DNA binding site [nucleotide binding] 59374004111 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 59374004112 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 59374004113 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 59374004114 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 59374004115 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 59374004116 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 59374004117 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 59374004118 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 59374004119 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 59374004120 RPB3 interaction site [polypeptide binding]; other site 59374004121 RPB1 interaction site [polypeptide binding]; other site 59374004122 RPB11 interaction site [polypeptide binding]; other site 59374004123 RPB10 interaction site [polypeptide binding]; other site 59374004124 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 59374004125 23S rRNA interface [nucleotide binding]; other site 59374004126 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 59374004127 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 59374004128 mRNA/rRNA interface [nucleotide binding]; other site 59374004129 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 59374004130 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 59374004131 23S rRNA interface [nucleotide binding]; other site 59374004132 L7/L12 interface [polypeptide binding]; other site 59374004133 putative thiostrepton binding site; other site 59374004134 L25 interface [polypeptide binding]; other site 59374004135 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 59374004136 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 59374004137 putative homodimer interface [polypeptide binding]; other site 59374004138 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 59374004139 heterodimer interface [polypeptide binding]; other site 59374004140 homodimer interface [polypeptide binding]; other site 59374004141 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 59374004142 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 59374004143 elongation factor Tu; Reviewed; Region: PRK00049 59374004144 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 59374004145 G1 box; other site 59374004146 GEF interaction site [polypeptide binding]; other site 59374004147 GTP/Mg2+ binding site [chemical binding]; other site 59374004148 Switch I region; other site 59374004149 G2 box; other site 59374004150 G3 box; other site 59374004151 Switch II region; other site 59374004152 G4 box; other site 59374004153 G5 box; other site 59374004154 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 59374004155 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 59374004156 Antibiotic Binding Site [chemical binding]; other site 59374004157 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 59374004158 active site 59374004159 recombination factor protein RarA; Reviewed; Region: PRK13342 59374004160 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 59374004161 Walker A motif; other site 59374004162 ATP binding site [chemical binding]; other site 59374004163 Walker B motif; other site 59374004164 arginine finger; other site 59374004165 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 59374004166 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 59374004167 TIGR02147 family protein; Region: Fsuc_second 59374004168 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004169 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 59374004170 Adenosylhomocysteinase; Provisional; Region: PTZ00075 59374004171 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 59374004172 homotetramer interface [polypeptide binding]; other site 59374004173 ligand binding site [chemical binding]; other site 59374004174 catalytic site [active] 59374004175 NAD binding site [chemical binding]; other site 59374004176 Virulence protein [General function prediction only]; Region: COG3943 59374004177 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 59374004178 Restriction endonuclease [Defense mechanisms]; Region: COG3587 59374004179 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 59374004180 Uncharacterized conserved protein [Function unknown]; Region: COG1479 59374004181 Protein of unknown function DUF262; Region: DUF262; pfam03235 59374004182 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 59374004183 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 59374004184 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 59374004185 non-specific DNA binding site [nucleotide binding]; other site 59374004186 salt bridge; other site 59374004187 sequence-specific DNA binding site [nucleotide binding]; other site 59374004188 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cd00525 59374004189 nucleotide binding site [chemical binding]; other site 59374004190 Eukaryotic and archaeal DNA primase small subunit; Region: DNA_primase_S; pfam01896 59374004191 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 59374004192 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 59374004193 putative active site [active] 59374004194 putative NTP binding site [chemical binding]; other site 59374004195 putative nucleic acid binding site [nucleotide binding]; other site 59374004196 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 59374004197 DNA methylase; Region: N6_N4_Mtase; pfam01555 59374004198 SIR2-like domain; Region: SIR2_2; pfam13289 59374004199 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 59374004200 Walker A motif; other site 59374004201 ATP binding site [chemical binding]; other site 59374004202 Walker B motif; other site 59374004203 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 59374004204 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 59374004205 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 59374004206 putative active site [active] 59374004207 catalytic site [active] 59374004208 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374004209 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 59374004210 ATP binding site [chemical binding]; other site 59374004211 putative Mg++ binding site [ion binding]; other site 59374004212 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 59374004213 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 59374004214 nucleotide binding region [chemical binding]; other site 59374004215 ATP-binding site [chemical binding]; other site 59374004216 von Willebrand factor type A domain; Region: VWA_2; pfam13519 59374004217 metal ion-dependent adhesion site (MIDAS); other site 59374004218 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 59374004219 active site 59374004220 catalytic triad [active] 59374004221 oxyanion hole [active] 59374004222 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; cd00229 59374004223 active site 59374004224 catalytic triad [active] 59374004225 oxyanion hole [active] 59374004226 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004227 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; cd00229 59374004228 active site 59374004229 catalytic triad [active] 59374004230 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004231 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 59374004232 PEGA domain; Region: PEGA; pfam08308 59374004233 PEGA domain; Region: PEGA; pfam08308 59374004234 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 59374004235 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 59374004236 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 59374004237 active site 59374004238 phosphorylation site [posttranslational modification] 59374004239 intermolecular recognition site; other site 59374004240 dimerization interface [polypeptide binding]; other site 59374004241 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 59374004242 DNA binding site [nucleotide binding] 59374004243 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 59374004244 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 59374004245 dimer interface [polypeptide binding]; other site 59374004246 phosphorylation site [posttranslational modification] 59374004247 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 59374004248 ATP binding site [chemical binding]; other site 59374004249 Mg2+ binding site [ion binding]; other site 59374004250 G-X-G motif; other site 59374004251 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 59374004252 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 59374004253 active site 59374004254 ADP/pyrophosphate binding site [chemical binding]; other site 59374004255 dimerization interface [polypeptide binding]; other site 59374004256 allosteric effector site; other site 59374004257 fructose-1,6-bisphosphate binding site; other site 59374004258 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 59374004259 fibro-slime domain; Region: Fibro_Slime; TIGR02148 59374004260 fibro-slime domain; Region: Fibro_Slime; TIGR02148 59374004261 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 59374004262 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 59374004263 homodimer interface [polypeptide binding]; other site 59374004264 oligonucleotide binding site [chemical binding]; other site 59374004265 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 59374004266 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374004267 DNA polymerase III subunit beta; Validated; Region: PRK05643 59374004268 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 59374004269 putative DNA binding surface [nucleotide binding]; other site 59374004270 dimer interface [polypeptide binding]; other site 59374004271 beta-clamp/clamp loader binding surface; other site 59374004272 beta-clamp/translesion DNA polymerase binding surface; other site 59374004273 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 59374004274 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 59374004275 Ligand Binding Site [chemical binding]; other site 59374004276 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004277 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 59374004278 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 59374004279 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 59374004280 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 59374004281 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 59374004282 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 59374004283 HsdM N-terminal domain; Region: HsdM_N; pfam12161 59374004284 Methyltransferase domain; Region: Methyltransf_26; pfam13659 59374004285 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 59374004286 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 59374004287 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 59374004288 ATP binding site [chemical binding]; other site 59374004289 putative Mg++ binding site [ion binding]; other site 59374004290 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 59374004291 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 59374004292 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 59374004293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 59374004294 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 59374004295 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 59374004296 dimerization interface [polypeptide binding]; other site 59374004297 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 59374004298 dimer interface [polypeptide binding]; other site 59374004299 pyridoxal binding site [chemical binding]; other site 59374004300 ATP binding site [chemical binding]; other site 59374004301 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 59374004302 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 59374004303 FeS/SAM binding site; other site 59374004304 von Willebrand factor type A domain; Region: VWA_2; pfam13519 59374004305 metal ion-dependent adhesion site (MIDAS); other site 59374004306 RNase III inhibitor; Provisional; Region: PRK00431 59374004307 ADP-ribose binding site [chemical binding]; other site 59374004308 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374004309 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 59374004310 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374004311 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 59374004312 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 59374004313 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 59374004314 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374004315 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 59374004316 Rubredoxin; Region: Rubredoxin; pfam00301 59374004317 iron binding site [ion binding]; other site 59374004318 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 59374004319 Carbon starvation protein CstA; Region: CstA; pfam02554 59374004320 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 59374004321 aspartate kinase; Reviewed; Region: PRK09034 59374004322 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 59374004323 nucleotide binding site [chemical binding]; other site 59374004324 substrate binding site [chemical binding]; other site 59374004325 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 59374004326 allosteric regulatory residue; other site 59374004327 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 59374004328 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 59374004329 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 59374004330 Walker A motif; other site 59374004331 ATP binding site [chemical binding]; other site 59374004332 Walker B motif; other site 59374004333 arginine finger; other site 59374004334 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 59374004335 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 59374004336 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 59374004337 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 59374004338 active site 59374004339 substrate binding site [chemical binding]; other site 59374004340 metal binding site [ion binding]; metal-binding site 59374004341 HipA-like N-terminal domain; Region: HipA_N; pfam07805 59374004342 HipA-like C-terminal domain; Region: HipA_C; pfam07804 59374004343 HipA N-terminal domain; Region: Couple_hipA; pfam13657 59374004344 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 59374004345 non-specific DNA binding site [nucleotide binding]; other site 59374004346 salt bridge; other site 59374004347 sequence-specific DNA binding site [nucleotide binding]; other site 59374004348 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 59374004349 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 59374004350 S-adenosylmethionine binding site [chemical binding]; other site 59374004351 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 59374004352 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 59374004353 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 59374004354 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374004355 catalytic residue [active] 59374004356 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 59374004357 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 59374004358 Walker A motif; other site 59374004359 ATP binding site [chemical binding]; other site 59374004360 Walker B motif; other site 59374004361 arginine finger; other site 59374004362 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 59374004363 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 59374004364 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 59374004365 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 59374004366 Walker A motif; other site 59374004367 ATP binding site [chemical binding]; other site 59374004368 Walker B motif; other site 59374004369 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 59374004370 Clp protease; Region: CLP_protease; pfam00574 59374004371 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 59374004372 oligomer interface [polypeptide binding]; other site 59374004373 active site residues [active] 59374004374 trigger factor; Region: tig; TIGR00115 59374004375 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 59374004376 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 59374004377 Methyltransferase domain; Region: Methyltransf_23; pfam13489 59374004378 Methyltransferase domain; Region: Methyltransf_11; pfam08241 59374004379 S-adenosylmethionine binding site [chemical binding]; other site 59374004380 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 59374004381 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 59374004382 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 59374004383 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 59374004384 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 59374004385 30S ribosomal protein S11; Validated; Region: PRK05309 59374004386 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 59374004387 30S ribosomal protein S13; Region: bact_S13; TIGR03631 59374004388 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 59374004389 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 59374004390 rRNA binding site [nucleotide binding]; other site 59374004391 predicted 30S ribosome binding site; other site 59374004392 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 59374004393 SecY translocase; Region: SecY; pfam00344 59374004394 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 59374004395 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 59374004396 23S rRNA binding site [nucleotide binding]; other site 59374004397 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 59374004398 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 59374004399 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 59374004400 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 59374004401 5S rRNA interface [nucleotide binding]; other site 59374004402 L27 interface [polypeptide binding]; other site 59374004403 23S rRNA interface [nucleotide binding]; other site 59374004404 L5 interface [polypeptide binding]; other site 59374004405 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 59374004406 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 59374004407 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 59374004408 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 59374004409 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 59374004410 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 59374004411 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 59374004412 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 59374004413 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 59374004414 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 59374004415 RNA binding site [nucleotide binding]; other site 59374004416 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 59374004417 putative translocon interaction site; other site 59374004418 23S rRNA interface [nucleotide binding]; other site 59374004419 signal recognition particle (SRP54) interaction site; other site 59374004420 L23 interface [polypeptide binding]; other site 59374004421 trigger factor interaction site; other site 59374004422 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 59374004423 23S rRNA interface [nucleotide binding]; other site 59374004424 5S rRNA interface [nucleotide binding]; other site 59374004425 putative antibiotic binding site [chemical binding]; other site 59374004426 L25 interface [polypeptide binding]; other site 59374004427 L27 interface [polypeptide binding]; other site 59374004428 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 59374004429 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 59374004430 G-X-X-G motif; other site 59374004431 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 59374004432 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 59374004433 putative translocon binding site; other site 59374004434 protein-rRNA interface [nucleotide binding]; other site 59374004435 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 59374004436 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 59374004437 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 59374004438 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 59374004439 50S ribosomal protein L4, bacterial/organelle; Region: rplD_bact; TIGR03953 59374004440 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 59374004441 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 59374004442 elongation factor Tu; Reviewed; Region: PRK00049 59374004443 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 59374004444 G1 box; other site 59374004445 GEF interaction site [polypeptide binding]; other site 59374004446 GTP/Mg2+ binding site [chemical binding]; other site 59374004447 Switch I region; other site 59374004448 G2 box; other site 59374004449 G3 box; other site 59374004450 Switch II region; other site 59374004451 G4 box; other site 59374004452 G5 box; other site 59374004453 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 59374004454 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 59374004455 Antibiotic Binding Site [chemical binding]; other site 59374004456 Glycosyl hydrolase family 45; Region: Glyco_hydro_45; pfam02015 59374004457 Glycosyl hydrolase family 45; Region: Glyco_hydro_45; pfam02015 59374004458 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 59374004459 sequence-specific DNA binding site [nucleotide binding]; other site 59374004460 salt bridge; other site 59374004461 Peptidase family M48; Region: Peptidase_M48; cl12018 59374004462 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 59374004463 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004464 WYL domain; Region: WYL; pfam13280 59374004465 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 59374004466 putative trimer interface [polypeptide binding]; other site 59374004467 putative CoA binding site [chemical binding]; other site 59374004468 Hereditary spastic paraplegia protein strumpellin; Region: Strumpellin; pfam10266 59374004469 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 59374004470 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 59374004471 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 59374004472 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374004473 active site 59374004474 metal binding site [ion binding]; metal-binding site 59374004475 hexamer interface [polypeptide binding]; other site 59374004476 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 59374004477 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 59374004478 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374004479 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 59374004480 ParB-like nuclease domain; Region: ParB; smart00470 59374004481 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 59374004482 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 59374004483 P-loop; other site 59374004484 Magnesium ion binding site [ion binding]; other site 59374004485 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 59374004486 Magnesium ion binding site [ion binding]; other site 59374004487 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 59374004488 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 59374004489 putative metal binding site [ion binding]; other site 59374004490 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 59374004491 putative ADP-ribose binding site [chemical binding]; other site 59374004492 putative active site [active] 59374004493 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 59374004494 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 59374004495 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 59374004496 LemA family; Region: LemA; cl00742 59374004497 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 59374004498 Sodium Bile acid symporter family; Region: SBF; pfam01758 59374004499 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 59374004500 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 59374004501 active site 59374004502 NAD binding site [chemical binding]; other site 59374004503 metal binding site [ion binding]; metal-binding site 59374004504 Tetratricopeptide repeat; Region: TPR_12; pfam13424 59374004505 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 59374004506 binding surface 59374004507 TPR motif; other site 59374004508 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 59374004509 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 59374004510 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 59374004511 ATP binding site [chemical binding]; other site 59374004512 putative Mg++ binding site [ion binding]; other site 59374004513 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 59374004514 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 59374004515 nucleotide binding region [chemical binding]; other site 59374004516 ATP-binding site [chemical binding]; other site 59374004517 SEC-C motif; Region: SEC-C; pfam02810 59374004518 thymidylate kinase; Validated; Region: tmk; PRK00698 59374004519 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 59374004520 TMP-binding site; other site 59374004521 ATP-binding site [chemical binding]; other site 59374004522 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 59374004523 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374004524 active site 59374004525 metal binding site [ion binding]; metal-binding site 59374004526 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 59374004527 active site 59374004528 NTP binding site [chemical binding]; other site 59374004529 metal binding triad [ion binding]; metal-binding site 59374004530 antibiotic binding site [chemical binding]; other site 59374004531 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 59374004532 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 59374004533 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 59374004534 binding surface 59374004535 TPR motif; other site 59374004536 Tetratricopeptide repeat; Region: TPR_16; pfam13432 59374004537 LabA_like proteins; Region: LabA_like; cd06167 59374004538 putative metal binding site [ion binding]; other site 59374004539 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 59374004540 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 59374004541 intersubunit interface [polypeptide binding]; other site 59374004542 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 59374004543 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 59374004544 ligand binding site [chemical binding]; other site 59374004545 flexible hinge region; other site 59374004546 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 59374004547 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 59374004548 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 59374004549 dimerization interface [polypeptide binding]; other site 59374004550 putative ATP binding site [chemical binding]; other site 59374004551 Glycosyl hydrolase family 45; Region: Glyco_hydro_45; pfam02015 59374004552 fibro-slime domain; Region: Fibro_Slime; TIGR02148 59374004553 fibro-slime domain; Region: Fibro_Slime; TIGR02148 59374004554 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 59374004555 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 59374004556 ABC transporter; Region: ABC_tran_2; pfam12848 59374004557 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 59374004558 regulatory ATPase RavA; Provisional; Region: PRK13531 59374004559 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 59374004560 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 59374004561 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 59374004562 Tetramer interface [polypeptide binding]; other site 59374004563 active site 59374004564 FMN-binding site [chemical binding]; other site 59374004565 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 59374004566 Rubredoxin; Region: Rubredoxin; pfam00301 59374004567 iron binding site [ion binding]; other site 59374004568 Rubrerythrin [Energy production and conversion]; Region: COG1592 59374004569 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 59374004570 diiron binding motif [ion binding]; other site 59374004571 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 59374004572 metal binding site 2 [ion binding]; metal-binding site 59374004573 putative DNA binding helix; other site 59374004574 metal binding site 1 [ion binding]; metal-binding site 59374004575 dimer interface [polypeptide binding]; other site 59374004576 structural Zn2+ binding site [ion binding]; other site 59374004577 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 59374004578 TrkA-N domain; Region: TrkA_N; pfam02254 59374004579 TrkA-C domain; Region: TrkA_C; pfam02080 59374004580 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 59374004581 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 59374004582 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004583 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 59374004584 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 59374004585 ABC transporter ATPase component; Reviewed; Region: PRK11147 59374004586 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374004587 Walker A/P-loop; other site 59374004588 ATP binding site [chemical binding]; other site 59374004589 Q-loop/lid; other site 59374004590 ABC transporter signature motif; other site 59374004591 Walker B; other site 59374004592 D-loop; other site 59374004593 H-loop/switch region; other site 59374004594 ABC transporter; Region: ABC_tran_2; pfam12848 59374004595 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 59374004596 Carbohydrate binding domain (family 11); Region: CBM_11; pfam03425 59374004597 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 59374004598 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 59374004599 propionate/acetate kinase; Provisional; Region: PRK12379 59374004600 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 59374004601 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 59374004602 active site 59374004603 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374004604 catalytic core [active] 59374004605 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 59374004606 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 59374004607 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 59374004608 homodimer interface [polypeptide binding]; other site 59374004609 NADP binding site [chemical binding]; other site 59374004610 substrate binding site [chemical binding]; other site 59374004611 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 59374004612 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 59374004613 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 59374004614 N-acetylglutamate synthase; Validated; Region: PRK05279 59374004615 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 59374004616 nucleotide binding site [chemical binding]; other site 59374004617 substrate binding site [chemical binding]; other site 59374004618 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374004619 Coenzyme A binding pocket [chemical binding]; other site 59374004620 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 59374004621 FMN binding site [chemical binding]; other site 59374004622 dimer interface [polypeptide binding]; other site 59374004623 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004624 TIGR02147 family protein; Region: Fsuc_second 59374004625 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 59374004626 homodecamer interface [polypeptide binding]; other site 59374004627 GTP cyclohydrolase I; Provisional; Region: PLN03044 59374004628 active site 59374004629 putative catalytic site residues [active] 59374004630 zinc binding site [ion binding]; other site 59374004631 GTP-CH-I/GFRP interaction surface; other site 59374004632 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 59374004633 Chlorophyllase enzyme; Region: Chlorophyllase2; pfam12740 59374004634 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 59374004635 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 59374004636 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 59374004637 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 59374004638 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 59374004639 DsbD alpha interface [polypeptide binding]; other site 59374004640 catalytic residues [active] 59374004641 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 59374004642 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374004643 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 59374004644 DNA binding residues [nucleotide binding] 59374004645 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 59374004646 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 59374004647 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 59374004648 active site 59374004649 NTP binding site [chemical binding]; other site 59374004650 metal binding triad [ion binding]; metal-binding site 59374004651 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 59374004652 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 59374004653 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 59374004654 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374004655 active site 59374004656 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 59374004657 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 59374004658 active site 59374004659 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374004660 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 59374004661 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cd00598 59374004662 active site 59374004663 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374004664 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374004665 aminodeoxychorismate synthase; Provisional; Region: PRK07508 59374004666 chorismate binding enzyme; Region: Chorismate_bind; cl10555 59374004667 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 59374004668 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 59374004669 substrate-cofactor binding pocket; other site 59374004670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374004671 catalytic residue [active] 59374004672 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 59374004673 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 59374004674 substrate binding site [chemical binding]; other site 59374004675 hexamer interface [polypeptide binding]; other site 59374004676 metal binding site [ion binding]; metal-binding site 59374004677 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 59374004678 diaminopimelate decarboxylase; Provisional; Region: PRK11165 59374004679 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 59374004680 active site 59374004681 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374004682 substrate binding site [chemical binding]; other site 59374004683 catalytic residues [active] 59374004684 dimer interface [polypeptide binding]; other site 59374004685 Catalytic domain of Protein Kinases; Region: PKc; cd00180 59374004686 active site 59374004687 ATP binding site [chemical binding]; other site 59374004688 substrate binding site [chemical binding]; other site 59374004689 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374004690 substrate binding site [chemical binding]; other site 59374004691 activation loop (A-loop); other site 59374004692 activation loop (A-loop); other site 59374004693 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 59374004694 metal ion-dependent adhesion site (MIDAS); other site 59374004695 Protein phosphatase 2C; Region: PP2C_2; pfam13672 59374004696 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 59374004697 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 59374004698 FeS/SAM binding site; other site 59374004699 AAA domain; Region: AAA_23; pfam13476 59374004700 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 59374004701 G1 box; other site 59374004702 GTP/Mg2+ binding site [chemical binding]; other site 59374004703 G2 box; other site 59374004704 Switch I region; other site 59374004705 G3 box; other site 59374004706 Switch II region; other site 59374004707 G4 box; other site 59374004708 G5 box; other site 59374004709 Predicted GTPase [General function prediction only]; Region: COG3596 59374004710 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 59374004711 G1 box; other site 59374004712 GTP/Mg2+ binding site [chemical binding]; other site 59374004713 G2 box; other site 59374004714 Switch I region; other site 59374004715 G3 box; other site 59374004716 Switch II region; other site 59374004717 G4 box; other site 59374004718 CRISPR repeat region 59374004719 CRISPR spacer 59374004720 CRISPR spacer 59374004721 CRISPR spacer 59374004722 CRISPR spacer 59374004723 CRISPR spacer 59374004724 CRISPR spacer 59374004725 CRISPR repeat region 59374004726 CRISPR spacer 59374004727 CRISPR spacer 59374004728 CRISPR spacer 59374004729 CRISPR spacer 59374004730 CRISPR spacer 59374004731 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 59374004732 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 59374004733 CRISPR repeat region 59374004734 CRISPR spacer 59374004735 CRISPR spacer 59374004736 CRISPR spacer 59374004737 CRISPR repeat region 59374004738 CRISPR spacer 59374004739 CRISPR spacer 59374004740 CRISPR spacer 59374004741 CRISPR spacer 59374004742 CRISPR spacer 59374004743 CRISPR spacer 59374004744 CRISPR spacer 59374004745 CRISPR repeat region 59374004746 CRISPR spacer 59374004747 CRISPR spacer 59374004748 CRISPR spacer 59374004749 CRISPR spacer 59374004750 CRISPR spacer 59374004751 CRISPR spacer 59374004752 CRISPR spacer 59374004753 CRISPR spacer 59374004754 CRISPR spacer 59374004755 CRISPR spacer 59374004756 CRISPR spacer 59374004757 CRISPR repeat region 59374004758 CRISPR spacer 59374004759 CRISPR spacer 59374004760 CRISPR spacer 59374004761 CRISPR spacer 59374004762 CRISPR spacer 59374004763 CRISPR spacer 59374004764 CRISPR spacer 59374004765 CRISPR spacer 59374004766 CRISPR repeat region 59374004767 CRISPR spacer 59374004768 CRISPR spacer 59374004769 CRISPR spacer 59374004770 CRISPR repeat region 59374004771 CRISPR spacer 59374004772 CRISPR spacer 59374004773 CRISPR spacer 59374004774 CRISPR spacer 59374004775 CRISPR spacer 59374004776 CRISPR spacer 59374004777 CRISPR spacer 59374004778 CRISPR spacer 59374004779 CRISPR spacer 59374004780 CRISPR-associated (Cas) DxTHG family; Region: Cas_DxTHG; pfam09455 59374004781 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09668 59374004782 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 59374004783 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 59374004784 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 59374004785 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 59374004786 CRISPR-associated protein; Region: TIGR03986 59374004787 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 59374004788 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 59374004789 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 59374004790 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 59374004791 active site 59374004792 substrate binding site [chemical binding]; other site 59374004793 metal binding site [ion binding]; metal-binding site 59374004794 Cna protein B-type domain; Region: Cna_B_2; pfam13715 59374004795 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004796 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 59374004797 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004798 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 59374004799 LabA_like proteins; Region: LabA_like/DUF88; cl10034 59374004800 putative metal binding site [ion binding]; other site 59374004801 Uncharacterized conserved protein [Function unknown]; Region: COG1432 59374004802 OST-HTH/LOTUS domain; Region: OST-HTH; pfam12872 59374004803 Outer membrane efflux protein; Region: OEP; pfam02321 59374004804 Outer membrane efflux protein; Region: OEP; pfam02321 59374004805 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 59374004806 active site 59374004807 phosphorylation site [posttranslational modification] 59374004808 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 59374004809 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 59374004810 active site 59374004811 catalytic residue [active] 59374004812 dimer interface [polypeptide binding]; other site 59374004813 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 59374004814 Clp protease; Region: CLP_protease; pfam00574 59374004815 oligomer interface [polypeptide binding]; other site 59374004816 active site residues [active] 59374004817 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 59374004818 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 59374004819 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 59374004820 P loop; other site 59374004821 GTP binding site [chemical binding]; other site 59374004822 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 59374004823 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 59374004824 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 59374004825 DXD motif; other site 59374004826 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 59374004827 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374004828 Response regulator receiver domain; Region: Response_reg; pfam00072 59374004829 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 59374004830 active site 59374004831 phosphorylation site [posttranslational modification] 59374004832 intermolecular recognition site; other site 59374004833 dimerization interface [polypeptide binding]; other site 59374004834 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374004835 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374004836 metal binding site [ion binding]; metal-binding site 59374004837 active site 59374004838 I-site; other site 59374004839 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 59374004840 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 59374004841 active site 59374004842 intersubunit interface [polypeptide binding]; other site 59374004843 catalytic residue [active] 59374004844 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 59374004845 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 59374004846 Walker A/P-loop; other site 59374004847 ATP binding site [chemical binding]; other site 59374004848 Q-loop/lid; other site 59374004849 ABC transporter signature motif; other site 59374004850 Walker B; other site 59374004851 D-loop; other site 59374004852 H-loop/switch region; other site 59374004853 tyrosine kinase; Provisional; Region: PRK11519 59374004854 Chain length determinant protein; Region: Wzz; pfam02706 59374004855 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 59374004856 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 59374004857 P-loop; other site 59374004858 Magnesium ion binding site [ion binding]; other site 59374004859 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 59374004860 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374004861 ligand binding site [chemical binding]; other site 59374004862 Predicted membrane protein [Function unknown]; Region: COG2246 59374004863 GtrA-like protein; Region: GtrA; pfam04138 59374004864 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 59374004865 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 59374004866 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 59374004867 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374004868 catalytic core [active] 59374004869 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374004870 catalytic core [active] 59374004871 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 59374004872 carboxyltransferase (CT) interaction site; other site 59374004873 biotinylation site [posttranslational modification]; other site 59374004874 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 59374004875 TIGR02147 family protein; Region: Fsuc_second 59374004876 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004877 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004878 TIGR02147 family protein; Region: Fsuc_second 59374004879 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004880 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004881 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004882 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004883 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004884 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004885 Archaeal ATPase; Region: Arch_ATPase; pfam01637 59374004886 TIGR02147 family protein; Region: Fsuc_second 59374004887 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004888 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004889 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004890 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004891 TIGR02147 family protein; Region: Fsuc_second 59374004892 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004893 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004894 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374004895 Cache domain; Region: Cache_1; pfam02743 59374004896 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 59374004897 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 59374004898 dimerization interface [polypeptide binding]; other site 59374004899 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 59374004900 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 59374004901 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 59374004902 phosphate binding site [ion binding]; other site 59374004903 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 59374004904 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 59374004905 active site 59374004906 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 59374004907 active site 2 [active] 59374004908 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 59374004909 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 59374004910 hinge; other site 59374004911 active site 59374004912 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 59374004913 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 59374004914 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 59374004915 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 59374004916 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 59374004917 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 59374004918 GDP-binding site [chemical binding]; other site 59374004919 ACT binding site; other site 59374004920 IMP binding site; other site 59374004921 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 59374004922 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 59374004923 ligand binding site [chemical binding]; other site 59374004924 flexible hinge region; other site 59374004925 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 59374004926 putative switch regulator; other site 59374004927 non-specific DNA interactions [nucleotide binding]; other site 59374004928 DNA binding site [nucleotide binding] 59374004929 sequence specific DNA binding site [nucleotide binding]; other site 59374004930 putative cAMP binding site [chemical binding]; other site 59374004931 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 59374004932 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 59374004933 TPR motif; other site 59374004934 binding surface 59374004935 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 59374004936 Family description; Region: VCBS; pfam13517 59374004937 Family description; Region: VCBS; pfam13517 59374004938 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004939 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374004940 NlpE N-terminal domain; Region: NlpE; pfam04170 59374004941 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 59374004942 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 59374004943 active site 59374004944 phosphorylation site [posttranslational modification] 59374004945 intermolecular recognition site; other site 59374004946 dimerization interface [polypeptide binding]; other site 59374004947 LytTr DNA-binding domain; Region: LytTR; smart00850 59374004948 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 59374004949 Catalytic site [active] 59374004950 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 59374004951 Bacterial Ig-like domain; Region: Big_5; pfam13205 59374004952 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 59374004953 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 59374004954 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 59374004955 active site 59374004956 catalytic site [active] 59374004957 substrate binding site [chemical binding]; other site 59374004958 DEAD/DEAH box helicase; Region: DEAD; pfam00270 59374004959 ATP binding site [chemical binding]; other site 59374004960 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 59374004961 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 59374004962 active site 59374004963 catalytic triad [active] 59374004964 oxyanion hole [active] 59374004965 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374004966 metal binding site [ion binding]; metal-binding site 59374004967 active site 59374004968 I-site; other site 59374004969 TIGR02147 family protein; Region: Fsuc_second 59374004970 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 59374004971 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 59374004972 substrate binding pocket [chemical binding]; other site 59374004973 chain length determination region; other site 59374004974 substrate-Mg2+ binding site; other site 59374004975 catalytic residues [active] 59374004976 aspartate-rich region 1; other site 59374004977 active site lid residues [active] 59374004978 aspartate-rich region 2; other site 59374004979 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 59374004980 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 59374004981 TPP-binding site; other site 59374004982 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 59374004983 PYR/PP interface [polypeptide binding]; other site 59374004984 dimer interface [polypeptide binding]; other site 59374004985 TPP binding site [chemical binding]; other site 59374004986 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 59374004987 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 59374004988 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 59374004989 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 59374004990 active site 59374004991 dimer interface [polypeptide binding]; other site 59374004992 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 59374004993 mce related protein; Region: MCE; pfam02470 59374004994 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 59374004995 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 59374004996 active site 59374004997 metal binding site [ion binding]; metal-binding site 59374004998 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 59374004999 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374005000 Predicted integral membrane protein [Function unknown]; Region: COG5542 59374005001 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 59374005002 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 59374005003 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 59374005004 binding surface 59374005005 TPR motif; other site 59374005006 TPR repeat; Region: TPR_11; pfam13414 59374005007 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374005008 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 59374005009 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 59374005010 DXD motif; other site 59374005011 xanthine permease; Region: pbuX; TIGR03173 59374005012 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 59374005013 active site 59374005014 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374005015 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374005016 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 59374005017 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 59374005018 Active Sites [active] 59374005019 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 59374005020 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 59374005021 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 59374005022 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374005023 catalytic residue [active] 59374005024 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 59374005025 PLD-like domain; Region: PLDc_2; pfam13091 59374005026 putative active site [active] 59374005027 catalytic site [active] 59374005028 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 59374005029 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 59374005030 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 59374005031 putative Mg++ binding site [ion binding]; other site 59374005032 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 59374005033 ATP-binding site [chemical binding]; other site 59374005034 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 59374005035 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 59374005036 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 59374005037 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 59374005038 DNA binding residues [nucleotide binding] 59374005039 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 59374005040 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 59374005041 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 59374005042 FeoA domain; Region: FeoA; pfam04023 59374005043 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 59374005044 ferrous iron transporter FeoB; Region: feoB; TIGR00437 59374005045 G1 box; other site 59374005046 GTP/Mg2+ binding site [chemical binding]; other site 59374005047 Switch I region; other site 59374005048 G2 box; other site 59374005049 G3 box; other site 59374005050 Switch II region; other site 59374005051 G4 box; other site 59374005052 G5 box; other site 59374005053 Nucleoside recognition; Region: Gate; pfam07670 59374005054 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 59374005055 Nucleoside recognition; Region: Gate; pfam07670 59374005056 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 59374005057 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 59374005058 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 59374005059 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 59374005060 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 59374005061 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 59374005062 motif II; other site 59374005063 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 59374005064 Protein export membrane protein; Region: SecD_SecF; cl14618 59374005065 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 59374005066 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 59374005067 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 59374005068 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 59374005069 Walker A/P-loop; other site 59374005070 ATP binding site [chemical binding]; other site 59374005071 Q-loop/lid; other site 59374005072 ABC transporter signature motif; other site 59374005073 Walker B; other site 59374005074 D-loop; other site 59374005075 H-loop/switch region; other site 59374005076 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 59374005077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374005078 Walker A/P-loop; other site 59374005079 ATP binding site [chemical binding]; other site 59374005080 Q-loop/lid; other site 59374005081 ABC transporter signature motif; other site 59374005082 Walker B; other site 59374005083 D-loop; other site 59374005084 H-loop/switch region; other site 59374005085 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 59374005086 Ca binding site [ion binding]; other site 59374005087 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 59374005088 TIGR02147 family protein; Region: Fsuc_second 59374005089 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 59374005090 Uncharacterized conserved protein [Function unknown]; Region: COG1262 59374005091 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374005092 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 59374005093 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 59374005094 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 59374005095 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 59374005096 maltose O-acetyltransferase; Provisional; Region: PRK10092 59374005097 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 59374005098 active site 59374005099 substrate binding site [chemical binding]; other site 59374005100 trimer interface [polypeptide binding]; other site 59374005101 CoA binding site [chemical binding]; other site 59374005102 Phosphate transporter family; Region: PHO4; pfam01384 59374005103 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 59374005104 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 59374005105 active site 59374005106 phosphorylation site [posttranslational modification] 59374005107 intermolecular recognition site; other site 59374005108 dimerization interface [polypeptide binding]; other site 59374005109 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 59374005110 DNA binding site [nucleotide binding] 59374005111 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 59374005112 dimer interface [polypeptide binding]; other site 59374005113 phosphorylation site [posttranslational modification] 59374005114 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 59374005115 ATP binding site [chemical binding]; other site 59374005116 Mg2+ binding site [ion binding]; other site 59374005117 G-X-G motif; other site 59374005118 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 59374005119 PhoU domain; Region: PhoU; pfam01895 59374005120 PhoU domain; Region: PhoU; pfam01895 59374005121 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 59374005122 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 59374005123 Walker A/P-loop; other site 59374005124 ATP binding site [chemical binding]; other site 59374005125 Q-loop/lid; other site 59374005126 ABC transporter signature motif; other site 59374005127 Walker B; other site 59374005128 D-loop; other site 59374005129 H-loop/switch region; other site 59374005130 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 59374005131 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 59374005132 dimer interface [polypeptide binding]; other site 59374005133 conserved gate region; other site 59374005134 putative PBP binding loops; other site 59374005135 ABC-ATPase subunit interface; other site 59374005136 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 59374005137 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 59374005138 dimer interface [polypeptide binding]; other site 59374005139 conserved gate region; other site 59374005140 putative PBP binding loops; other site 59374005141 ABC-ATPase subunit interface; other site 59374005142 PBP superfamily domain; Region: PBP_like_2; cl17296 59374005143 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 59374005144 PBP superfamily domain; Region: PBP_like_2; cl17296 59374005145 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 59374005146 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 59374005147 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 59374005148 active site 59374005149 catalytic tetrad [active] 59374005150 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 59374005151 AAA domain; Region: AAA_14; pfam13173 59374005152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 59374005153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 59374005154 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 59374005155 dimerization interface [polypeptide binding]; other site 59374005156 Uncharacterized conserved protein [Function unknown]; Region: COG4925 59374005157 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 59374005158 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 59374005159 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 59374005160 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 59374005161 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 59374005162 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374005163 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 59374005164 ATP binding site [chemical binding]; other site 59374005165 putative Mg++ binding site [ion binding]; other site 59374005166 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; cl17351 59374005167 nucleotide binding region [chemical binding]; other site 59374005168 ATP-binding site [chemical binding]; other site 59374005169 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 59374005170 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 59374005171 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 59374005172 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 59374005173 HsdM N-terminal domain; Region: HsdM_N; pfam12161 59374005174 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 59374005175 Methyltransferase domain; Region: Methyltransf_26; pfam13659 59374005176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 59374005177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 59374005178 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 59374005179 dimerization interface [polypeptide binding]; other site 59374005180 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 59374005181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374005182 Coenzyme A binding pocket [chemical binding]; other site 59374005183 Archaeal ATPase; Region: Arch_ATPase; pfam01637 59374005184 AAA domain; Region: AAA_14; pfam13173 59374005185 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 59374005186 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 59374005187 ZIP Zinc transporter; Region: Zip; pfam02535 59374005188 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 59374005189 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 59374005190 Methyltransferase domain; Region: Methyltransf_31; pfam13847 59374005191 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 59374005192 S-adenosylmethionine binding site [chemical binding]; other site 59374005193 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 59374005194 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 59374005195 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374005196 Walker A/P-loop; other site 59374005197 ATP binding site [chemical binding]; other site 59374005198 Q-loop/lid; other site 59374005199 ABC transporter signature motif; other site 59374005200 Walker B; other site 59374005201 D-loop; other site 59374005202 H-loop/switch region; other site 59374005203 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 59374005204 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 59374005205 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374005206 Walker A/P-loop; other site 59374005207 ATP binding site [chemical binding]; other site 59374005208 Q-loop/lid; other site 59374005209 ABC transporter signature motif; other site 59374005210 Walker B; other site 59374005211 D-loop; other site 59374005212 H-loop/switch region; other site 59374005213 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 59374005214 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 59374005215 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 59374005216 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 59374005217 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 59374005218 G1 box; other site 59374005219 GTP/Mg2+ binding site [chemical binding]; other site 59374005220 Switch I region; other site 59374005221 G2 box; other site 59374005222 G3 box; other site 59374005223 Switch II region; other site 59374005224 G4 box; other site 59374005225 G5 box; other site 59374005226 Nucleoside recognition; Region: Gate; pfam07670 59374005227 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 59374005228 Nucleoside recognition; Region: Gate; pfam07670 59374005229 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 59374005230 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 59374005231 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 59374005232 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 59374005233 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 59374005234 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 59374005235 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 59374005236 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 59374005237 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 59374005238 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 59374005239 Cache domain; Region: Cache_1; pfam02743 59374005240 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 59374005241 dimerization interface [polypeptide binding]; other site 59374005242 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374005243 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374005244 metal binding site [ion binding]; metal-binding site 59374005245 active site 59374005246 I-site; other site 59374005247 Cache domain; Region: Cache_1; pfam02743 59374005248 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 59374005249 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 59374005250 dimerization interface [polypeptide binding]; other site 59374005251 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374005252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374005253 metal binding site [ion binding]; metal-binding site 59374005254 active site 59374005255 I-site; other site 59374005256 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 59374005257 DivIVA protein; Region: DivIVA; pfam05103 59374005258 DivIVA domain; Region: DivI1A_domain; TIGR03544 59374005259 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 59374005260 Ribonuclease P; Region: Ribonuclease_P; pfam00825 59374005261 Haemolytic domain; Region: Haemolytic; pfam01809 59374005262 membrane protein insertase; Provisional; Region: PRK01318 59374005263 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 59374005264 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 59374005265 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 59374005266 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 59374005267 dimer interface [polypeptide binding]; other site 59374005268 catalytic triad [active] 59374005269 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 59374005270 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 59374005271 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 59374005272 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 59374005273 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005274 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374005275 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374005276 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 59374005277 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 59374005278 active site 59374005279 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374005280 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005281 putative metal binding site [ion binding]; other site 59374005282 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 59374005283 active site 59374005284 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374005285 ligand binding site [chemical binding]; other site 59374005286 metal binding site [ion binding]; metal-binding site 59374005287 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005288 putative metal binding site [ion binding]; other site 59374005289 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 59374005290 substrate binding site [chemical binding]; other site 59374005291 active site 59374005292 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374005293 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005294 putative metal binding site [ion binding]; other site 59374005295 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 59374005296 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 59374005297 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005298 putative metal binding site [ion binding]; other site 59374005299 Domain of unknown function (DUF303); Region: DUF303; pfam03629 59374005300 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005301 putative metal binding site [ion binding]; other site 59374005302 Domain of unknown function (DUF303); Region: DUF303; pfam03629 59374005303 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005304 putative metal binding site [ion binding]; other site 59374005305 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005306 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 59374005307 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 59374005308 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 59374005309 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 59374005310 active site 59374005311 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005312 putative metal binding site [ion binding]; other site 59374005313 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 59374005314 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 59374005315 alpha-galactosidase; Region: PLN02808; cl17638 59374005316 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005317 putative metal binding site [ion binding]; other site 59374005318 Right handed beta helix region; Region: Beta_helix; pfam13229 59374005319 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005320 putative metal binding site [ion binding]; other site 59374005321 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374005322 substrate binding site [chemical binding]; other site 59374005323 active site 59374005324 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374005325 metal binding site [ion binding]; metal-binding site 59374005326 ligand binding site [chemical binding]; other site 59374005327 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005328 putative metal binding site [ion binding]; other site 59374005329 HipA N-terminal domain; Region: Couple_hipA; pfam13657 59374005330 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 59374005331 HipA-like N-terminal domain; Region: HipA_N; pfam07805 59374005332 HipA-like C-terminal domain; Region: HipA_C; pfam07804 59374005333 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 59374005334 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 59374005335 non-specific DNA binding site [nucleotide binding]; other site 59374005336 salt bridge; other site 59374005337 sequence-specific DNA binding site [nucleotide binding]; other site 59374005338 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374005339 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374005340 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 59374005341 Part of AAA domain; Region: AAA_19; pfam13245 59374005342 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 59374005343 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 59374005344 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 59374005345 Protein of unknown function DUF262; Region: DUF262; pfam03235 59374005346 Uncharacterized conserved protein [Function unknown]; Region: COG1479 59374005347 Protein of unknown function DUF262; Region: DUF262; pfam03235 59374005348 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 59374005349 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 59374005350 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 59374005351 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 59374005352 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 59374005353 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 59374005354 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 59374005355 Ca binding site [ion binding]; other site 59374005356 ligand binding site I [chemical binding]; other site 59374005357 homodimer interface [polypeptide binding]; other site 59374005358 ligand binding site II [chemical binding]; other site 59374005359 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374005360 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005361 putative metal binding site [ion binding]; other site 59374005362 Glycosyl hydrolase family 10; Region: Glyco_10; smart00633 59374005363 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005364 putative metal binding site [ion binding]; other site 59374005365 Glycosyl hydrolase family 10; Region: Glyco_10; smart00633 59374005366 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005367 putative metal binding site [ion binding]; other site 59374005368 Glycosyl hydrolase family 10; Region: Glyco_10; smart00633 59374005369 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005370 putative metal binding site [ion binding]; other site 59374005371 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 59374005372 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 59374005373 dimer interface [polypeptide binding]; other site 59374005374 phosphorylation site [posttranslational modification] 59374005375 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 59374005376 ATP binding site [chemical binding]; other site 59374005377 Mg2+ binding site [ion binding]; other site 59374005378 G-X-G motif; other site 59374005379 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374005380 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 59374005381 active site 59374005382 phosphorylation site [posttranslational modification] 59374005383 intermolecular recognition site; other site 59374005384 dimerization interface [polypeptide binding]; other site 59374005385 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374005386 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 59374005387 active site 59374005388 phosphorylation site [posttranslational modification] 59374005389 intermolecular recognition site; other site 59374005390 dimerization interface [polypeptide binding]; other site 59374005391 potential frameshift: common BLAST hit: gi|261416188|ref|YP_003249871.1| response regulator receiver modulated metal dependent 59374005392 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 59374005393 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 59374005394 active site 59374005395 phosphorylation site [posttranslational modification] 59374005396 intermolecular recognition site; other site 59374005397 dimerization interface [polypeptide binding]; other site 59374005398 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374005399 Zn2+ binding site [ion binding]; other site 59374005400 Mg2+ binding site [ion binding]; other site 59374005401 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374005402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 59374005403 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 59374005404 dimer interface [polypeptide binding]; other site 59374005405 phosphorylation site [posttranslational modification] 59374005406 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 59374005407 ATP binding site [chemical binding]; other site 59374005408 Mg2+ binding site [ion binding]; other site 59374005409 G-X-G motif; other site 59374005410 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374005411 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 59374005412 active site 59374005413 phosphorylation site [posttranslational modification] 59374005414 intermolecular recognition site; other site 59374005415 dimerization interface [polypeptide binding]; other site 59374005416 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 59374005417 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 59374005418 active site 59374005419 phosphorylation site [posttranslational modification] 59374005420 intermolecular recognition site; other site 59374005421 dimerization interface [polypeptide binding]; other site 59374005422 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374005423 Zn2+ binding site [ion binding]; other site 59374005424 Mg2+ binding site [ion binding]; other site 59374005425 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374005426 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 59374005427 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 59374005428 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 59374005429 putative substrate translocation pore; other site 59374005430 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 59374005431 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 59374005432 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 59374005433 HIGH motif; other site 59374005434 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 59374005435 active site 59374005436 KMSKS motif; other site 59374005437 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 59374005438 tRNA binding surface [nucleotide binding]; other site 59374005439 anticodon binding site; other site 59374005440 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 59374005441 non-specific DNA binding site [nucleotide binding]; other site 59374005442 salt bridge; other site 59374005443 sequence-specific DNA binding site [nucleotide binding]; other site 59374005444 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 59374005445 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 59374005446 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 59374005447 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 59374005448 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 59374005449 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 59374005450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374005451 homodimer interface [polypeptide binding]; other site 59374005452 catalytic residue [active] 59374005453 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 59374005454 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 59374005455 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 59374005456 Walker A motif; other site 59374005457 ATP binding site [chemical binding]; other site 59374005458 Walker B motif; other site 59374005459 arginine finger; other site 59374005460 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 59374005461 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 59374005462 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 59374005463 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 59374005464 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 59374005465 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 59374005466 active site 59374005467 dimer interface [polypeptide binding]; other site 59374005468 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 59374005469 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 59374005470 active site 59374005471 FMN binding site [chemical binding]; other site 59374005472 substrate binding site [chemical binding]; other site 59374005473 3Fe-4S cluster binding site [ion binding]; other site 59374005474 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 59374005475 domain interface; other site 59374005476 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 59374005477 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 59374005478 NAD synthetase; Reviewed; Region: nadE; PRK02628 59374005479 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 59374005480 multimer interface [polypeptide binding]; other site 59374005481 active site 59374005482 catalytic triad [active] 59374005483 protein interface 1 [polypeptide binding]; other site 59374005484 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 59374005485 homodimer interface [polypeptide binding]; other site 59374005486 NAD binding pocket [chemical binding]; other site 59374005487 ATP binding pocket [chemical binding]; other site 59374005488 Mg binding site [ion binding]; other site 59374005489 active-site loop [active] 59374005490 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 59374005491 CTP synthetase; Validated; Region: pyrG; PRK05380 59374005492 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 59374005493 Catalytic site [active] 59374005494 active site 59374005495 UTP binding site [chemical binding]; other site 59374005496 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 59374005497 active site 59374005498 putative oxyanion hole; other site 59374005499 catalytic triad [active] 59374005500 A new structural DNA glycosylase; Region: AlkD_like; cd06561 59374005501 active site 59374005502 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 59374005503 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 59374005504 Z1 domain; Region: Z1; pfam10593 59374005505 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 59374005506 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 59374005507 DNA methylase; Region: N6_N4_Mtase; pfam01555 59374005508 DNA methylase; Region: N6_N4_Mtase; pfam01555 59374005509 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 59374005510 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 59374005511 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 59374005512 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 59374005513 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374005514 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 59374005515 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374005516 active site 59374005517 ATP binding site [chemical binding]; other site 59374005518 substrate binding site [chemical binding]; other site 59374005519 activation loop (A-loop); other site 59374005520 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 59374005521 cell shape determining protein, MreB/Mrl family; Region: mreB; TIGR00904 59374005522 nucleotide binding site [chemical binding]; other site 59374005523 putative NEF/HSP70 interaction site [polypeptide binding]; other site 59374005524 SBD interface [polypeptide binding]; other site 59374005525 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 59374005526 PIN domain; Region: PIN_3; pfam13470 59374005527 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 59374005528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 59374005529 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005530 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 59374005531 M6 family metalloprotease domain; Region: M6dom_TIGR03296 59374005532 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 59374005533 putative nucleotide binding site [chemical binding]; other site 59374005534 uridine monophosphate binding site [chemical binding]; other site 59374005535 homohexameric interface [polypeptide binding]; other site 59374005536 Domain of unknown function (DUF4421); Region: DUF4421; pfam14391 59374005537 ribosome recycling factor; Reviewed; Region: frr; PRK00083 59374005538 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 59374005539 hinge region; other site 59374005540 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 59374005541 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 59374005542 catalytic residue [active] 59374005543 putative FPP diphosphate binding site; other site 59374005544 putative FPP binding hydrophobic cleft; other site 59374005545 dimer interface [polypeptide binding]; other site 59374005546 putative IPP diphosphate binding site; other site 59374005547 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 59374005548 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 59374005549 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374005550 catalytic core [active] 59374005551 Uncharacterized conserved protein [Function unknown]; Region: COG1262 59374005552 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374005553 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 59374005554 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 59374005555 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 59374005556 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 59374005557 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 59374005558 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 59374005559 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374005560 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; pfam00759 59374005561 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374005562 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; pfam00759 59374005563 RIP metalloprotease RseP; Region: TIGR00054 59374005564 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 59374005565 active site 59374005566 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 59374005567 protein binding site [polypeptide binding]; other site 59374005568 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 59374005569 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 59374005570 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 59374005571 putative substrate binding region [chemical binding]; other site 59374005572 putative substrate binding region [chemical binding]; other site 59374005573 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 59374005574 TSCPD domain; Region: TSCPD; cl14834 59374005575 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 59374005576 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 59374005577 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374005578 TSCPD domain; Region: TSCPD; cl14834 59374005579 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 59374005580 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 59374005581 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 59374005582 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 59374005583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374005584 Coenzyme A binding pocket [chemical binding]; other site 59374005585 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 59374005586 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 59374005587 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 59374005588 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 59374005589 AIR carboxylase; Region: AIRC; pfam00731 59374005590 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 59374005591 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 59374005592 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 59374005593 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 59374005594 FeS/SAM binding site; other site 59374005595 Sporulation related domain; Region: SPOR; pfam05036 59374005596 Cache domain; Region: Cache_1; pfam02743 59374005597 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 59374005598 dimerization interface [polypeptide binding]; other site 59374005599 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 59374005600 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 59374005601 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 59374005602 Yqey-like protein; Region: YqeY; pfam09424 59374005603 Nif-specific regulatory protein; Region: nifA; TIGR01817 59374005604 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 59374005605 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 59374005606 Walker A motif; other site 59374005607 ATP binding site [chemical binding]; other site 59374005608 Walker B motif; other site 59374005609 arginine finger; other site 59374005610 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 59374005611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 59374005612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 59374005613 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 59374005614 dimerization interface [polypeptide binding]; other site 59374005615 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 59374005616 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 59374005617 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 59374005618 active site 59374005619 HIGH motif; other site 59374005620 dimer interface [polypeptide binding]; other site 59374005621 KMSKS motif; other site 59374005622 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 59374005623 RNA binding surface [nucleotide binding]; other site 59374005624 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 59374005625 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 59374005626 substrate binding site [chemical binding]; other site 59374005627 ATP binding site [chemical binding]; other site 59374005628 futalosine nucleosidase; Region: fut_nucase; TIGR03664 59374005629 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 59374005630 Cytochrome P450; Region: p450; cl12078 59374005631 Right handed beta helix region; Region: Beta_helix; pfam13229 59374005632 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 59374005633 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374005634 ligand binding site [chemical binding]; other site 59374005635 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 59374005636 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 59374005637 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 59374005638 binding surface 59374005639 TPR motif; other site 59374005640 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 59374005641 binding surface 59374005642 TPR motif; other site 59374005643 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 59374005644 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 59374005645 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 59374005646 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 59374005647 rod shape-determining protein MreB; Provisional; Region: PRK13927 59374005648 MreB and similar proteins; Region: MreB_like; cd10225 59374005649 nucleotide binding site [chemical binding]; other site 59374005650 Mg binding site [ion binding]; other site 59374005651 putative protofilament interaction site [polypeptide binding]; other site 59374005652 RodZ interaction site [polypeptide binding]; other site 59374005653 rod shape-determining protein MreC; Provisional; Region: PRK13922 59374005654 rod shape-determining protein MreC; Region: MreC; pfam04085 59374005655 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 59374005656 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 59374005657 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 59374005658 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 59374005659 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 59374005660 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 59374005661 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 59374005662 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 59374005663 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374005664 Zn2+ binding site [ion binding]; other site 59374005665 Mg2+ binding site [ion binding]; other site 59374005666 Lamin Tail Domain; Region: LTD; pfam00932 59374005667 Fn3 associated; Region: Fn3_assoc; pfam13287 59374005668 CotH protein; Region: CotH; pfam08757 59374005669 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 59374005670 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 59374005671 S-adenosylmethionine binding site [chemical binding]; other site 59374005672 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 59374005673 Flavoprotein; Region: Flavoprotein; pfam02441 59374005674 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 59374005675 UbiA prenyltransferase family; Region: UbiA; pfam01040 59374005676 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005677 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374005678 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 59374005679 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 59374005680 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 59374005681 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 59374005682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 59374005683 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 59374005684 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 59374005685 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 59374005686 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374005687 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 59374005688 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 59374005689 Walker A motif; other site 59374005690 ATP binding site [chemical binding]; other site 59374005691 DNA polymerase III subunit delta'; Validated; Region: PRK05917 59374005692 DNA polymerase III subunit delta'; Validated; Region: PRK08485 59374005693 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 59374005694 DHH family; Region: DHH; pfam01368 59374005695 DHHA1 domain; Region: DHHA1; pfam02272 59374005696 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 59374005697 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374005698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 59374005699 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 59374005700 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 59374005701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 59374005702 TIGR02147 family protein; Region: Fsuc_second 59374005703 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 59374005704 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 59374005705 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 59374005706 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 59374005707 active site 59374005708 homodimer interface [polypeptide binding]; other site 59374005709 catalytic site [active] 59374005710 acceptor binding site [chemical binding]; other site 59374005711 Glycosyl hydrolase family 45; Region: Glyco_hydro_45; pfam02015 59374005712 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 59374005713 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 59374005714 ATP binding site [chemical binding]; other site 59374005715 Mg++ binding site [ion binding]; other site 59374005716 motif III; other site 59374005717 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 59374005718 nucleotide binding region [chemical binding]; other site 59374005719 ATP-binding site [chemical binding]; other site 59374005720 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 59374005721 putative RNA binding site [nucleotide binding]; other site 59374005722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374005723 Walker A/P-loop; other site 59374005724 ATP binding site [chemical binding]; other site 59374005725 ABC transporter; Region: ABC_tran; pfam00005 59374005726 Q-loop/lid; other site 59374005727 ABC transporter signature motif; other site 59374005728 Walker B; other site 59374005729 D-loop; other site 59374005730 H-loop/switch region; other site 59374005731 Phospholipid methyltransferase; Region: PEMT; cl17370 59374005732 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 59374005733 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 59374005734 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 59374005735 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 59374005736 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 59374005737 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 59374005738 active site 59374005739 catalytic site [active] 59374005740 substrate binding site [chemical binding]; other site 59374005741 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 59374005742 putative acyl-acceptor binding pocket; other site 59374005743 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 59374005744 A new structural DNA glycosylase; Region: AlkD_like; cl11434 59374005745 active site 59374005746 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 59374005747 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 59374005748 FeS/SAM binding site; other site 59374005749 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 59374005750 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374005752 ABC transporter signature motif; other site 59374005753 Walker B; other site 59374005754 D-loop; other site 59374005755 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 59374005756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374005757 Walker A/P-loop; other site 59374005758 ATP binding site [chemical binding]; other site 59374005759 Q-loop/lid; other site 59374005760 ABC transporter signature motif; other site 59374005761 Walker B; other site 59374005762 D-loop; other site 59374005763 H-loop/switch region; other site 59374005764 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 59374005765 Domain of unknown function DUF59; Region: DUF59; pfam01883 59374005766 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 59374005767 Protein of unknown function (DUF971); Region: DUF971; pfam06155 59374005768 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 59374005769 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374005770 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 59374005771 DNA binding residues [nucleotide binding] 59374005772 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 59374005773 TPR motif; other site 59374005774 binding surface 59374005775 WW domain-binding protein 1; Region: WBP-1; pfam11669 59374005776 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 59374005777 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 59374005778 peptide chain release factor 1; Validated; Region: prfA; PRK00591 59374005779 This domain is found in peptide chain release factors; Region: PCRF; smart00937 59374005780 RF-1 domain; Region: RF-1; pfam00472 59374005781 Thymidylate synthase complementing protein; Region: Thy1; cl03630 59374005782 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 59374005783 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 59374005784 homodimer interaction site [polypeptide binding]; other site 59374005785 cofactor binding site; other site 59374005786 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 59374005787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005788 NAD(P) binding site [chemical binding]; other site 59374005789 active site 59374005790 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 59374005791 dimer interface [polypeptide binding]; other site 59374005792 ADP-ribose binding site [chemical binding]; other site 59374005793 active site 59374005794 nudix motif; other site 59374005795 metal binding site [ion binding]; metal-binding site 59374005796 TIGR02147 family protein; Region: Fsuc_second 59374005797 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 59374005798 putative active site [active] 59374005799 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 59374005800 NAD binding site [chemical binding]; other site 59374005801 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374005802 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 59374005803 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 59374005804 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 59374005805 phosphopeptide binding site; other site 59374005806 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374005807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374005808 metal binding site [ion binding]; metal-binding site 59374005809 active site 59374005810 I-site; other site 59374005811 fibro-slime domain; Region: Fibro_Slime; TIGR02148 59374005812 Sporulation related domain; Region: SPOR; pfam05036 59374005813 Part of AAA domain; Region: AAA_19; pfam13245 59374005814 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 59374005815 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 59374005816 active site 59374005817 HIGH motif; other site 59374005818 nucleotide binding site [chemical binding]; other site 59374005819 active site 59374005820 KMSKS motif; other site 59374005821 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 59374005822 active site 59374005823 catalytic site [active] 59374005824 substrate binding site [chemical binding]; other site 59374005825 DNA topoisomerase III; Validated; Region: PRK08173 59374005826 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 59374005827 active site 59374005828 putative interdomain interaction site [polypeptide binding]; other site 59374005829 putative metal-binding site [ion binding]; other site 59374005830 putative nucleotide binding site [chemical binding]; other site 59374005831 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 59374005832 domain I; other site 59374005833 DNA binding groove [nucleotide binding] 59374005834 phosphate binding site [ion binding]; other site 59374005835 domain II; other site 59374005836 domain III; other site 59374005837 nucleotide binding site [chemical binding]; other site 59374005838 catalytic site [active] 59374005839 domain IV; other site 59374005840 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 59374005841 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 59374005842 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 59374005843 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374005844 active site 59374005845 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 59374005846 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 59374005847 Planctomycetes uncharacterized domain TIGR03067; Region: Planc_TIGR03067 59374005848 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 59374005849 Pectate lyase; Region: Pec_lyase_C; cl01593 59374005850 TIGR02147 family protein; Region: Fsuc_second 59374005851 Right handed beta helix region; Region: Beta_helix; pfam13229 59374005852 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 59374005853 active site 59374005854 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374005855 Ca binding site [ion binding]; other site 59374005856 Ca binding site (active) [ion binding]; other site 59374005857 ligand binding site [chemical binding]; other site 59374005858 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 59374005859 active site 59374005860 catalytic triad [active] 59374005861 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005862 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 59374005863 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374005864 Ca binding site [ion binding]; other site 59374005865 Ca binding site (active) [ion binding]; other site 59374005866 ligand binding site [chemical binding]; other site 59374005867 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374005868 substrate binding site [chemical binding]; other site 59374005869 active site 59374005870 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 59374005871 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374005872 substrate binding site [chemical binding]; other site 59374005873 active site 59374005874 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 59374005875 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 59374005876 substrate binding site [chemical binding]; other site 59374005877 active site 59374005878 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 59374005879 Ca binding site [ion binding]; other site 59374005880 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374005881 ligand binding site [chemical binding]; other site 59374005882 metal binding site [ion binding]; metal-binding site 59374005883 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 59374005884 TIGR02147 family protein; Region: Fsuc_second 59374005885 CotH protein; Region: CotH; pfam08757 59374005886 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 59374005887 metal binding site [ion binding]; metal-binding site 59374005888 active site 59374005889 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005890 TIGR02147 family protein; Region: Fsuc_second 59374005891 TIGR02147 family protein; Region: Fsuc_second 59374005892 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 59374005893 Carbohydrate binding domain (family 11); Region: CBM_11; pfam03425 59374005894 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374005895 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 59374005896 Pectate lyase; Region: Pec_lyase_C; cl01593 59374005897 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 59374005898 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 59374005899 putative phosphate acyltransferase; Provisional; Region: PRK05331 59374005900 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 59374005901 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 59374005902 NAD(P) binding site [chemical binding]; other site 59374005903 homotetramer interface [polypeptide binding]; other site 59374005904 homodimer interface [polypeptide binding]; other site 59374005905 active site 59374005906 acyl carrier protein; Provisional; Region: acpP; PRK00982 59374005907 ribonuclease III; Reviewed; Region: rnc; PRK00102 59374005908 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 59374005909 dimerization interface [polypeptide binding]; other site 59374005910 active site 59374005911 metal binding site [ion binding]; metal-binding site 59374005912 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 59374005913 dsRNA binding site [nucleotide binding]; other site 59374005914 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 59374005915 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 59374005916 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005917 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 59374005918 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 59374005919 transmembrane helices; other site 59374005920 hypothetical protein; Provisional; Region: PRK11479 59374005921 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 59374005922 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 59374005923 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 59374005924 HlyD family secretion protein; Region: HlyD_2; pfam12700 59374005925 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 59374005926 HlyD family secretion protein; Region: HlyD_3; pfam13437 59374005927 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 59374005928 Cation efflux family; Region: Cation_efflux; pfam01545 59374005929 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 59374005930 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 59374005931 active site 59374005932 catalytic tetrad [active] 59374005933 PA14 domain; Region: PA14; cl08459 59374005934 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 59374005935 active site 59374005936 catalytic residues [active] 59374005937 metal binding site [ion binding]; metal-binding site 59374005938 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374005939 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374005940 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005941 Protein kinase; unclassified specificity; Region: STYKc; smart00221 59374005942 Catalytic domain of Protein Kinases; Region: PKc; cd00180 59374005943 active site 59374005944 ATP binding site [chemical binding]; other site 59374005945 substrate binding site [chemical binding]; other site 59374005946 activation loop (A-loop); other site 59374005947 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 59374005948 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 59374005949 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 59374005950 B12 binding site [chemical binding]; other site 59374005951 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 59374005952 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 59374005953 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374005954 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374005955 metal binding site [ion binding]; metal-binding site 59374005956 active site 59374005957 I-site; other site 59374005958 AAA domain; Region: AAA_14; pfam13173 59374005959 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 59374005960 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374005961 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 59374005962 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 59374005963 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374005964 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374005965 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 59374005966 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 59374005967 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374005968 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374005969 active site 59374005970 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374005971 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 59374005972 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 59374005973 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374005974 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 59374005975 active site 59374005976 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 59374005977 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 59374005978 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 59374005979 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 59374005980 Radical SAM superfamily; Region: Radical_SAM; pfam04055 59374005981 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 59374005982 FeS/SAM binding site; other site 59374005983 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 59374005984 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 59374005985 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 59374005986 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 59374005987 Ligand binding site; other site 59374005988 Putative Catalytic site; other site 59374005989 DXD motif; other site 59374005990 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 59374005991 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 59374005992 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 59374005993 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 59374005994 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 59374005995 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 59374005996 inhibitor-cofactor binding pocket; inhibition site 59374005997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374005998 catalytic residue [active] 59374005999 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 59374006000 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374006001 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 59374006002 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 59374006003 putative DNA binding site [nucleotide binding]; other site 59374006004 putative Zn2+ binding site [ion binding]; other site 59374006005 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 59374006006 non-specific DNA binding site [nucleotide binding]; other site 59374006007 salt bridge; other site 59374006008 sequence-specific DNA binding site [nucleotide binding]; other site 59374006009 Domain of unknown function (DUF955); Region: DUF955; pfam06114 59374006010 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 59374006011 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 59374006012 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 59374006013 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 59374006014 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374006015 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 59374006016 glycogen/starch synthase, ADP-glucose type; Region: glgA; TIGR02095 59374006017 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 59374006018 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 59374006019 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 59374006020 recombination protein F; Reviewed; Region: recF; PRK00064 59374006021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374006022 Walker A/P-loop; other site 59374006023 ATP binding site [chemical binding]; other site 59374006024 Q-loop/lid; other site 59374006025 ABC transporter signature motif; other site 59374006026 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374006027 ABC transporter signature motif; other site 59374006028 Walker B; other site 59374006029 D-loop; other site 59374006030 H-loop/switch region; other site 59374006031 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 59374006032 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 59374006033 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 59374006034 EamA-like transporter family; Region: EamA; cl17759 59374006035 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 59374006036 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 59374006037 CoA-binding site [chemical binding]; other site 59374006038 ATP-binding [chemical binding]; other site 59374006039 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 59374006040 Domain of unknown function (DUF4423); Region: DUF4423; pfam14394 59374006041 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 59374006042 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 59374006043 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 59374006044 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 59374006045 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 59374006046 active site 59374006047 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 59374006048 Domain of unknown function (DUF955); Region: DUF955; pfam06114 59374006049 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 59374006050 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 59374006051 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 59374006052 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 59374006053 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 59374006054 active site 59374006055 dimer interface [polypeptide binding]; other site 59374006056 motif 1; other site 59374006057 motif 2; other site 59374006058 motif 3; other site 59374006059 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 59374006060 anticodon binding site; other site 59374006061 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374006062 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374006063 metal binding site [ion binding]; metal-binding site 59374006064 active site 59374006065 I-site; other site 59374006066 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374006067 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374006068 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 59374006069 Rubredoxin; Region: Rubredoxin; pfam00301 59374006070 iron binding site [ion binding]; other site 59374006071 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 59374006072 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 59374006073 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 59374006074 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 59374006075 active site 59374006076 catalytic residues [active] 59374006077 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 59374006078 putative deacylase active site [active] 59374006079 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374006080 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374006081 metal binding site [ion binding]; metal-binding site 59374006082 active site 59374006083 I-site; other site 59374006084 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 59374006085 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 59374006086 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 59374006087 homodimer interface [polypeptide binding]; other site 59374006088 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 59374006089 active site pocket [active] 59374006090 WYL domain; Region: WYL; pfam13280 59374006091 Virulence protein [General function prediction only]; Region: COG3943 59374006092 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 59374006093 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 59374006094 homodimer interface [polypeptide binding]; other site 59374006095 putative active site [active] 59374006096 catalytic site [active] 59374006097 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 59374006098 putative active site [active] 59374006099 ORF6N domain; Region: ORF6N; pfam10543 59374006100 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 59374006101 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374006102 Walker A motif; other site 59374006103 ATP binding site [chemical binding]; other site 59374006104 Walker B motif; other site 59374006105 arginine finger; other site 59374006106 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 59374006107 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374006108 Walker A motif; other site 59374006109 ATP binding site [chemical binding]; other site 59374006110 Walker B motif; other site 59374006111 arginine finger; other site 59374006112 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374006113 catalytic core [active] 59374006114 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 59374006115 NADH(P)-binding; Region: NAD_binding_10; pfam13460 59374006116 NAD binding site [chemical binding]; other site 59374006117 active site 59374006118 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 59374006119 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 59374006120 Na binding site [ion binding]; other site 59374006121 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 59374006122 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 59374006123 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 59374006124 FeS/SAM binding site; other site 59374006125 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 59374006126 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 59374006127 Cl- selectivity filter; other site 59374006128 Cl- binding residues [ion binding]; other site 59374006129 pore gating glutamate residue; other site 59374006130 dimer interface [polypeptide binding]; other site 59374006131 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 59374006132 CotH protein; Region: CotH; pfam08757 59374006133 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 59374006134 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 59374006135 acyl-activating enzyme (AAE) consensus motif; other site 59374006136 AMP binding site [chemical binding]; other site 59374006137 active site 59374006138 CoA binding site [chemical binding]; other site 59374006139 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 59374006140 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 59374006141 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 59374006142 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 59374006143 Surface antigen; Region: Bac_surface_Ag; pfam01103 59374006144 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 59374006145 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 59374006146 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 59374006147 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 59374006148 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 59374006149 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 59374006150 TIGR02147 family protein; Region: Fsuc_second 59374006151 NADH dehydrogenase subunit B; Validated; Region: PRK06411 59374006152 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 59374006153 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 59374006154 NADH dehydrogenase subunit D; Validated; Region: PRK06075 59374006155 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 59374006156 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 59374006157 putative dimer interface [polypeptide binding]; other site 59374006158 [2Fe-2S] cluster binding site [ion binding]; other site 59374006159 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 59374006160 SLBB domain; Region: SLBB; pfam10531 59374006161 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 59374006162 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 59374006163 catalytic loop [active] 59374006164 iron binding site [ion binding]; other site 59374006165 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 59374006166 Molybdopterin-Binding (MopB) 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- and...; Region: Molybdopterin-Binding; cl09928 59374006167 Molybdopterin-Binding (MopB) 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- and...; Region: Molybdopterin-Binding; cl09928 59374006168 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 59374006169 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 59374006170 NADH dehydrogenase; Region: NADHdh; cl00469 59374006171 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 59374006172 4Fe-4S binding domain; Region: Fer4; pfam00037 59374006173 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 59374006174 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 59374006175 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 59374006176 hydrogenase 4 subunit D; Validated; Region: PRK06525 59374006177 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 59374006178 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 59374006179 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 59374006180 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 59374006181 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 59374006182 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 59374006183 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 59374006184 homotrimer interaction site [polypeptide binding]; other site 59374006185 zinc binding site [ion binding]; other site 59374006186 CDP-binding sites; other site 59374006187 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 59374006188 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 59374006189 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 59374006190 PhoU domain; Region: PhoU; pfam01895 59374006191 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374006192 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 59374006193 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 59374006194 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 59374006195 ATP binding site [chemical binding]; other site 59374006196 putative Mg++ binding site [ion binding]; other site 59374006197 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 59374006198 nucleotide binding region [chemical binding]; other site 59374006199 ATP-binding site [chemical binding]; other site 59374006200 Rhomboid family; Region: Rhomboid; pfam01694 59374006201 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 59374006202 active site 59374006203 glutathione-disulfide reductase, plant; Region: gluta_reduc_2; TIGR01424 59374006204 Predicted permeases [General function prediction only]; Region: COG0795 59374006205 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 59374006206 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 59374006207 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 59374006208 Predicted permeases [General function prediction only]; Region: COG0795 59374006209 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 59374006210 GAF domain; Region: GAF_2; pfam13185 59374006211 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 59374006212 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374006213 metal binding site [ion binding]; metal-binding site 59374006214 active site 59374006215 I-site; other site 59374006216 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 59374006217 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 59374006218 Na binding site [ion binding]; other site 59374006219 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 59374006220 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 59374006221 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 59374006222 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 59374006223 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 59374006224 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 59374006225 FeS/SAM binding site; other site 59374006226 Protein of unknown function (DUF511); Region: DUF511; pfam04373 59374006227 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 59374006228 active site 59374006229 catalytic triad [active] 59374006230 oxyanion hole [active] 59374006231 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 59374006232 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 59374006233 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 59374006234 AAA domain; Region: AAA_30; pfam13604 59374006235 Family description; Region: UvrD_C_2; pfam13538 59374006236 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 59374006237 Carbon starvation protein CstA; Region: CstA; pfam02554 59374006238 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 59374006239 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 59374006240 Quinolinate synthetase A protein; Region: NadA; pfam02445 59374006241 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 59374006242 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 59374006243 active site 59374006244 metal binding site [ion binding]; metal-binding site 59374006245 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 59374006246 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 59374006247 RNA binding surface [nucleotide binding]; other site 59374006248 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 59374006249 active site 59374006250 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 59374006251 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 59374006252 active site 59374006253 oligomerization interface [polypeptide binding]; other site 59374006254 metal binding site [ion binding]; metal-binding site 59374006255 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 59374006256 Recombination protein O N terminal; Region: RecO_N; pfam11967 59374006257 Recombination protein O C terminal; Region: RecO_C; pfam02565 59374006258 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 59374006259 nucleotide binding site/active site [active] 59374006260 HIT family signature motif; other site 59374006261 catalytic residue [active] 59374006262 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 59374006263 putative acyl-acceptor binding pocket; other site 59374006264 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 59374006265 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 59374006266 AAA domain; Region: AAA_11; pfam13086 59374006267 AAA domain; Region: AAA_30; pfam13604 59374006268 AAA domain; Region: AAA_11; pfam13086 59374006269 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 59374006270 AAA domain; Region: AAA_12; pfam13087 59374006271 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374006272 active site 59374006273 ATP binding site [chemical binding]; other site 59374006274 substrate binding site [chemical binding]; other site 59374006275 activation loop (A-loop); other site 59374006276 Protein phosphatase 2C; Region: PP2C_2; pfam13672 59374006277 active site 59374006278 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 59374006279 metal ion-dependent adhesion site (MIDAS); other site 59374006280 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 59374006281 Walker A motif; other site 59374006282 ATP binding site [chemical binding]; other site 59374006283 Walker B motif; other site 59374006284 arginine finger; other site 59374006285 Flavin Reductases; Region: FlaRed; cl00801 59374006286 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 59374006287 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 59374006288 motif II; other site 59374006289 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 59374006290 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 59374006291 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374006292 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 59374006293 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 59374006294 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 59374006295 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 59374006296 RNA binding site [nucleotide binding]; other site 59374006297 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 59374006298 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 59374006299 nucleotide binding site [chemical binding]; other site 59374006300 N-acetyl-L-glutamate binding site [chemical binding]; other site 59374006301 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374006302 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374006303 metal binding site [ion binding]; metal-binding site 59374006304 active site 59374006305 I-site; other site 59374006306 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 59374006307 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 59374006308 active site 59374006309 DNA binding site [nucleotide binding] 59374006310 Int/Topo IB signature motif; other site 59374006311 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 59374006312 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 59374006313 B12 binding domain; Region: B12-binding; pfam02310 59374006314 B12 binding site [chemical binding]; other site 59374006315 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 59374006316 FeS/SAM binding site; other site 59374006317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 59374006318 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 59374006319 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 59374006320 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 59374006321 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 59374006322 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 59374006323 Walker A/P-loop; other site 59374006324 ATP binding site [chemical binding]; other site 59374006325 Q-loop/lid; other site 59374006326 ABC transporter signature motif; other site 59374006327 Walker B; other site 59374006328 D-loop; other site 59374006329 H-loop/switch region; other site 59374006330 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 59374006331 Protein of unknown function (DUF330); Region: DUF330; cl01135 59374006332 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 59374006333 mce related protein; Region: MCE; pfam02470 59374006334 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 59374006335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374006336 Walker A/P-loop; other site 59374006337 ATP binding site [chemical binding]; other site 59374006338 Q-loop/lid; other site 59374006339 ABC transporter signature motif; other site 59374006340 Walker B; other site 59374006341 D-loop; other site 59374006342 H-loop/switch region; other site 59374006343 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 59374006344 Permease; Region: Permease; pfam02405 59374006345 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 59374006346 TRAM domain; Region: TRAM; pfam01938 59374006347 Carbohydrate binding domain (family 11); Region: CBM_11; pfam03425 59374006348 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374006349 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 59374006350 putative FMN binding site [chemical binding]; other site 59374006351 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 59374006352 dimer interface [polypeptide binding]; other site 59374006353 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 59374006354 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 59374006355 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 59374006356 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 59374006357 putative active site [active] 59374006358 substrate binding site [chemical binding]; other site 59374006359 putative cosubstrate binding site; other site 59374006360 catalytic site [active] 59374006361 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 59374006362 substrate binding site [chemical binding]; other site 59374006363 16S rRNA methyltransferase B; Provisional; Region: PRK14902 59374006364 NusB family; Region: NusB; pfam01029 59374006365 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 59374006366 S-adenosylmethionine binding site [chemical binding]; other site 59374006367 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 59374006368 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 59374006369 minor groove reading motif; other site 59374006370 helix-hairpin-helix signature motif; other site 59374006371 substrate binding pocket [chemical binding]; other site 59374006372 active site 59374006373 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 59374006374 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 59374006375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374006376 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 59374006377 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 59374006378 active site 59374006379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374006380 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 59374006381 NAD(P) binding site [chemical binding]; other site 59374006382 active site 59374006383 shikimate kinase; Reviewed; Region: aroK; PRK00131 59374006384 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 59374006385 ADP binding site [chemical binding]; other site 59374006386 magnesium binding site [ion binding]; other site 59374006387 putative shikimate binding site; other site 59374006388 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 59374006389 active site 59374006390 dimer interface [polypeptide binding]; other site 59374006391 metal binding site [ion binding]; metal-binding site 59374006392 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 59374006393 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 59374006394 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 59374006395 shikimate binding site; other site 59374006396 NAD(P) binding site [chemical binding]; other site 59374006397 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 59374006398 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 59374006399 G1 box; other site 59374006400 GTP/Mg2+ binding site [chemical binding]; other site 59374006401 Switch I region; other site 59374006402 G2 box; other site 59374006403 Switch II region; other site 59374006404 G3 box; other site 59374006405 G4 box; other site 59374006406 G5 box; other site 59374006407 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 59374006408 G1 box; other site 59374006409 GTP/Mg2+ binding site [chemical binding]; other site 59374006410 Switch I region; other site 59374006411 G2 box; other site 59374006412 G3 box; other site 59374006413 Switch II region; other site 59374006414 G4 box; other site 59374006415 G5 box; other site 59374006416 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 59374006417 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 59374006418 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 59374006419 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374006420 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 59374006421 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 59374006422 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 59374006423 Bacterial sugar transferase; Region: Bac_transf; pfam02397 59374006424 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374006425 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374006426 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 59374006427 catalytic triad [active] 59374006428 homoserine dehydrogenase; Provisional; Region: PRK06349 59374006429 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 59374006430 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 59374006431 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 59374006432 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 59374006433 Bacterial sugar transferase; Region: Bac_transf; pfam02397 59374006434 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 59374006435 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 59374006436 dimerization interface [polypeptide binding]; other site 59374006437 active site 59374006438 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374006439 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 59374006440 NAD binding site [chemical binding]; other site 59374006441 putative substrate binding site 2 [chemical binding]; other site 59374006442 putative substrate binding site 1 [chemical binding]; other site 59374006443 active site 59374006444 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 59374006445 Helix-turn-helix domain; Region: HTH_18; pfam12833 59374006446 Repair protein; Region: Repair_PSII; pfam04536 59374006447 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 59374006448 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 59374006449 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 59374006450 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 59374006451 putative active site [active] 59374006452 catalytic triad [active] 59374006453 putative dimer interface [polypeptide binding]; other site 59374006454 Predicted methyltransferases [General function prediction only]; Region: COG0313 59374006455 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 59374006456 putative SAM binding site [chemical binding]; other site 59374006457 putative homodimer interface [polypeptide binding]; other site 59374006458 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 59374006459 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374006460 putative active site [active] 59374006461 putative metal binding site [ion binding]; other site 59374006462 TIGR02147 family protein; Region: Fsuc_second 59374006463 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 59374006464 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 59374006465 catalytic residues [active] 59374006466 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 59374006467 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 59374006468 substrate binding site [chemical binding]; other site 59374006469 glutamase interaction surface [polypeptide binding]; other site 59374006470 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 59374006471 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 59374006472 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 59374006473 Walker A motif; other site 59374006474 ATP binding site [chemical binding]; other site 59374006475 Walker B motif; other site 59374006476 arginine finger; other site 59374006477 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 59374006478 Walker A motif; other site 59374006479 ATP binding site [chemical binding]; other site 59374006480 Walker B motif; other site 59374006481 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 59374006482 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 59374006483 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 59374006484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374006485 homodimer interface [polypeptide binding]; other site 59374006486 catalytic residue [active] 59374006487 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 59374006488 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 59374006489 active site 59374006490 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 59374006491 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 59374006492 Competence protein; Region: Competence; pfam03772 59374006493 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 59374006494 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 59374006495 Pregnancy-associated plasma protein-A; Region: Peptidase_M43; cl17409 59374006496 active site 59374006497 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 59374006498 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 59374006499 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 59374006500 active site 59374006501 DNA binding site [nucleotide binding] 59374006502 Int/Topo IB signature motif; other site 59374006503 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 59374006504 anti sigma factor interaction site; other site 59374006505 regulatory phosphorylation site [posttranslational modification]; other site 59374006506 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374006507 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 59374006508 dimer interface [polypeptide binding]; other site 59374006509 ADP-ribose binding site [chemical binding]; other site 59374006510 active site 59374006511 nudix motif; other site 59374006512 metal binding site [ion binding]; metal-binding site 59374006513 PA14 domain; Region: PA14; cl08459 59374006514 ribosome maturation protein RimP; Reviewed; Region: PRK00092 59374006515 Sm and related proteins; Region: Sm_like; cl00259 59374006516 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 59374006517 putative oligomer interface [polypeptide binding]; other site 59374006518 putative RNA binding site [nucleotide binding]; other site 59374006519 transcription termination factor NusA; Region: NusA; TIGR01953 59374006520 NusA N-terminal domain; Region: NusA_N; pfam08529 59374006521 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 59374006522 RNA binding site [nucleotide binding]; other site 59374006523 homodimer interface [polypeptide binding]; other site 59374006524 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 59374006525 G-X-X-G motif; other site 59374006526 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 59374006527 G-X-X-G motif; other site 59374006528 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 59374006529 translation initiation factor IF-2; Region: IF-2; TIGR00487 59374006530 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 59374006531 G1 box; other site 59374006532 putative GEF interaction site [polypeptide binding]; other site 59374006533 GTP/Mg2+ binding site [chemical binding]; other site 59374006534 Switch I region; other site 59374006535 G2 box; other site 59374006536 G3 box; other site 59374006537 Switch II region; other site 59374006538 G4 box; other site 59374006539 G5 box; other site 59374006540 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 59374006541 Translation-initiation factor 2; Region: IF-2; pfam11987 59374006542 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 59374006543 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 59374006544 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 59374006545 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 59374006546 RNA binding site [nucleotide binding]; other site 59374006547 active site 59374006548 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 59374006549 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 59374006550 active site 59374006551 Riboflavin kinase; Region: Flavokinase; pfam01687 59374006552 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 59374006553 Glycosyl hydrolase family 10; Region: Glyco_10; smart00633 59374006554 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 59374006555 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374006556 UDP-apiose/xylose synthase; Region: PLN02427 59374006557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374006558 NAD(P) binding site [chemical binding]; other site 59374006559 active site 59374006560 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 59374006561 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374006562 Ligand binding site; other site 59374006563 Putative Catalytic site; other site 59374006564 DXD motif; other site 59374006565 MoxR-like ATPases [General function prediction only]; Region: COG0714 59374006566 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 59374006567 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 59374006568 Protein of unknown function DUF58; Region: DUF58; pfam01882 59374006569 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 59374006570 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 59374006571 Domain of unknown function (DUF303); Region: DUF303; pfam03629 59374006572 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 59374006573 homodimer interaction site [polypeptide binding]; other site 59374006574 cofactor binding site; other site 59374006575 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 59374006576 Asp-box motif; other site 59374006577 BNR repeat-like domain; Region: BNR_2; pfam13088 59374006578 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374006579 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374006580 catalytic core [active] 59374006581 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 59374006582 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 59374006583 NADP binding site [chemical binding]; other site 59374006584 active site 59374006585 putative substrate binding site [chemical binding]; other site 59374006586 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 59374006587 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 59374006588 FeS/SAM binding site; other site 59374006589 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 59374006590 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 59374006591 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 59374006592 Walker A/P-loop; other site 59374006593 ATP binding site [chemical binding]; other site 59374006594 Q-loop/lid; other site 59374006595 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 59374006596 ABC transporter signature motif; other site 59374006597 Walker B; other site 59374006598 D-loop; other site 59374006599 H-loop/switch region; other site 59374006600 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 59374006601 S-adenosylmethionine binding site [chemical binding]; other site 59374006602 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374006603 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 59374006604 active site 59374006605 putative catalytic site [active] 59374006606 phosphate binding site A [ion binding]; other site 59374006607 DNA binding site [nucleotide binding] 59374006608 metal binding site A [ion binding]; metal-binding site 59374006609 putative AP binding site [nucleotide binding]; other site 59374006610 putative metal binding site B [ion binding]; other site 59374006611 phosphate binding site B [ion binding]; other site 59374006612 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 59374006613 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 59374006614 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 59374006615 GAF domain; Region: GAF; pfam01590 59374006616 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374006617 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374006618 metal binding site [ion binding]; metal-binding site 59374006619 active site 59374006620 I-site; other site 59374006621 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374006622 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374006623 metal binding site [ion binding]; metal-binding site 59374006624 active site 59374006625 I-site; other site 59374006626 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 59374006627 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 59374006628 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 59374006629 generic binding surface II; other site 59374006630 generic binding surface I; other site 59374006631 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 59374006632 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 59374006633 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 59374006634 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 59374006635 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 59374006636 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 59374006637 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 59374006638 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 59374006639 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 59374006640 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 59374006641 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 59374006642 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 59374006643 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 59374006644 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 59374006645 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 59374006646 NADH dehydrogenase subunit B; Validated; Region: PRK06411 59374006647 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 59374006648 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 59374006649 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 59374006650 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374006651 Zn2+ binding site [ion binding]; other site 59374006652 Mg2+ binding site [ion binding]; other site 59374006653 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 59374006654 synthetase active site [active] 59374006655 NTP binding site [chemical binding]; other site 59374006656 metal binding site [ion binding]; metal-binding site 59374006657 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 59374006658 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 59374006659 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 59374006660 phosphoserine phosphatase/homoserine phosphotransferase bifunctional protein; Region: HSK-PSP; TIGR02137 59374006661 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 59374006662 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 59374006663 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 59374006664 dimerization interface [polypeptide binding]; other site 59374006665 domain crossover interface; other site 59374006666 redox-dependent activation switch; other site 59374006667 DJ-1 family protein; Region: not_thiJ; TIGR01383 59374006668 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 59374006669 conserved cys residue [active] 59374006670 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 59374006671 putative ABC transporter; Region: ycf24; CHL00085 59374006672 DNA topoisomerase III; Provisional; Region: PRK07726 59374006673 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 59374006674 active site 59374006675 putative metal-binding site [ion binding]; other site 59374006676 putative interdomain interaction site [polypeptide binding]; other site 59374006677 putative nucleotide binding site [chemical binding]; other site 59374006678 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; cl11986 59374006679 domain I; other site 59374006680 DNA binding groove [nucleotide binding] 59374006681 phosphate binding site [ion binding]; other site 59374006682 domain II; other site 59374006683 domain III; other site 59374006684 nucleotide binding site [chemical binding]; other site 59374006685 catalytic site [active] 59374006686 domain IV; other site 59374006687 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 59374006688 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 59374006689 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 59374006690 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 59374006691 2-isopropylmalate synthase; Validated; Region: PRK00915 59374006692 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 59374006693 active site 59374006694 catalytic residues [active] 59374006695 metal binding site [ion binding]; metal-binding site 59374006696 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 59374006697 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374006698 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374006699 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 59374006700 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 59374006701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374006702 homodimer interface [polypeptide binding]; other site 59374006703 catalytic residue [active] 59374006704 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 59374006705 Carbohydrate binding domain (family 11); Region: CBM_11; pfam03425 59374006706 Carbohydrate binding domain (family 11); Region: CBM_11; pfam03425 59374006707 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374006708 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 59374006709 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 59374006710 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 59374006711 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 59374006712 Preprotein translocase SecG subunit; Region: SecG; cl09123 59374006713 triosephosphate isomerase; Provisional; Region: PRK14567 59374006714 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 59374006715 substrate binding site [chemical binding]; other site 59374006716 dimer interface [polypeptide binding]; other site 59374006717 catalytic triad [active] 59374006718 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374006719 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374006720 recombinase A; Provisional; Region: recA; PRK09354 59374006721 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 59374006722 hexamer interface [polypeptide binding]; other site 59374006723 Walker A motif; other site 59374006724 ATP binding site [chemical binding]; other site 59374006725 Walker B motif; other site 59374006726 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 59374006727 catalytic core [active] 59374006728 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006729 Ca2+ binding site [ion binding]; other site 59374006730 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006731 Ca2+ binding site [ion binding]; other site 59374006732 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006733 Ca2+ binding site [ion binding]; other site 59374006734 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006735 Ca2+ binding site [ion binding]; other site 59374006736 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006737 Ca2+ binding site [ion binding]; other site 59374006738 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006739 Ca2+ binding site [ion binding]; other site 59374006740 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006741 Ca2+ binding site [ion binding]; other site 59374006742 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006743 Ca2+ binding site [ion binding]; other site 59374006744 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006745 Ca2+ binding site [ion binding]; other site 59374006746 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006747 Ca2+ binding site [ion binding]; other site 59374006748 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006749 Ca2+ binding site [ion binding]; other site 59374006750 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 59374006751 Ca2+ binding site [ion binding]; other site 59374006752 translation initiation factor Sui1; Validated; Region: PRK06824 59374006753 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 59374006754 putative rRNA binding site [nucleotide binding]; other site 59374006755 endonuclease IV; Provisional; Region: PRK01060 59374006756 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 59374006757 AP (apurinic/apyrimidinic) site pocket; other site 59374006758 DNA interaction; other site 59374006759 Metal-binding active site; metal-binding site 59374006760 hypothetical protein; Provisional; Region: PRK13665 59374006761 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 59374006762 active site residues [active] 59374006763 dimer interface [polypeptide binding]; other site 59374006764 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 59374006765 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 59374006766 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 59374006767 dimer interface [polypeptide binding]; other site 59374006768 phosphorylation site [posttranslational modification] 59374006769 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 59374006770 ATP binding site [chemical binding]; other site 59374006771 Mg2+ binding site [ion binding]; other site 59374006772 G-X-G motif; other site 59374006773 Response regulator receiver domain; Region: Response_reg; pfam00072 59374006774 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 59374006775 active site 59374006776 phosphorylation site [posttranslational modification] 59374006777 intermolecular recognition site; other site 59374006778 dimerization interface [polypeptide binding]; other site 59374006779 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374006780 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 59374006781 active site 59374006782 phosphorylation site [posttranslational modification] 59374006783 intermolecular recognition site; other site 59374006784 dimerization interface [polypeptide binding]; other site 59374006785 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 59374006786 16S/18S rRNA binding site [nucleotide binding]; other site 59374006787 S13e-L30e interaction site [polypeptide binding]; other site 59374006788 25S rRNA binding site [nucleotide binding]; other site 59374006789 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 59374006790 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 59374006791 RNase E interface [polypeptide binding]; other site 59374006792 trimer interface [polypeptide binding]; other site 59374006793 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 59374006794 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 59374006795 RNase E interface [polypeptide binding]; other site 59374006796 trimer interface [polypeptide binding]; other site 59374006797 active site 59374006798 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 59374006799 putative nucleic acid binding region [nucleotide binding]; other site 59374006800 G-X-X-G motif; other site 59374006801 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 59374006802 RNA binding site [nucleotide binding]; other site 59374006803 domain interface; other site 59374006804 potential frameshift: common BLAST hit: gi|261416774|ref|YP_003250457.1| metal dependent phosphohydrolase 59374006805 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374006806 Zn2+ binding site [ion binding]; other site 59374006807 Mg2+ binding site [ion binding]; other site 59374006808 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374006809 Zn2+ binding site [ion binding]; other site 59374006810 Mg2+ binding site [ion binding]; other site 59374006811 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 59374006812 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 59374006813 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 59374006814 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 59374006815 putative ligand binding site [chemical binding]; other site 59374006816 putative NAD binding site [chemical binding]; other site 59374006817 putative catalytic site [active] 59374006818 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 59374006819 L-serine binding site [chemical binding]; other site 59374006820 ACT domain interface; other site 59374006821 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 59374006822 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 59374006823 acyl-activating enzyme (AAE) consensus motif; other site 59374006824 putative AMP binding site [chemical binding]; other site 59374006825 putative active site [active] 59374006826 putative CoA binding site [chemical binding]; other site 59374006827 seryl-tRNA synthetase; Provisional; Region: PRK05431 59374006828 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 59374006829 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 59374006830 dimer interface [polypeptide binding]; other site 59374006831 active site 59374006832 motif 1; other site 59374006833 motif 2; other site 59374006834 motif 3; other site 59374006835 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 59374006836 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 59374006837 Stage II sporulation protein; Region: SpoIID; pfam08486 59374006838 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 59374006839 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 59374006840 active site 59374006841 catalytic residues [active] 59374006842 metal binding site [ion binding]; metal-binding site 59374006843 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 59374006844 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 59374006845 ligand binding site [chemical binding]; other site 59374006846 flexible hinge region; other site 59374006847 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 59374006848 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 59374006849 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 59374006850 RimM N-terminal domain; Region: RimM; pfam01782 59374006851 PRC-barrel domain; Region: PRC; pfam05239 59374006852 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 59374006853 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 59374006854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374006855 metal binding site [ion binding]; metal-binding site 59374006856 active site 59374006857 I-site; other site 59374006858 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 59374006859 signal recognition particle protein; Provisional; Region: PRK10867 59374006860 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 59374006861 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 59374006862 P loop; other site 59374006863 GTP binding site [chemical binding]; other site 59374006864 Signal peptide binding domain; Region: SRP_SPB; pfam02978 59374006865 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 59374006866 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 59374006867 hypothetical protein; Provisional; Region: PRK08912 59374006868 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 59374006869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374006870 homodimer interface [polypeptide binding]; other site 59374006871 catalytic residue [active] 59374006872 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 59374006873 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374006874 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 59374006875 active site 59374006876 catalytic residues [active] 59374006877 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 59374006878 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 59374006879 Walker A motif; other site 59374006880 ATP binding site [chemical binding]; other site 59374006881 Walker B motif; other site 59374006882 arginine finger; other site 59374006883 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 59374006884 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 59374006885 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 59374006886 transcription termination factor Rho; Provisional; Region: rho; PRK09376 59374006887 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 59374006888 RNA binding site [nucleotide binding]; other site 59374006889 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 59374006890 Walker A motif; other site 59374006891 ATP binding site [chemical binding]; other site 59374006892 Walker B motif; other site 59374006893 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 59374006894 catalytic center binding site [active] 59374006895 ATP binding site [chemical binding]; other site 59374006896 Pantoate-beta-alanine ligase; Region: PanC; cd00560 59374006897 pantoate--beta-alanine ligase; Region: panC; TIGR00018 59374006898 active site 59374006899 ATP-binding site [chemical binding]; other site 59374006900 pantoate-binding site; other site 59374006901 HXXH motif; other site 59374006902 CHASE2 domain; Region: CHASE2; pfam05226 59374006903 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 59374006904 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 59374006905 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 59374006906 cyclase homology domain; Region: CHD; cd07302 59374006907 nucleotidyl binding site; other site 59374006908 metal binding site [ion binding]; metal-binding site 59374006909 dimer interface [polypeptide binding]; other site 59374006910 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 59374006911 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 59374006912 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 59374006913 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 59374006914 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 59374006915 AMP-binding enzyme; Region: AMP-binding; pfam00501 59374006916 acyl-activating enzyme (AAE) consensus motif; other site 59374006917 AMP binding site [chemical binding]; other site 59374006918 active site 59374006919 CoA binding site [chemical binding]; other site 59374006920 Condensation domain; Region: Condensation; pfam00668 59374006921 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 59374006922 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 59374006923 anti sigma factor interaction site; other site 59374006924 regulatory phosphorylation site [posttranslational modification]; other site 59374006925 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 59374006926 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374006927 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 59374006928 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 59374006929 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 59374006930 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 59374006931 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 59374006932 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 59374006933 5S rRNA interface [nucleotide binding]; other site 59374006934 CTC domain interface [polypeptide binding]; other site 59374006935 L16 interface [polypeptide binding]; other site 59374006936 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 59374006937 Domain of unknown function (DUF4417); Region: DUF4417; pfam14386 59374006938 Domain of unknown function (DUF955); Region: DUF955; pfam06114 59374006939 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 59374006940 non-specific DNA binding site [nucleotide binding]; other site 59374006941 salt bridge; other site 59374006942 sequence-specific DNA binding site [nucleotide binding]; other site 59374006943 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 59374006944 Methyltransferase domain; Region: Methyltransf_26; pfam13659 59374006945 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374006946 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 59374006947 ATP binding site [chemical binding]; other site 59374006948 putative Mg++ binding site [ion binding]; other site 59374006949 T5orf172 domain; Region: T5orf172; pfam10544 59374006950 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374006951 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 59374006952 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 59374006953 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 59374006954 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 59374006955 active site 59374006956 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 59374006957 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 59374006958 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 59374006959 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 59374006960 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 59374006961 Cation efflux family; Region: Cation_efflux; pfam01545 59374006962 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 59374006963 ligand binding site [chemical binding]; other site 59374006964 active site 59374006965 UGI interface [polypeptide binding]; other site 59374006966 catalytic site [active] 59374006967 Methyltransferase domain; Region: Methyltransf_26; pfam13659 59374006968 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 59374006969 Fibrobacter succinogenes paralogous family TIGR02172; Region: Fb_sc_TIGR02172 59374006970 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 59374006971 Glyco_18 domain; Region: Glyco_18; smart00636 59374006972 active site 59374006973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374006974 Walker A/P-loop; other site 59374006975 ATP binding site [chemical binding]; other site 59374006976 Q-loop/lid; other site 59374006977 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374006978 ABC transporter signature motif; other site 59374006979 Walker B; other site 59374006980 D-loop; other site 59374006981 H-loop/switch region; other site 59374006982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374006983 AAA domain; Region: AAA_21; pfam13304 59374006984 Walker A/P-loop; other site 59374006985 ATP binding site [chemical binding]; other site 59374006986 Q-loop/lid; other site 59374006987 ABC transporter signature motif; other site 59374006988 Walker B; other site 59374006989 D-loop; other site 59374006990 H-loop/switch region; other site 59374006991 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 59374006992 fibro-slime domain; Region: Fibro_Slime; TIGR02148 59374006993 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374006994 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374006995 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374006996 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 59374006997 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 59374006998 active site 59374006999 catalytic triad [active] 59374007000 oxyanion hole [active] 59374007001 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374007002 Ca binding site [ion binding]; other site 59374007003 Ca binding site (active) [ion binding]; other site 59374007004 ligand binding site [chemical binding]; other site 59374007005 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 59374007006 active site 59374007007 catalytic triad [active] 59374007008 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374007009 Ca binding site [ion binding]; other site 59374007010 Ca binding site (active) [ion binding]; other site 59374007011 ligand binding site [chemical binding]; other site 59374007012 TIGR02147 family protein; Region: Fsuc_second 59374007013 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 59374007014 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 59374007015 dimer interface [polypeptide binding]; other site 59374007016 active site 59374007017 glycine-pyridoxal phosphate binding site [chemical binding]; other site 59374007018 folate binding site [chemical binding]; other site 59374007019 Fibrobacter succinogenes major paralogous domain; Region: Fib_succ_major; TIGR02145 59374007020 fibro-slime domain; Region: Fibro_Slime; TIGR02148 59374007021 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 59374007022 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 59374007023 Walker A/P-loop; other site 59374007024 ATP binding site [chemical binding]; other site 59374007025 Q-loop/lid; other site 59374007026 ABC transporter signature motif; other site 59374007027 Walker B; other site 59374007028 D-loop; other site 59374007029 H-loop/switch region; other site 59374007030 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 59374007031 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 59374007032 Surface antigen; Region: Bac_surface_Ag; pfam01103 59374007033 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 59374007034 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 59374007035 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 59374007036 binding surface 59374007037 TPR motif; other site 59374007038 Tetratricopeptide repeat; Region: TPR_16; pfam13432 59374007039 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 59374007040 active site 59374007041 multimer interface [polypeptide binding]; other site 59374007042 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 59374007043 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 59374007044 putative Iron-sulfur protein interface [polypeptide binding]; other site 59374007045 proximal heme binding site [chemical binding]; other site 59374007046 distal heme binding site [chemical binding]; other site 59374007047 putative dimer interface [polypeptide binding]; other site 59374007048 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 59374007049 L-aspartate oxidase; Provisional; Region: PRK06175 59374007050 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 59374007051 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 59374007052 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 59374007053 Domain of unknown function (DUF4417); Region: DUF4417; pfam14386 59374007054 Domain of unknown function (DUF955); Region: DUF955; pfam06114 59374007055 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 59374007056 non-specific DNA binding site [nucleotide binding]; other site 59374007057 salt bridge; other site 59374007058 sequence-specific DNA binding site [nucleotide binding]; other site 59374007059 DNA methylase; Region: N6_N4_Mtase; cl17433 59374007060 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 59374007061 DNA methylase; Region: N6_N4_Mtase; pfam01555 59374007062 DNA methylase; Region: N6_N4_Mtase; pfam01555 59374007063 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 59374007064 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 59374007065 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 59374007066 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 59374007067 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 59374007068 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 59374007069 substrate binding pocket [chemical binding]; other site 59374007070 membrane-bound complex binding site; other site 59374007071 hinge residues; other site 59374007072 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 59374007073 dimer interface [polypeptide binding]; other site 59374007074 conserved gate region; other site 59374007075 putative PBP binding loops; other site 59374007076 ABC-ATPase subunit interface; other site 59374007077 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 59374007078 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 59374007079 Walker A/P-loop; other site 59374007080 ATP binding site [chemical binding]; other site 59374007081 Q-loop/lid; other site 59374007082 ABC transporter signature motif; other site 59374007083 Walker B; other site 59374007084 D-loop; other site 59374007085 H-loop/switch region; other site 59374007086 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 59374007087 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 59374007088 hypothetical protein; Reviewed; Region: PRK00024 59374007089 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 59374007090 MPN+ (JAMM) motif; other site 59374007091 Zinc-binding site [ion binding]; other site 59374007092 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 59374007093 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374007094 ligand binding site [chemical binding]; other site 59374007095 thymidylate synthase; Reviewed; Region: thyA; PRK01827 59374007096 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 59374007097 dimerization interface [polypeptide binding]; other site 59374007098 active site 59374007099 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 59374007100 active site 59374007101 metal binding site [ion binding]; metal-binding site 59374007102 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 59374007103 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 59374007104 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 59374007105 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 59374007106 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 59374007107 ABC-ATPase subunit interface; other site 59374007108 dimer interface [polypeptide binding]; other site 59374007109 putative PBP binding regions; other site 59374007110 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374007111 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374007112 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374007113 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374007114 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374007115 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374007116 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 59374007117 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374007118 Walker A motif; other site 59374007119 ATP binding site [chemical binding]; other site 59374007120 Walker B motif; other site 59374007121 arginine finger; other site 59374007122 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 59374007123 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374007124 Walker A motif; other site 59374007125 ATP binding site [chemical binding]; other site 59374007126 Walker B motif; other site 59374007127 arginine finger; other site 59374007128 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374007129 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374007130 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 59374007131 protein binding site [polypeptide binding]; other site 59374007132 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 59374007133 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 59374007134 Maf-like protein; Region: Maf; pfam02545 59374007135 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 59374007136 active site 59374007137 dimer interface [polypeptide binding]; other site 59374007138 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 59374007139 non-specific DNA binding site [nucleotide binding]; other site 59374007140 salt bridge; other site 59374007141 sequence-specific DNA binding site [nucleotide binding]; other site 59374007142 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 59374007143 putative active site pocket [active] 59374007144 4-fold oligomerization interface [polypeptide binding]; other site 59374007145 metal binding residues [ion binding]; metal-binding site 59374007146 3-fold/trimer interface [polypeptide binding]; other site 59374007147 TIGR02147 family protein; Region: Fsuc_second 59374007148 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 59374007149 Radical SAM superfamily; Region: Radical_SAM; pfam04055 59374007150 FeS/SAM binding site; other site 59374007151 elongation factor P; Validated; Region: PRK00529 59374007152 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 59374007153 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 59374007154 RNA binding site [nucleotide binding]; other site 59374007155 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 59374007156 RNA binding site [nucleotide binding]; other site 59374007157 Domain of unknown function (DUF303); Region: DUF303; pfam03629 59374007158 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374007159 putative metal binding site [ion binding]; other site 59374007160 thiamine monophosphate kinase; Provisional; Region: PRK05731 59374007161 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 59374007162 ATP binding site [chemical binding]; other site 59374007163 dimerization interface [polypeptide binding]; other site 59374007164 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 59374007165 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 59374007166 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 59374007167 Walker A motif; other site 59374007168 ATP binding site [chemical binding]; other site 59374007169 Walker B motif; other site 59374007170 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 59374007171 Part of AAA domain; Region: AAA_19; pfam13245 59374007172 Family description; Region: UvrD_C_2; pfam13538 59374007173 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 59374007174 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 59374007175 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 59374007176 Ligand binding site; other site 59374007177 oligomer interface; other site 59374007178 Helix-hairpin-helix motif; Region: HHH; pfam00633 59374007179 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 59374007180 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 59374007181 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 59374007182 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 59374007183 S-adenosylmethionine binding site [chemical binding]; other site 59374007184 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 59374007185 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374007186 active site 59374007187 nucleotide binding site [chemical binding]; other site 59374007188 HIGH motif; other site 59374007189 KMSKS motif; other site 59374007190 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 59374007191 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 59374007192 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 59374007193 substrate binding site [chemical binding]; other site 59374007194 ATP binding site [chemical binding]; other site 59374007195 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 59374007196 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 59374007197 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 59374007198 ATP binding site [chemical binding]; other site 59374007199 putative Mg++ binding site [ion binding]; other site 59374007200 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 59374007201 nucleotide binding region [chemical binding]; other site 59374007202 ATP-binding site [chemical binding]; other site 59374007203 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 59374007204 Surface antigen; Region: Bac_surface_Ag; pfam01103 59374007205 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 59374007206 dimer interface [polypeptide binding]; other site 59374007207 substrate binding site [chemical binding]; other site 59374007208 metal binding sites [ion binding]; metal-binding site 59374007209 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 59374007210 UDP-glucose 4-epimerase; Region: PLN02240 59374007211 NAD binding site [chemical binding]; other site 59374007212 homodimer interface [polypeptide binding]; other site 59374007213 active site 59374007214 substrate binding site [chemical binding]; other site 59374007215 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 59374007216 Mechanosensitive ion channel; Region: MS_channel; pfam00924 59374007217 Chorismate mutase type II; Region: CM_2; smart00830 59374007218 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 59374007219 prephenate dehydrogenase; Validated; Region: PRK08507 59374007220 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 59374007221 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 59374007222 putative active site [active] 59374007223 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 59374007224 ATP-NAD kinase; Region: NAD_kinase; pfam01513 59374007225 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 59374007226 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 59374007227 RNA binding surface [nucleotide binding]; other site 59374007228 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 59374007229 active site 59374007230 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 59374007231 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 59374007232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374007233 homodimer interface [polypeptide binding]; other site 59374007234 catalytic residue [active] 59374007235 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 59374007236 Amb_all domain; Region: Amb_all; smart00656 59374007237 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374007238 Ca binding site [ion binding]; other site 59374007239 Ca binding site (active) [ion binding]; other site 59374007240 ligand binding site [chemical binding]; other site 59374007241 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 59374007242 active site 59374007243 metal binding site [ion binding]; metal-binding site 59374007244 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 59374007245 nucleoside/Zn binding site; other site 59374007246 dimer interface [polypeptide binding]; other site 59374007247 catalytic motif [active] 59374007248 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 59374007249 FeS/SAM binding site; other site 59374007250 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 59374007251 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 59374007252 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 59374007253 FMN binding site [chemical binding]; other site 59374007254 active site 59374007255 catalytic residues [active] 59374007256 substrate binding site [chemical binding]; other site 59374007257 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 59374007258 active site 59374007259 dimerization interface [polypeptide binding]; other site 59374007260 TM2 domain; Region: TM2; cl00984 59374007261 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 59374007262 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374007263 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374007264 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374007265 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374007266 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374007267 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374007268 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374007269 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374007270 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374007271 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374007272 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 59374007273 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 59374007274 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 59374007275 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 59374007276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 59374007277 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374007278 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374007279 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374007280 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374007281 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374007282 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374007283 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 59374007284 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 59374007285 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 59374007286 GIY-YIG motif/motif A; other site 59374007287 putative active site [active] 59374007288 putative metal binding site [ion binding]; other site 59374007289 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 59374007290 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 59374007291 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 59374007292 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 59374007293 DNA binding residues [nucleotide binding] 59374007294 dimerization interface [polypeptide binding]; other site 59374007295 Tetratricopeptide repeat; Region: TPR_16; pfam13432 59374007296 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 59374007297 TPR motif; other site 59374007298 binding surface 59374007299 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 59374007300 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 59374007301 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 59374007302 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374007303 Zn2+ binding site [ion binding]; other site 59374007304 Mg2+ binding site [ion binding]; other site 59374007305 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 59374007306 L11 interface [polypeptide binding]; other site 59374007307 putative EF-Tu interaction site [polypeptide binding]; other site 59374007308 putative EF-G interaction site [polypeptide binding]; other site 59374007309 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 59374007310 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 59374007311 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 59374007312 Cl- selectivity filter; other site 59374007313 Cl- binding residues [ion binding]; other site 59374007314 pore gating glutamate residue; other site 59374007315 dimer interface [polypeptide binding]; other site 59374007316 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 59374007317 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374007318 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 59374007319 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 59374007320 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 59374007321 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 59374007322 active site 59374007323 oxyanion hole [active] 59374007324 catalytic triad [active] 59374007325 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 59374007326 active site 59374007327 oxyanion hole [active] 59374007328 catalytic triad [active] 59374007329 histidyl-tRNA synthetase; Region: hisS; TIGR00442 59374007330 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 59374007331 dimer interface [polypeptide binding]; other site 59374007332 motif 1; other site 59374007333 active site 59374007334 motif 2; other site 59374007335 motif 3; other site 59374007336 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 59374007337 anticodon binding site; other site 59374007338 malate dehydrogenase; Reviewed; Region: PRK06223 59374007339 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 59374007340 NAD(P) binding site [chemical binding]; other site 59374007341 dimer interface [polypeptide binding]; other site 59374007342 tetramer (dimer of dimers) interface [polypeptide binding]; other site 59374007343 substrate binding site [chemical binding]; other site 59374007344 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374007345 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374007346 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374007347 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374007348 substrate binding site [chemical binding]; other site 59374007349 active site 59374007350 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 59374007351 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 59374007352 substrate binding site [chemical binding]; other site 59374007353 active site 59374007354 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 59374007355 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 59374007356 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 59374007357 substrate binding site [chemical binding]; other site 59374007358 active site 59374007359 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 59374007360 metal binding site [ion binding]; metal-binding site 59374007361 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374007362 ligand binding site [chemical binding]; other site 59374007363 metal binding site [ion binding]; metal-binding site 59374007364 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 59374007365 Interdomain contacts; other site 59374007366 Cytokine receptor motif; other site 59374007367 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 59374007368 Interdomain contacts; other site 59374007369 Cytokine receptor motif; other site 59374007370 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 59374007371 Interdomain contacts; other site 59374007372 Cytokine receptor motif; other site 59374007373 Protein of unknown function, DUF486; Region: DUF486; cl01236 59374007374 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 59374007375 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 59374007376 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 59374007377 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 59374007378 non-specific DNA binding site [nucleotide binding]; other site 59374007379 salt bridge; other site 59374007380 sequence-specific DNA binding site [nucleotide binding]; other site 59374007381 Transglycosylase; Region: Transgly; cl17702 59374007382 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 59374007383 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 59374007384 dimer interface [polypeptide binding]; other site 59374007385 putative anticodon binding site; other site 59374007386 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 59374007387 motif 1; other site 59374007388 active site 59374007389 motif 2; other site 59374007390 motif 3; other site 59374007391 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 59374007392 four helix bundle protein; Region: TIGR02436 59374007393 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 59374007394 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 59374007395 FtsX-like permease family; Region: FtsX; pfam02687 59374007396 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 59374007397 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 59374007398 Walker A/P-loop; other site 59374007399 ATP binding site [chemical binding]; other site 59374007400 Q-loop/lid; other site 59374007401 ABC transporter signature motif; other site 59374007402 Walker B; other site 59374007403 D-loop; other site 59374007404 H-loop/switch region; other site 59374007405 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 59374007406 Clp amino terminal domain; Region: Clp_N; pfam02861 59374007407 Clp amino terminal domain; Region: Clp_N; pfam02861 59374007408 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 59374007409 Walker A motif; other site 59374007410 ATP binding site [chemical binding]; other site 59374007411 Walker B motif; other site 59374007412 arginine finger; other site 59374007413 UvrB/uvrC motif; Region: UVR; pfam02151 59374007414 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 59374007415 Walker A motif; other site 59374007416 ATP binding site [chemical binding]; other site 59374007417 Walker B motif; other site 59374007418 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 59374007419 adenylate kinase; Region: adk; TIGR01351 59374007420 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 59374007421 AMP-binding site [chemical binding]; other site 59374007422 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 59374007423 TIGR02147 family protein; Region: Fsuc_second 59374007424 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 59374007425 tartrate dehydrogenase; Region: TTC; TIGR02089 59374007426 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 59374007427 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 59374007428 Walker A motif; other site 59374007429 ATP binding site [chemical binding]; other site 59374007430 Walker B motif; other site 59374007431 arginine finger; other site 59374007432 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 59374007433 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 59374007434 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 59374007435 inhibitor-cofactor binding pocket; inhibition site 59374007436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374007437 catalytic residue [active] 59374007438 Bacterial sugar transferase; Region: Bac_transf; pfam02397 59374007439 D-cysteine desulfhydrase; Validated; Region: PRK03910 59374007440 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 59374007441 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374007442 catalytic residue [active] 59374007443 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 59374007444 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374007445 putative ADP-binding pocket [chemical binding]; other site 59374007446 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 59374007447 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 59374007448 putative ADP-binding pocket [chemical binding]; other site 59374007449 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 59374007450 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 59374007451 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374007452 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374007453 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 59374007454 active site 59374007455 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 59374007456 4Fe-4S binding domain; Region: Fer4; pfam00037 59374007457 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374007458 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374007459 active site 59374007460 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 59374007461 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_11; cd12175 59374007462 putative ligand binding site [chemical binding]; other site 59374007463 putative NAD binding site [chemical binding]; other site 59374007464 catalytic site [active] 59374007465 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374007466 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 59374007467 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 59374007468 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 59374007469 Tartrate dehydratase beta subunit/Fumarate hydratase class I, C-terminal domain [Energy production and conversion]; Region: FumA; COG1838 59374007470 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 59374007471 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 59374007472 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 59374007473 putative active site [active] 59374007474 putative metal binding site [ion binding]; other site 59374007475 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 59374007476 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 59374007477 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 59374007478 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 59374007479 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 59374007480 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 59374007481 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 59374007482 inhibitor-cofactor binding pocket; inhibition site 59374007483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374007484 catalytic residue [active] 59374007485 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 59374007486 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 59374007487 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374007488 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 59374007489 active site 59374007490 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 59374007491 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 59374007492 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374007493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 59374007494 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 59374007495 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374007496 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 59374007497 active site 59374007498 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374007499 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 59374007500 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 59374007501 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 59374007502 active site 59374007503 homodimer interface [polypeptide binding]; other site 59374007504 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 59374007505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374007506 NAD(P) binding site [chemical binding]; other site 59374007507 active site 59374007508 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 59374007509 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 59374007510 NAD(P) binding site [chemical binding]; other site 59374007511 homodimer interface [polypeptide binding]; other site 59374007512 substrate binding site [chemical binding]; other site 59374007513 active site 59374007514 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 59374007515 putative glycosyl transferase; Provisional; Region: PRK10307 59374007516 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 59374007517 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374007518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374007519 NAD(P) binding site [chemical binding]; other site 59374007520 active site 59374007521 Bacterial sugar transferase; Region: Bac_transf; pfam02397 59374007522 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 59374007523 putative trimer interface [polypeptide binding]; other site 59374007524 putative CoA binding site [chemical binding]; other site 59374007525 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 59374007526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 59374007527 AAA domain; Region: AAA_21; pfam13304 59374007528 Walker A/P-loop; other site 59374007529 ATP binding site [chemical binding]; other site 59374007530 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 59374007531 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 59374007532 putative NAD(P) binding site [chemical binding]; other site 59374007533 active site 59374007534 putative substrate binding site [chemical binding]; other site 59374007535 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 59374007536 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 59374007537 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 59374007538 active site 59374007539 homodimer interface [polypeptide binding]; other site 59374007540 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 59374007541 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 59374007542 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 59374007543 Walker A motif; other site 59374007544 ATP binding site [chemical binding]; other site 59374007545 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 59374007546 Protein of unknown function, DUF608; Region: DUF608; pfam04685 59374007547 Protein of unknown function, DUF608; Region: DUF608; pfam04685 59374007548 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 59374007549 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 59374007550 active site 59374007551 substrate binding site [chemical binding]; other site 59374007552 cosubstrate binding site; other site 59374007553 catalytic site [active] 59374007554 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 59374007555 RNA/DNA hybrid binding site [nucleotide binding]; other site 59374007556 active site 59374007557 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 59374007558 putative active site [active] 59374007559 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 59374007560 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 59374007561 G1 box; other site 59374007562 putative GEF interaction site [polypeptide binding]; other site 59374007563 GTP/Mg2+ binding site [chemical binding]; other site 59374007564 Switch I region; other site 59374007565 G2 box; other site 59374007566 G3 box; other site 59374007567 Switch II region; other site 59374007568 G4 box; other site 59374007569 G5 box; other site 59374007570 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 59374007571 RAMP superfamily; Region: RAMPs; pfam03787 59374007572 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 59374007573 radical SAM peptide maturase, CXXX-repeat target family; Region: rSAM_Cxxx_rpt; TIGR04115 59374007574 FeS/SAM binding site; other site 59374007575 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 59374007576 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 59374007577 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 59374007578 putative valine binding site [chemical binding]; other site 59374007579 dimer interface [polypeptide binding]; other site 59374007580 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 59374007581 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 59374007582 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 59374007583 PYR/PP interface [polypeptide binding]; other site 59374007584 dimer interface [polypeptide binding]; other site 59374007585 TPP binding site [chemical binding]; other site 59374007586 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 59374007587 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 59374007588 TPP-binding site [chemical binding]; other site 59374007589 dimer interface [polypeptide binding]; other site 59374007590 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 59374007591 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 59374007592 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 59374007593 Walker A/P-loop; other site 59374007594 ATP binding site [chemical binding]; other site 59374007595 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 59374007596 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 59374007597 ABC transporter signature motif; other site 59374007598 Walker B; other site 59374007599 D-loop; other site 59374007600 H-loop/switch region; other site 59374007601 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 59374007602 EamA-like transporter family; Region: EamA; pfam00892 59374007603 EamA-like transporter family; Region: EamA; pfam00892 59374007604 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 59374007605 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 59374007606 TPP-binding site; other site 59374007607 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 59374007608 PYR/PP interface [polypeptide binding]; other site 59374007609 dimer interface [polypeptide binding]; other site 59374007610 TPP binding site [chemical binding]; other site 59374007611 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 59374007612 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 59374007613 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 59374007614 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 59374007615 active site residue [active] 59374007616 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 59374007617 catalytic motif [active] 59374007618 Zn binding site [ion binding]; other site 59374007619 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 59374007620 RibD C-terminal domain; Region: RibD_C; cl17279 59374007621 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 59374007622 Lumazine binding domain; Region: Lum_binding; pfam00677 59374007623 Lumazine binding domain; Region: Lum_binding; pfam00677 59374007624 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 59374007625 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 59374007626 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 59374007627 dimerization interface [polypeptide binding]; other site 59374007628 active site 59374007629 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 59374007630 homopentamer interface [polypeptide binding]; other site 59374007631 active site 59374007632 transcription antitermination factor NusB; Region: nusB; TIGR01951 59374007633 putative RNA binding site [nucleotide binding]; other site 59374007634 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 59374007635 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 59374007636 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 59374007637 Ligand binding site; other site 59374007638 Putative Catalytic site; other site 59374007639 DXD motif; other site 59374007640 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 59374007641 Ligand binding site; other site 59374007642 Putative Catalytic site; other site 59374007643 DXD motif; other site 59374007644 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 59374007645 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 59374007646 Probable Catalytic site; other site 59374007647 metal-binding site 59374007648 Trm112p-like protein; Region: Trm112p; cl01066 59374007649 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 59374007650 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 59374007651 ATP binding site [chemical binding]; other site 59374007652 Walker B motif; other site 59374007653 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 59374007654 putative protease; Provisional; Region: PRK15452 59374007655 Peptidase family U32; Region: Peptidase_U32; pfam01136