-- dump date 20140619_112246 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1172562000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1172562000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1172562000003 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 1172562000004 Walker A motif; other site 1172562000005 ATP binding site [chemical binding]; other site 1172562000006 Walker B motif; other site 1172562000007 arginine finger; other site 1172562000008 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 1172562000009 DnaA box-binding interface [nucleotide binding]; other site 1172562000010 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 1172562000011 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1172562000012 putative substrate translocation pore; other site 1172562000013 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1172562000014 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1172562000015 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 1172562000016 generic binding surface II; other site 1172562000017 ssDNA binding site; other site 1172562000018 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 1172562000019 ATP binding site [chemical binding]; other site 1172562000020 putative Mg++ binding site [ion binding]; other site 1172562000021 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 1172562000022 nucleotide binding region [chemical binding]; other site 1172562000023 ATP-binding site [chemical binding]; other site 1172562000024 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1172562000025 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1172562000026 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1172562000027 short chain dehydrogenase; Provisional; Region: PRK07024 1172562000028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1172562000029 NAD(P) binding site [chemical binding]; other site 1172562000030 active site 1172562000031 Sulfatase; Region: Sulfatase; pfam00884 1172562000032 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 1172562000033 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1172562000034 catalytic residues [active] 1172562000035 Predicted membrane protein [Function unknown]; Region: COG2855 1172562000036 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 1172562000037 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u2_5s; cd10971 1172562000038 putative active site [active] 1172562000039 putative metal binding site [ion binding]; other site 1172562000040 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 1172562000041 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 1172562000042 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 1172562000043 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 1172562000044 FeS/SAM binding site; other site 1172562000045 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 1172562000046 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1172562000047 classical (c) SDRs; Region: SDR_c; cd05233 1172562000048 NAD(P) binding site [chemical binding]; other site 1172562000049 active site 1172562000050 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 1172562000051 TPP-binding site [chemical binding]; other site 1172562000052 dimer interface [polypeptide binding]; other site 1172562000053 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1172562000054 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 1172562000055 PYR/PP interface [polypeptide binding]; other site 1172562000056 dimer interface [polypeptide binding]; other site 1172562000057 TPP binding site [chemical binding]; other site 1172562000058 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1172562000059 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1172562000060 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1172562000061 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562000062 acyl-activating enzyme (AAE) consensus motif; other site 1172562000063 AMP binding site [chemical binding]; other site 1172562000064 active site 1172562000065 CoA binding site [chemical binding]; other site 1172562000066 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 1172562000067 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1172562000068 NAD(P) binding site [chemical binding]; other site 1172562000069 catalytic residues [active] 1172562000070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1172562000071 Cache domain; Region: Cache_1; pfam02743 1172562000072 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1172562000073 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562000074 putative CheW interface [polypeptide binding]; other site 1172562000075 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1172562000076 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1172562000077 putative NAD(P) binding site [chemical binding]; other site 1172562000078 putative substrate binding site [chemical binding]; other site 1172562000079 catalytic Zn binding site [ion binding]; other site 1172562000080 structural Zn binding site [ion binding]; other site 1172562000081 dimer interface [polypeptide binding]; other site 1172562000082 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1172562000083 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1172562000084 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 1172562000085 S-adenosylmethionine binding site [chemical binding]; other site 1172562000086 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1172562000087 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1172562000088 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1172562000089 hypothetical protein; Provisional; Region: PRK10621 1172562000090 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1172562000091 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 1172562000092 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1172562000093 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1172562000094 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1172562000095 Mg++ binding site [ion binding]; other site 1172562000096 putative catalytic motif [active] 1172562000097 putative substrate binding site [chemical binding]; other site 1172562000098 phosphoglyceromutase; Provisional; Region: PRK05434 1172562000099 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1172562000100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1172562000101 Fic/DOC family; Region: Fic; cl00960 1172562000102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1172562000103 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1172562000104 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1172562000105 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1172562000106 N-terminal plug; other site 1172562000107 ligand-binding site [chemical binding]; other site 1172562000108 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 1172562000109 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 1172562000110 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 1172562000111 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1172562000112 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 1172562000113 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1172562000114 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1172562000115 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1172562000116 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 1172562000117 DNA binding residues [nucleotide binding] 1172562000118 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1172562000119 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1172562000120 flagellar motor switch protein FliY; Validated; Region: PRK08432 1172562000121 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1172562000122 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1172562000123 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1172562000124 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1172562000125 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1172562000126 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1172562000127 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562000128 dimer interface [polypeptide binding]; other site 1172562000129 putative CheW interface [polypeptide binding]; other site 1172562000130 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1172562000131 Dynamin family; Region: Dynamin_N; pfam00350 1172562000132 G1 box; other site 1172562000133 GTP/Mg2+ binding site [chemical binding]; other site 1172562000134 G2 box; other site 1172562000135 Switch I region; other site 1172562000136 G3 box; other site 1172562000137 Switch II region; other site 1172562000138 G4 box; other site 1172562000139 G5 box; other site 1172562000140 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1172562000141 Dynamin family; Region: Dynamin_N; pfam00350 1172562000142 G1 box; other site 1172562000143 GTP/Mg2+ binding site [chemical binding]; other site 1172562000144 G2 box; other site 1172562000145 Switch I region; other site 1172562000146 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1172562000147 G3 box; other site 1172562000148 Switch II region; other site 1172562000149 GTP/Mg2+ binding site [chemical binding]; other site 1172562000150 G4 box; other site 1172562000151 G5 box; other site 1172562000152 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1172562000153 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1172562000154 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1172562000155 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1172562000156 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1172562000157 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1172562000158 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 1172562000159 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1172562000160 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 1172562000161 trimer interface [polypeptide binding]; other site 1172562000162 active site 1172562000163 UDP-GlcNAc binding site [chemical binding]; other site 1172562000164 lipid binding site [chemical binding]; lipid-binding site 1172562000165 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1172562000166 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1172562000167 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1172562000168 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562000169 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562000170 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 1172562000171 ATP binding site [chemical binding]; other site 1172562000172 Mg2+ binding site [ion binding]; other site 1172562000173 G-X-G motif; other site 1172562000174 Virulence protein [General function prediction only]; Region: COG3943 1172562000175 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1172562000176 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1172562000177 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 1172562000178 ATP binding site [chemical binding]; other site 1172562000179 putative Mg++ binding site [ion binding]; other site 1172562000180 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1172562000181 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562000182 dimer interface [polypeptide binding]; other site 1172562000183 putative CheW interface [polypeptide binding]; other site 1172562000184 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1172562000185 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1172562000186 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 1172562000187 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1172562000188 metal-binding site [ion binding] 1172562000189 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1172562000190 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1172562000191 hypothetical protein; Provisional; Region: PRK08444 1172562000192 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 1172562000193 FeS/SAM binding site; other site 1172562000194 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1172562000195 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 1172562000196 FeS/SAM binding site; other site 1172562000197 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1172562000198 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1172562000199 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1172562000200 GTP binding site; other site 1172562000201 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1172562000202 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1172562000203 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1172562000204 Peptidase family M23; Region: Peptidase_M23; pfam01551 1172562000205 septum formation inhibitor; Reviewed; Region: minC; PRK00556 1172562000206 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1172562000207 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1172562000208 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1172562000209 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1172562000210 homoserine kinase; Provisional; Region: PRK01212 1172562000211 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1172562000212 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 1172562000213 putative RNA binding cleft [nucleotide binding]; other site 1172562000214 translation initiation factor IF-2; Region: IF-2; TIGR00487 1172562000215 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1172562000216 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1172562000217 G1 box; other site 1172562000218 putative GEF interaction site [polypeptide binding]; other site 1172562000219 GTP/Mg2+ binding site [chemical binding]; other site 1172562000220 Switch I region; other site 1172562000221 G2 box; other site 1172562000222 G3 box; other site 1172562000223 Switch II region; other site 1172562000224 G4 box; other site 1172562000225 G5 box; other site 1172562000226 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 1172562000227 Translation-initiation factor 2; Region: IF-2; pfam11987 1172562000228 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 1172562000229 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1172562000230 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1172562000231 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1172562000232 catalytic triad [active] 1172562000233 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1172562000234 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 1172562000235 homodimer interface [polypeptide binding]; other site 1172562000236 NAD synthetase; Provisional; Region: PRK13980 1172562000237 NAD binding pocket [chemical binding]; other site 1172562000238 ATP binding pocket [chemical binding]; other site 1172562000239 Mg binding site [ion binding]; other site 1172562000240 active-site loop [active] 1172562000241 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1172562000242 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1172562000243 iron-sulfur cluster [ion binding]; other site 1172562000244 [2Fe-2S] cluster binding site [ion binding]; other site 1172562000245 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1172562000246 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1172562000247 intrachain domain interface; other site 1172562000248 interchain domain interface [polypeptide binding]; other site 1172562000249 heme bH binding site [chemical binding]; other site 1172562000250 Qi binding site; other site 1172562000251 heme bL binding site [chemical binding]; other site 1172562000252 Qo binding site; other site 1172562000253 interchain domain interface [polypeptide binding]; other site 1172562000254 intrachain domain interface; other site 1172562000255 Qi binding site; other site 1172562000256 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1172562000257 Qo binding site; other site 1172562000258 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1172562000259 Cytochrome c; Region: Cytochrom_C; pfam00034 1172562000260 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1172562000261 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1172562000262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562000263 Walker A/P-loop; other site 1172562000264 ATP binding site [chemical binding]; other site 1172562000265 Q-loop/lid; other site 1172562000266 ABC transporter signature motif; other site 1172562000267 Walker B; other site 1172562000268 D-loop; other site 1172562000269 H-loop/switch region; other site 1172562000270 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1172562000271 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1172562000272 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1172562000273 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 1172562000274 active site 1172562000275 catalytic triad [active] 1172562000276 oxyanion hole [active] 1172562000277 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 1172562000278 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 1172562000279 active site 1172562000280 oxyanion hole [active] 1172562000281 catalytic triad [active] 1172562000282 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 1172562000283 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1172562000284 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1172562000285 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1172562000286 Predicted membrane protein [Function unknown]; Region: COG2860 1172562000287 UPF0126 domain; Region: UPF0126; pfam03458 1172562000288 UPF0126 domain; Region: UPF0126; pfam03458 1172562000289 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 1172562000290 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 1172562000291 Walker A motif; other site 1172562000292 ATP binding site [chemical binding]; other site 1172562000293 Walker B motif; other site 1172562000294 arginine finger; other site 1172562000295 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1172562000296 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1172562000297 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1172562000298 Walker A/P-loop; other site 1172562000299 ATP binding site [chemical binding]; other site 1172562000300 Q-loop/lid; other site 1172562000301 ABC transporter signature motif; other site 1172562000302 Walker B; other site 1172562000303 D-loop; other site 1172562000304 H-loop/switch region; other site 1172562000305 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1172562000306 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1172562000307 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1172562000308 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1172562000309 ICEA Protein; Region: ICEA; pfam05315 1172562000310 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1172562000311 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 1172562000312 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 1172562000313 rRNA interaction site [nucleotide binding]; other site 1172562000314 S8 interaction site; other site 1172562000315 putative laminin-1 binding site; other site 1172562000316 elongation factor Ts; Provisional; Region: tsf; PRK09377 1172562000317 UBA/TS-N domain; Region: UBA; pfam00627 1172562000318 Elongation factor TS; Region: EF_TS; pfam00889 1172562000319 Elongation factor TS; Region: EF_TS; pfam00889 1172562000320 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1172562000321 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1172562000322 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1172562000323 Ligand Binding Site [chemical binding]; other site 1172562000324 Molecular Tunnel; other site 1172562000325 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 1172562000326 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1172562000327 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1172562000328 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1172562000329 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1172562000330 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1172562000331 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1172562000332 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1172562000333 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1172562000334 NAD(P) binding pocket [chemical binding]; other site 1172562000335 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1172562000336 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 1172562000337 catalytic residue [active] 1172562000338 putative FPP diphosphate binding site; other site 1172562000339 putative FPP binding hydrophobic cleft; other site 1172562000340 dimer interface [polypeptide binding]; other site 1172562000341 putative IPP diphosphate binding site; other site 1172562000342 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1172562000343 putative trimer interface [polypeptide binding]; other site 1172562000344 putative active site [active] 1172562000345 putative substrate binding site [chemical binding]; other site 1172562000346 putative CoA binding site [chemical binding]; other site 1172562000347 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1172562000348 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1172562000349 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1172562000350 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1172562000351 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1172562000352 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1172562000353 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 1172562000354 catalytic residues [active] 1172562000355 ferrochelatase; Reviewed; Region: hemH; PRK00035 1172562000356 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1172562000357 active site 1172562000358 C-terminal domain interface [polypeptide binding]; other site 1172562000359 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1172562000360 active site 1172562000361 N-terminal domain interface [polypeptide binding]; other site 1172562000362 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1172562000363 RNA methyltransferase, RsmE family; Region: TIGR00046 1172562000364 prephenate dehydrogenase; Validated; Region: PRK08507 1172562000365 Prephenate dehydrogenase; Region: PDH; pfam02153 1172562000366 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1172562000367 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1172562000368 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1172562000369 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1172562000370 Surface antigen; Region: Bac_surface_Ag; pfam01103 1172562000371 hypothetical protein; Provisional; Region: PRK08445 1172562000372 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 1172562000373 FeS/SAM binding site; other site 1172562000374 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1172562000375 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1172562000376 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1172562000377 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1172562000378 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1172562000379 Ion transport protein; Region: Ion_trans; pfam00520 1172562000380 Ion transport protein; Region: Ion_trans; pfam00520 1172562000381 TM2 domain; Region: TM2; pfam05154 1172562000382 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 1172562000383 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 1172562000384 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1172562000385 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1172562000386 nucleotide binding site [chemical binding]; other site 1172562000387 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 1172562000388 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 1172562000389 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1172562000390 putative acyl-acceptor binding pocket; other site 1172562000391 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 1172562000392 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1172562000393 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1172562000394 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 1172562000395 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1172562000396 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 1172562000397 active site 1172562000398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 1172562000399 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1172562000400 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1172562000401 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1172562000402 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 1172562000403 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1172562000404 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 1172562000405 FeS/SAM binding site; other site 1172562000406 HemN C-terminal domain; Region: HemN_C; pfam06969 1172562000407 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1172562000408 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 1172562000409 Cysteine-rich domain; Region: CCG; pfam02754 1172562000410 Cysteine-rich domain; Region: CCG; pfam02754 1172562000411 HDOD domain; Region: HDOD; pfam08668 1172562000412 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1172562000413 thiS-thiF/thiG interaction site; other site 1172562000414 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 1172562000415 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1172562000416 Substrate binding site; other site 1172562000417 Mg++ binding site; other site 1172562000418 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1172562000419 active site 1172562000420 substrate binding site [chemical binding]; other site 1172562000421 CoA binding site [chemical binding]; other site 1172562000422 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1172562000423 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1172562000424 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 1172562000425 S-adenosylmethionine binding site [chemical binding]; other site 1172562000426 SurA N-terminal domain; Region: SurA_N; pfam09312 1172562000427 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1172562000428 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1172562000429 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 1172562000430 binding surface 1172562000431 TPR motif; other site 1172562000432 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1172562000433 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1172562000434 RNA/DNA hybrid binding site [nucleotide binding]; other site 1172562000435 active site 1172562000436 ribonuclease III; Reviewed; Region: rnc; PRK00102 1172562000437 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 1172562000438 dimerization interface [polypeptide binding]; other site 1172562000439 active site 1172562000440 metal binding site [ion binding]; metal-binding site 1172562000441 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 1172562000442 dsRNA binding site [nucleotide binding]; other site 1172562000443 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1172562000444 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1172562000445 Tetramer interface [polypeptide binding]; other site 1172562000446 active site 1172562000447 FMN-binding site [chemical binding]; other site 1172562000448 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1172562000449 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1172562000450 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1172562000451 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 1172562000452 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 1172562000453 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 1172562000454 active site 1172562000455 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 1172562000456 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1172562000457 META domain; Region: META; pfam03724 1172562000458 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1172562000459 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1172562000460 active site 1172562000461 PHP Thumb interface [polypeptide binding]; other site 1172562000462 metal binding site [ion binding]; metal-binding site 1172562000463 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 1172562000464 generic binding surface I; other site 1172562000465 generic binding surface II; other site 1172562000466 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 1172562000467 NusA N-terminal domain; Region: NusA_N; pfam08529 1172562000468 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 1172562000469 RNA binding site [nucleotide binding]; other site 1172562000470 homodimer interface [polypeptide binding]; other site 1172562000471 NusA-like KH domain; Region: KH_5; pfam13184 1172562000472 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 1172562000473 G-X-X-G motif; other site 1172562000474 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1172562000475 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1172562000476 trimer interface [polypeptide binding]; other site 1172562000477 active site 1172562000478 dimer interface [polypeptide binding]; other site 1172562000479 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1172562000480 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1172562000481 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1172562000482 active site 1172562000483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1172562000484 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1172562000485 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1172562000486 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 1172562000487 RimM N-terminal domain; Region: RimM; pfam01782 1172562000488 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1172562000489 KH domain; Region: KH_4; pfam13083 1172562000490 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1172562000491 signal recognition particle protein; Provisional; Region: PRK10867 1172562000492 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1172562000493 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 1172562000494 P loop; other site 1172562000495 GTP binding site [chemical binding]; other site 1172562000496 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1172562000497 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1172562000498 metal binding site 2 [ion binding]; metal-binding site 1172562000499 putative DNA binding helix; other site 1172562000500 metal binding site 1 [ion binding]; metal-binding site 1172562000501 dimer interface [polypeptide binding]; other site 1172562000502 structural Zn2+ binding site [ion binding]; other site 1172562000503 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1172562000504 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1172562000505 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 1172562000506 active site residue [active] 1172562000507 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1172562000508 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1172562000509 active site 1172562000510 HIGH motif; other site 1172562000511 nucleotide binding site [chemical binding]; other site 1172562000512 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1172562000513 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1172562000514 active site 1172562000515 KMSKS motif; other site 1172562000516 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1172562000517 tRNA binding surface [nucleotide binding]; other site 1172562000518 anticodon binding site; other site 1172562000519 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1172562000520 FliW protein; Region: FliW; cl00740 1172562000521 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1172562000522 Part of AAA domain; Region: AAA_19; pfam13245 1172562000523 Family description; Region: UvrD_C_2; pfam13538 1172562000524 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 1172562000525 active site 1172562000526 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1172562000527 Flagellin N-methylase; Region: FliB; pfam03692 1172562000528 DDE superfamily endonuclease; Region: DDE_5; cl17874 1172562000529 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1172562000530 ligand binding site [chemical binding]; other site 1172562000531 active site 1172562000532 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1172562000533 active site 1172562000534 putative catalytic site [active] 1172562000535 DNA binding site [nucleotide binding] 1172562000536 putative phosphate binding site [ion binding]; other site 1172562000537 metal binding site A [ion binding]; metal-binding site 1172562000538 AP binding site [nucleotide binding]; other site 1172562000539 metal binding site B [ion binding]; metal-binding site 1172562000540 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1172562000541 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1172562000542 Lysine efflux permease [General function prediction only]; Region: COG1279 1172562000543 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1172562000544 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 1172562000545 active site 1172562000546 homodimer interface [polypeptide binding]; other site 1172562000547 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1172562000548 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1172562000549 active site 1172562000550 HIGH motif; other site 1172562000551 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1172562000552 active site 1172562000553 KMSKS motif; other site 1172562000554 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1172562000555 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 1172562000556 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1172562000557 Dihydroneopterin aldolase; Region: FolB; pfam02152 1172562000558 active site 1172562000559 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1172562000560 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 1172562000561 active site residue [active] 1172562000562 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1172562000563 Competence-damaged protein; Region: CinA; pfam02464 1172562000564 heat-inducible transcription repressor; Provisional; Region: PRK03911 1172562000565 heat shock protein GrpE; Provisional; Region: PRK14140 1172562000566 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 1172562000567 dimer interface [polypeptide binding]; other site 1172562000568 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1172562000569 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1172562000570 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1172562000571 nucleotide binding site [chemical binding]; other site 1172562000572 NEF interaction site [polypeptide binding]; other site 1172562000573 SBD interface [polypeptide binding]; other site 1172562000574 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1172562000575 active site 1172562000576 homotetramer interface [polypeptide binding]; other site 1172562000577 homodimer interface [polypeptide binding]; other site 1172562000578 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 1172562000579 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1172562000580 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1172562000581 tetramer interface [polypeptide binding]; other site 1172562000582 heme binding pocket [chemical binding]; other site 1172562000583 NADPH binding site [chemical binding]; other site 1172562000584 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 1172562000585 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1172562000586 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1172562000587 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1172562000588 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1172562000589 RF-1 domain; Region: RF-1; pfam00472 1172562000590 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1172562000591 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1172562000592 putative active site [active] 1172562000593 YopX protein; Region: YopX; cl09859 1172562000594 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 1172562000595 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1172562000596 intersubunit interface [polypeptide binding]; other site 1172562000597 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1172562000598 N-terminal plug; other site 1172562000599 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1172562000600 ligand-binding site [chemical binding]; other site 1172562000601 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1172562000602 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 1172562000603 ABC-ATPase subunit interface; other site 1172562000604 dimer interface [polypeptide binding]; other site 1172562000605 putative PBP binding regions; other site 1172562000606 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1172562000607 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1172562000608 Walker A/P-loop; other site 1172562000609 ATP binding site [chemical binding]; other site 1172562000610 Q-loop/lid; other site 1172562000611 ABC transporter signature motif; other site 1172562000612 Walker B; other site 1172562000613 D-loop; other site 1172562000614 H-loop/switch region; other site 1172562000615 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1172562000616 Predicted transcriptional regulator [Transcription]; Region: COG3905 1172562000617 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 1172562000618 AAA domain; Region: AAA_25; pfam13481 1172562000619 Walker B motif; other site 1172562000620 ParA-like protein; Provisional; Region: PHA02518 1172562000621 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 1172562000622 P-loop; other site 1172562000623 Magnesium ion binding site [ion binding]; other site 1172562000624 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1172562000625 adenylosuccinate lyase; Region: purB; TIGR00928 1172562000626 Protein of unknown function DUF86; Region: DUF86; cl01031 1172562000627 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1172562000628 active site 1172562000629 NTP binding site [chemical binding]; other site 1172562000630 metal binding triad [ion binding]; metal-binding site 1172562000631 antibiotic binding site [chemical binding]; other site 1172562000632 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1172562000633 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1172562000634 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1172562000635 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 1172562000636 inhibitor-cofactor binding pocket; inhibition site 1172562000637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562000638 catalytic residue [active] 1172562000639 shikimate kinase; Reviewed; Region: aroK; PRK00131 1172562000640 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 1172562000641 ADP binding site [chemical binding]; other site 1172562000642 magnesium binding site [ion binding]; other site 1172562000643 putative shikimate binding site; other site 1172562000644 AMIN domain; Region: AMIN; pfam11741 1172562000645 enolase; Provisional; Region: eno; PRK00077 1172562000646 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 1172562000647 dimer interface [polypeptide binding]; other site 1172562000648 metal binding site [ion binding]; metal-binding site 1172562000649 substrate binding pocket [chemical binding]; other site 1172562000650 recombinase A; Provisional; Region: recA; PRK09354 1172562000651 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 1172562000652 hexamer interface [polypeptide binding]; other site 1172562000653 Walker A motif; other site 1172562000654 ATP binding site [chemical binding]; other site 1172562000655 Walker B motif; other site 1172562000656 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 1172562000657 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1172562000658 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1172562000659 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1172562000660 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1172562000661 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1172562000662 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1172562000663 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 1172562000664 homodimer interface [polypeptide binding]; other site 1172562000665 substrate-cofactor binding pocket; other site 1172562000666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562000667 catalytic residue [active] 1172562000668 Homoserine O-succinyltransferase; Region: HTS; pfam04204 1172562000669 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1172562000670 proposed active site lysine [active] 1172562000671 conserved cys residue [active] 1172562000672 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1172562000673 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1172562000674 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1172562000675 Putative zinc ribbon domain; Region: DUF164; pfam02591 1172562000676 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1172562000677 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1172562000678 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1172562000679 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 1172562000680 RNA binding surface [nucleotide binding]; other site 1172562000681 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1172562000682 active site 1172562000683 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1172562000684 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1172562000685 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1172562000686 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1172562000687 Outer membrane efflux protein; Region: OEP; pfam02321 1172562000688 Outer membrane efflux protein; Region: OEP; pfam02321 1172562000689 dihydropteroate synthase; Region: DHPS; TIGR01496 1172562000690 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 1172562000691 substrate binding pocket [chemical binding]; other site 1172562000692 dimer interface [polypeptide binding]; other site 1172562000693 inhibitor binding site; inhibition site 1172562000694 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1172562000695 DNA replication regulator; Region: HobA; pfam12163 1172562000696 aspartate kinase; Reviewed; Region: PRK06635 1172562000697 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 1172562000698 putative catalytic residues [active] 1172562000699 putative nucleotide binding site [chemical binding]; other site 1172562000700 putative aspartate binding site [chemical binding]; other site 1172562000701 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1172562000702 putative allosteric regulatory site; other site 1172562000703 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1172562000704 putative allosteric regulatory residue; other site 1172562000705 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1172562000706 putative active site [active] 1172562000707 Ap4A binding site [chemical binding]; other site 1172562000708 nudix motif; other site 1172562000709 putative metal binding site [ion binding]; other site 1172562000710 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 1172562000711 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 1172562000712 FeS/SAM binding site; other site 1172562000713 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 1172562000714 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1172562000715 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1172562000716 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 1172562000717 Walker A motif; other site 1172562000718 ATP binding site [chemical binding]; other site 1172562000719 Walker B motif; other site 1172562000720 arginine finger; other site 1172562000721 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 1172562000722 Walker A motif; other site 1172562000723 ATP binding site [chemical binding]; other site 1172562000724 Walker B motif; other site 1172562000725 Protein of unknown function DUF262; Region: DUF262; pfam03235 1172562000726 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1172562000727 Protein of unknown function DUF262; Region: DUF262; pfam03235 1172562000728 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1172562000729 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1172562000730 oligomeric interface; other site 1172562000731 putative active site [active] 1172562000732 homodimer interface [polypeptide binding]; other site 1172562000733 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1172562000734 Predicted transcriptional regulator [Transcription]; Region: COG2378 1172562000735 WYL domain; Region: WYL; pfam13280 1172562000736 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1172562000737 Peptidase family U32; Region: Peptidase_U32; pfam01136 1172562000738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562000739 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1172562000740 Walker A/P-loop; other site 1172562000741 ATP binding site [chemical binding]; other site 1172562000742 Q-loop/lid; other site 1172562000743 ABC transporter signature motif; other site 1172562000744 Walker B; other site 1172562000745 D-loop; other site 1172562000746 H-loop/switch region; other site 1172562000747 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1172562000748 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 1172562000749 dimer interface [polypeptide binding]; other site 1172562000750 conserved gate region; other site 1172562000751 putative PBP binding loops; other site 1172562000752 ABC-ATPase subunit interface; other site 1172562000753 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1172562000754 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1172562000755 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1172562000756 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1172562000757 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1172562000758 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1172562000759 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 1172562000760 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1172562000761 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1172562000762 Cysteine-rich domain; Region: CCG; pfam02754 1172562000763 Cysteine-rich domain; Region: CCG; pfam02754 1172562000764 L-lactate permease; Region: Lactate_perm; cl00701 1172562000765 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1172562000766 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 1172562000767 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1172562000768 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1172562000769 NAD binding site [chemical binding]; other site 1172562000770 putative substrate binding site 2 [chemical binding]; other site 1172562000771 putative substrate binding site 1 [chemical binding]; other site 1172562000772 active site 1172562000773 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1172562000774 hypothetical protein; Provisional; Region: PRK07208 1172562000775 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1172562000776 UDP-galactopyranose mutase; Region: GLF; pfam03275 1172562000777 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1172562000778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1172562000779 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1172562000780 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1172562000781 NAD binding site [chemical binding]; other site 1172562000782 homodimer interface [polypeptide binding]; other site 1172562000783 active site 1172562000784 substrate binding site [chemical binding]; other site 1172562000785 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 1172562000786 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1172562000787 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 1172562000788 active site 1172562000789 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1172562000790 metal-binding site 1172562000791 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1172562000792 active site 1172562000793 substrate binding pocket [chemical binding]; other site 1172562000794 dimer interface [polypeptide binding]; other site 1172562000795 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1172562000796 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1172562000797 active site 1172562000798 substrate binding site [chemical binding]; other site 1172562000799 metal binding site [ion binding]; metal-binding site 1172562000800 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1172562000801 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 1172562000802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562000803 homodimer interface [polypeptide binding]; other site 1172562000804 catalytic residue [active] 1172562000805 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1172562000806 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1172562000807 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1172562000808 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1172562000809 FliG C-terminal domain; Region: FliG_C; pfam01706 1172562000810 flagellar assembly protein H; Validated; Region: fliH; PRK06669 1172562000811 Flagellar assembly protein FliH; Region: FliH; pfam02108 1172562000812 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1172562000813 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 1172562000814 TPP-binding site; other site 1172562000815 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 1172562000816 PYR/PP interface [polypeptide binding]; other site 1172562000817 dimer interface [polypeptide binding]; other site 1172562000818 TPP binding site [chemical binding]; other site 1172562000819 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1172562000820 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1172562000821 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1172562000822 dimer interface [polypeptide binding]; other site 1172562000823 putative radical transfer pathway; other site 1172562000824 diiron center [ion binding]; other site 1172562000825 tyrosyl radical; other site 1172562000826 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1172562000827 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1172562000828 active site 1172562000829 catalytic triad [active] 1172562000830 dimer interface [polypeptide binding]; other site 1172562000831 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1172562000832 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 1172562000833 S-adenosylmethionine binding site [chemical binding]; other site 1172562000834 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1172562000835 Predicted permeases [General function prediction only]; Region: COG0795 1172562000836 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1172562000837 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1172562000838 dimerization interface 3.5A [polypeptide binding]; other site 1172562000839 active site 1172562000840 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1172562000841 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1172562000842 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1172562000843 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1172562000844 RDD family; Region: RDD; cl00746 1172562000845 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1172562000846 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1172562000847 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1172562000848 active site 1172562000849 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1172562000850 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1172562000851 oligomer interface [polypeptide binding]; other site 1172562000852 RNA binding site [nucleotide binding]; other site 1172562000853 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1172562000854 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1172562000855 oligomer interface [polypeptide binding]; other site 1172562000856 RNA binding site [nucleotide binding]; other site 1172562000857 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 1172562000858 putative nucleic acid binding region [nucleotide binding]; other site 1172562000859 G-X-X-G motif; other site 1172562000860 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1172562000861 RNA binding site [nucleotide binding]; other site 1172562000862 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 1172562000863 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1172562000864 DNA repair protein RadA; Provisional; Region: PRK11823 1172562000865 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1172562000866 Walker A motif/ATP binding site; other site 1172562000867 ATP binding site [chemical binding]; other site 1172562000868 Walker B motif; other site 1172562000869 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1172562000870 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 1172562000871 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 1172562000872 P loop; other site 1172562000873 GTP binding site [chemical binding]; other site 1172562000874 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1172562000875 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1172562000876 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1172562000877 phosphodiesterase; Provisional; Region: PRK12704 1172562000878 KH domain; Region: KH_1; pfam00013 1172562000879 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1172562000880 Zn2+ binding site [ion binding]; other site 1172562000881 Mg2+ binding site [ion binding]; other site 1172562000882 putative arabinose transporter; Provisional; Region: PRK03545 1172562000883 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 1172562000884 putative substrate translocation pore; other site 1172562000885 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1172562000886 Sel1-like repeats; Region: SEL1; smart00671 1172562000887 Sel1-like repeats; Region: SEL1; smart00671 1172562000888 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1172562000889 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 1172562000890 FMN binding site [chemical binding]; other site 1172562000891 active site 1172562000892 catalytic residues [active] 1172562000893 substrate binding site [chemical binding]; other site 1172562000894 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1172562000895 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1172562000896 dimer interface [polypeptide binding]; other site 1172562000897 active site 1172562000898 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1172562000899 catalytic residues [active] 1172562000900 substrate binding site [chemical binding]; other site 1172562000901 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 1172562000902 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1172562000903 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 1172562000904 active site 1172562000905 phosphorylation site [posttranslational modification] 1172562000906 intermolecular recognition site; other site 1172562000907 dimerization interface [polypeptide binding]; other site 1172562000908 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1172562000909 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1172562000910 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 1172562000911 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 1172562000912 FtsH Extracellular; Region: FtsH_ext; pfam06480 1172562000913 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1172562000914 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 1172562000915 Walker A motif; other site 1172562000916 ATP binding site [chemical binding]; other site 1172562000917 Walker B motif; other site 1172562000918 arginine finger; other site 1172562000919 Peptidase family M41; Region: Peptidase_M41; pfam01434 1172562000920 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1172562000921 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 1172562000922 S-adenosylmethionine binding site [chemical binding]; other site 1172562000923 Response regulator receiver domain; Region: Response_reg; pfam00072 1172562000924 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 1172562000925 active site 1172562000926 phosphorylation site [posttranslational modification] 1172562000927 intermolecular recognition site; other site 1172562000928 dimerization interface [polypeptide binding]; other site 1172562000929 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1172562000930 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1172562000931 catalytic residues [active] 1172562000932 Securin sister-chromatid separation inhibitor; Region: Securin; pfam04856 1172562000933 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 1172562000934 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 1172562000935 active site 1172562000936 metal binding site [ion binding]; metal-binding site 1172562000937 Nitronate monooxygenase; Region: NMO; pfam03060 1172562000938 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1172562000939 FMN binding site [chemical binding]; other site 1172562000940 substrate binding site [chemical binding]; other site 1172562000941 putative catalytic residue [active] 1172562000942 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1172562000943 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1172562000944 active site 1172562000945 HIGH motif; other site 1172562000946 dimer interface [polypeptide binding]; other site 1172562000947 KMSKS motif; other site 1172562000948 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 1172562000949 RNA binding surface [nucleotide binding]; other site 1172562000950 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1172562000951 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1172562000952 Zn2+ binding site [ion binding]; other site 1172562000953 Mg2+ binding site [ion binding]; other site 1172562000954 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1172562000955 synthetase active site [active] 1172562000956 NTP binding site [chemical binding]; other site 1172562000957 metal binding site [ion binding]; metal-binding site 1172562000958 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 1172562000959 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1172562000960 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 1172562000961 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 1172562000962 putative nucleotide binding site [chemical binding]; other site 1172562000963 uridine monophosphate binding site [chemical binding]; other site 1172562000964 homohexameric interface [polypeptide binding]; other site 1172562000965 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 1172562000966 S-adenosylmethionine binding site [chemical binding]; other site 1172562000967 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1172562000968 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 1172562000969 catalytic motif [active] 1172562000970 Zn binding site [ion binding]; other site 1172562000971 RibD C-terminal domain; Region: RibD_C; cl17279 1172562000972 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1172562000973 Sm and related proteins; Region: Sm_like; cl00259 1172562000974 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1172562000975 putative oligomer interface [polypeptide binding]; other site 1172562000976 putative RNA binding site [nucleotide binding]; other site 1172562000977 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1172562000978 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1172562000979 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1172562000980 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1172562000981 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1172562000982 flagellar assembly protein FliW; Provisional; Region: PRK13282 1172562000983 Tetratricopeptide repeat; Region: TPR_18; pfam13512 1172562000984 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1172562000985 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 1172562000986 Walker A motif; other site 1172562000987 ATP binding site [chemical binding]; other site 1172562000988 Walker B motif; other site 1172562000989 arginine finger; other site 1172562000990 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1172562000991 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 1172562000992 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1172562000993 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 1172562000994 dimer interface [polypeptide binding]; other site 1172562000995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562000996 catalytic residue [active] 1172562000997 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 1172562000998 Dehydratase family; Region: ILVD_EDD; cl00340 1172562000999 Dehydratase family; Region: ILVD_EDD; cl00340 1172562001000 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1172562001001 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 1172562001002 metal-binding site [ion binding] 1172562001003 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1172562001004 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1172562001005 putative methyltransferase, LIC12133 family; Region: MTase_LIC12133; TIGR04325 1172562001006 glutamine synthetase, type I; Region: GlnA; TIGR00653 1172562001007 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1172562001008 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1172562001009 phosphoenolpyruvate synthase; Validated; Region: PRK06241 1172562001010 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1172562001011 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1172562001012 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1172562001013 active site 1172562001014 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1172562001015 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1172562001016 active site 1172562001017 HIGH motif; other site 1172562001018 dimer interface [polypeptide binding]; other site 1172562001019 KMSKS motif; other site 1172562001020 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 1172562001021 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 1172562001022 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 1172562001023 4Fe-4S binding domain; Region: Fer4; cl02805 1172562001024 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 1172562001025 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 1172562001026 dimer interface [polypeptide binding]; other site 1172562001027 PYR/PP interface [polypeptide binding]; other site 1172562001028 TPP binding site [chemical binding]; other site 1172562001029 substrate binding site [chemical binding]; other site 1172562001030 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1172562001031 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 1172562001032 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 1172562001033 TPP-binding site [chemical binding]; other site 1172562001034 putative dimer interface [polypeptide binding]; other site 1172562001035 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1172562001036 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1172562001037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1172562001038 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1172562001039 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 1172562001040 DNA binding residues [nucleotide binding] 1172562001041 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 1172562001042 16S/18S rRNA binding site [nucleotide binding]; other site 1172562001043 S13e-L30e interaction site [polypeptide binding]; other site 1172562001044 25S rRNA binding site [nucleotide binding]; other site 1172562001045 Predicted exporter [General function prediction only]; Region: COG4258 1172562001046 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 1172562001047 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1172562001048 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1172562001049 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 1172562001050 dimer interface [polypeptide binding]; other site 1172562001051 ssDNA binding site [nucleotide binding]; other site 1172562001052 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1172562001053 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1172562001054 DNA polymerase III subunit delta; Validated; Region: PRK08487 1172562001055 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1172562001056 Exoribonuclease R [Transcription]; Region: VacB; COG0557 1172562001057 RNB domain; Region: RNB; pfam00773 1172562001058 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1172562001059 active site 1172562001060 metal binding site [ion binding]; metal-binding site 1172562001061 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1172562001062 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 1172562001063 active site 1172562001064 Zn binding site [ion binding]; other site 1172562001065 Bacterial SH3 domain; Region: SH3_3; pfam08239 1172562001066 Bacterial SH3 domain; Region: SH3_3; pfam08239 1172562001067 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1172562001068 dimer interface [polypeptide binding]; other site 1172562001069 motif 1; other site 1172562001070 active site 1172562001071 motif 2; other site 1172562001072 motif 3; other site 1172562001073 Protein of unknown function DUF89; Region: DUF89; cl15397 1172562001074 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 1172562001075 AIR carboxylase; Region: AIRC; smart01001 1172562001076 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1172562001077 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1172562001078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562001079 catalytic residue [active] 1172562001080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1172562001081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1172562001082 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1172562001083 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 1172562001084 hinge; other site 1172562001085 active site 1172562001086 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1172562001087 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1172562001088 active site 1172562001089 tetramer interface; other site 1172562001090 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1172562001091 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 1172562001092 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1172562001093 catalytic residue [active] 1172562001094 YGGT family; Region: YGGT; pfam02325 1172562001095 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 1172562001096 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1172562001097 active site 1172562001098 HIGH motif; other site 1172562001099 nucleotide binding site [chemical binding]; other site 1172562001100 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1172562001101 active site 1172562001102 KMSKS motif; other site 1172562001103 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1172562001104 MarR family; Region: MarR_2; pfam12802 1172562001105 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 1172562001106 putative homodimer interface [polypeptide binding]; other site 1172562001107 putative homotetramer interface [polypeptide binding]; other site 1172562001108 putative allosteric switch controlling residues; other site 1172562001109 putative metal binding site [ion binding]; other site 1172562001110 putative homodimer-homodimer interface [polypeptide binding]; other site 1172562001111 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1172562001112 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1172562001113 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1172562001114 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1172562001115 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 1172562001116 active site 1172562001117 catalytic residues [active] 1172562001118 metal binding site [ion binding]; metal-binding site 1172562001119 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1172562001120 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1172562001121 I-site; other site 1172562001122 active site 1172562001123 metal binding site [ion binding]; metal-binding site 1172562001124 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1172562001125 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1172562001126 oligomer interface [polypeptide binding]; other site 1172562001127 active site residues [active] 1172562001128 trigger factor; Provisional; Region: tig; PRK01490 1172562001129 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1172562001130 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1172562001131 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 1172562001132 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1172562001133 Walker A motif/ATP binding site; other site 1172562001134 Walker B motif; other site 1172562001135 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562001136 dimer interface [polypeptide binding]; other site 1172562001137 putative CheW interface [polypeptide binding]; other site 1172562001138 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1172562001139 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 1172562001140 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1172562001141 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 1172562001142 S-adenosylmethionine binding site [chemical binding]; other site 1172562001143 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1172562001144 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1172562001145 active site 1172562001146 HIGH motif; other site 1172562001147 KMSKS motif; other site 1172562001148 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1172562001149 tRNA binding surface [nucleotide binding]; other site 1172562001150 anticodon binding site; other site 1172562001151 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1172562001152 dimer interface [polypeptide binding]; other site 1172562001153 putative tRNA-binding site [nucleotide binding]; other site 1172562001154 fructose-1,6-bisphosphatase; Provisional; Region: PRK09293 1172562001155 active site 1172562001156 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 1172562001157 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1172562001158 substrate binding site [chemical binding]; other site 1172562001159 hexamer interface [polypeptide binding]; other site 1172562001160 metal binding site [ion binding]; metal-binding site 1172562001161 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 1172562001162 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1172562001163 active site 1172562001164 catalytic site [active] 1172562001165 substrate binding site [chemical binding]; other site 1172562001166 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1172562001167 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 1172562001168 Peptidase family M48; Region: Peptidase_M48; pfam01435 1172562001169 CTP synthetase; Validated; Region: pyrG; PRK05380 1172562001170 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 1172562001171 Catalytic site [active] 1172562001172 active site 1172562001173 UTP binding site [chemical binding]; other site 1172562001174 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1172562001175 active site 1172562001176 putative oxyanion hole; other site 1172562001177 catalytic triad [active] 1172562001178 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 1172562001179 DHH family; Region: DHH; pfam01368 1172562001180 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1172562001181 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 1172562001182 substrate binding pocket [chemical binding]; other site 1172562001183 membrane-bound complex binding site; other site 1172562001184 hinge residues; other site 1172562001185 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1172562001186 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1172562001187 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 1172562001188 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 1172562001189 dimer interface [polypeptide binding]; other site 1172562001190 active site 1172562001191 acyl carrier protein; Provisional; Region: acpP; PRK00982 1172562001192 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1172562001193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1172562001194 NAD(P) binding site [chemical binding]; other site 1172562001195 active site 1172562001196 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 1172562001197 Transglycosylase; Region: Transgly; pfam00912 1172562001198 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1172562001199 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1172562001200 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1172562001201 MG2 domain; Region: A2M_N; pfam01835 1172562001202 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1172562001203 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1172562001204 surface patch; other site 1172562001205 thioester region; other site 1172562001206 specificity defining residues; other site 1172562001207 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1172562001208 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1172562001209 active site 1172562001210 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1172562001211 putative acyl-acceptor binding pocket; other site 1172562001212 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1172562001213 CoA binding domain; Region: CoA_binding; cl17356 1172562001214 PBP superfamily domain; Region: PBP_like_2; cl17296 1172562001215 PBP superfamily domain; Region: PBP_like_2; cl17296 1172562001216 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1172562001217 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 1172562001218 dimer interface [polypeptide binding]; other site 1172562001219 conserved gate region; other site 1172562001220 putative PBP binding loops; other site 1172562001221 ABC-ATPase subunit interface; other site 1172562001222 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1172562001223 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 1172562001224 dimer interface [polypeptide binding]; other site 1172562001225 conserved gate region; other site 1172562001226 putative PBP binding loops; other site 1172562001227 ABC-ATPase subunit interface; other site 1172562001228 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1172562001229 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1172562001230 Walker A/P-loop; other site 1172562001231 ATP binding site [chemical binding]; other site 1172562001232 Q-loop/lid; other site 1172562001233 ABC transporter signature motif; other site 1172562001234 Walker B; other site 1172562001235 D-loop; other site 1172562001236 H-loop/switch region; other site 1172562001237 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1172562001238 PhoU domain; Region: PhoU; pfam01895 1172562001239 PhoU domain; Region: PhoU; pfam01895 1172562001240 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1172562001241 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 1172562001242 active site 1172562001243 phosphorylation site [posttranslational modification] 1172562001244 intermolecular recognition site; other site 1172562001245 dimerization interface [polypeptide binding]; other site 1172562001246 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 1172562001247 DNA binding site [nucleotide binding] 1172562001248 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 1172562001249 dimer interface [polypeptide binding]; other site 1172562001250 phosphorylation site [posttranslational modification] 1172562001251 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 1172562001252 ATP binding site [chemical binding]; other site 1172562001253 Mg2+ binding site [ion binding]; other site 1172562001254 G-X-G motif; other site 1172562001255 T5orf172 domain; Region: T5orf172; pfam10544 1172562001256 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 1172562001257 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 1172562001258 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1172562001259 trimerization site [polypeptide binding]; other site 1172562001260 active site 1172562001261 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1172562001262 NifU-like domain; Region: NifU; cl00484 1172562001263 R.HinP1I restriction endonuclease; Region: R-HINP1I; pfam11463 1172562001264 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 1172562001265 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1172562001266 cofactor binding site; other site 1172562001267 DNA binding site [nucleotide binding] 1172562001268 substrate interaction site [chemical binding]; other site 1172562001269 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 1172562001270 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1172562001271 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1172562001272 catalytic residue [active] 1172562001273 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1172562001274 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 1172562001275 transmembrane helices; other site 1172562001276 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1172562001277 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1172562001278 active site 1172562001279 catalytic triad [active] 1172562001280 dimer interface [polypeptide binding]; other site 1172562001281 adenylosuccinate lyase; Provisional; Region: PRK08470 1172562001282 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1172562001283 tetramer interface [polypeptide binding]; other site 1172562001284 active site 1172562001285 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1172562001286 Protein of unknown function (DUF511); Region: DUF511; pfam04373 1172562001287 type II citrate synthase; Reviewed; Region: gltA; PRK05614 1172562001288 Citrate synthase; Region: Citrate_synt; pfam00285 1172562001289 oxalacetate binding site [chemical binding]; other site 1172562001290 citrylCoA binding site [chemical binding]; other site 1172562001291 coenzyme A binding site [chemical binding]; other site 1172562001292 catalytic triad [active] 1172562001293 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1172562001294 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1172562001295 5S rRNA interface [nucleotide binding]; other site 1172562001296 CTC domain interface [polypeptide binding]; other site 1172562001297 L16 interface [polypeptide binding]; other site 1172562001298 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 1172562001299 putative active site [active] 1172562001300 catalytic residue [active] 1172562001301 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1172562001302 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1172562001303 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1172562001304 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1172562001305 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 1172562001306 thiamine phosphate binding site [chemical binding]; other site 1172562001307 active site 1172562001308 pyrophosphate binding site [ion binding]; other site 1172562001309 Sulfatase; Region: Sulfatase; cl17466 1172562001310 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1172562001311 EamA-like transporter family; Region: EamA; pfam00892 1172562001312 TRL-like protein family; Region: TRL; pfam13146 1172562001313 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 1172562001314 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1172562001315 NodB motif; other site 1172562001316 putative active site [active] 1172562001317 putative catalytic site [active] 1172562001318 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1172562001319 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1172562001320 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1172562001321 Predicted permeases [General function prediction only]; Region: COG0679 1172562001322 antiporter inner membrane protein; Provisional; Region: PRK11670 1172562001323 Domain of unknown function DUF59; Region: DUF59; pfam01883 1172562001324 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 1172562001325 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1172562001326 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1172562001327 active site 1172562001328 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1172562001329 substrate binding site [chemical binding]; other site 1172562001330 catalytic residues [active] 1172562001331 dimer interface [polypeptide binding]; other site 1172562001332 Chorismate mutase type II; Region: CM_2; smart00830 1172562001333 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1172562001334 Prephenate dehydratase; Region: PDT; pfam00800 1172562001335 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1172562001336 putative L-Phe binding site [chemical binding]; other site 1172562001337 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 1172562001338 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1172562001339 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1172562001340 active site 1172562001341 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1172562001342 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1172562001343 PGAP1-like protein; Region: PGAP1; pfam07819 1172562001344 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1172562001345 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1172562001346 active site 1172562001347 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1172562001348 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1172562001349 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1172562001350 active site 1172562001351 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1172562001352 alanine racemase; Reviewed; Region: alr; PRK00053 1172562001353 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1172562001354 catalytic residue [active] 1172562001355 Cytochrome c; Region: Cytochrom_C; cl11414 1172562001356 recombination protein RecR; Reviewed; Region: recR; PRK00076 1172562001357 RecR protein; Region: RecR; pfam02132 1172562001358 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 1172562001359 putative active site [active] 1172562001360 putative metal-binding site [ion binding]; other site 1172562001361 tetramer interface [polypeptide binding]; other site 1172562001362 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 1172562001363 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 1172562001364 HSP70 interaction site [polypeptide binding]; other site 1172562001365 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1172562001366 Zn binding sites [ion binding]; other site 1172562001367 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1172562001368 dimer interface [polypeptide binding]; other site 1172562001369 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1172562001370 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1172562001371 dimer interface [polypeptide binding]; other site 1172562001372 active site 1172562001373 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 1172562001374 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1172562001375 putative ribose interaction site [chemical binding]; other site 1172562001376 putative ADP binding site [chemical binding]; other site 1172562001377 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1172562001378 active site 1172562001379 HIGH motif; other site 1172562001380 nucleotide binding site [chemical binding]; other site 1172562001381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1172562001382 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1172562001383 NAD(P) binding site [chemical binding]; other site 1172562001384 active site 1172562001385 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 1172562001386 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 1172562001387 active site 1172562001388 motif I; other site 1172562001389 motif II; other site 1172562001390 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1172562001391 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 1172562001392 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1172562001393 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1172562001394 dimer interface [polypeptide binding]; other site 1172562001395 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1172562001396 catalytic triad [active] 1172562001397 peroxidatic and resolving cysteines [active] 1172562001398 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1172562001399 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1172562001400 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1172562001401 Na binding site [ion binding]; other site 1172562001402 glycoprotein BALF4; Provisional; Region: PHA03231 1172562001403 excinuclease ABC subunit B; Provisional; Region: PRK05298 1172562001404 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 1172562001405 ATP binding site [chemical binding]; other site 1172562001406 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 1172562001407 nucleotide binding region [chemical binding]; other site 1172562001408 ATP-binding site [chemical binding]; other site 1172562001409 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1172562001410 UvrB/uvrC motif; Region: UVR; pfam02151 1172562001411 Septum formation initiator; Region: DivIC; cl17659 1172562001412 primosome assembly protein PriA; Validated; Region: PRK05580 1172562001413 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 1172562001414 ATP binding site [chemical binding]; other site 1172562001415 putative Mg++ binding site [ion binding]; other site 1172562001416 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1172562001417 ATP-binding site [chemical binding]; other site 1172562001418 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1172562001419 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 1172562001420 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1172562001421 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1172562001422 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1172562001423 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1172562001424 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1172562001425 active site 1172562001426 (T/H)XGH motif; other site 1172562001427 nickel responsive regulator; Provisional; Region: PRK00630 1172562001428 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1172562001429 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1172562001430 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1172562001431 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1172562001432 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1172562001433 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1172562001434 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1172562001435 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1172562001436 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1172562001437 Walker A/P-loop; other site 1172562001438 ATP binding site [chemical binding]; other site 1172562001439 Q-loop/lid; other site 1172562001440 ABC transporter signature motif; other site 1172562001441 Walker B; other site 1172562001442 D-loop; other site 1172562001443 H-loop/switch region; other site 1172562001444 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1172562001445 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 1172562001446 dimer interface [polypeptide binding]; other site 1172562001447 conserved gate region; other site 1172562001448 putative PBP binding loops; other site 1172562001449 ABC-ATPase subunit interface; other site 1172562001450 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 1172562001451 dimer interface [polypeptide binding]; other site 1172562001452 conserved gate region; other site 1172562001453 putative PBP binding loops; other site 1172562001454 ABC-ATPase subunit interface; other site 1172562001455 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1172562001456 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1172562001457 AAA ATPase domain; Region: AAA_15; pfam13175 1172562001458 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562001459 Walker B; other site 1172562001460 D-loop; other site 1172562001461 H-loop/switch region; other site 1172562001462 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1172562001463 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1172562001464 putative active site; other site 1172562001465 catalytic triad [active] 1172562001466 putative dimer interface [polypeptide binding]; other site 1172562001467 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1172562001468 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 1172562001469 ATP binding site [chemical binding]; other site 1172562001470 substrate interface [chemical binding]; other site 1172562001471 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1172562001472 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1172562001473 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1172562001474 substrate binding pocket [chemical binding]; other site 1172562001475 chain length determination region; other site 1172562001476 substrate-Mg2+ binding site; other site 1172562001477 catalytic residues [active] 1172562001478 aspartate-rich region 1; other site 1172562001479 active site lid residues [active] 1172562001480 aspartate-rich region 2; other site 1172562001481 PDZ domain; Region: PDZ_2; pfam13180 1172562001482 hypothetical protein; Provisional; Region: PRK03762 1172562001483 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1172562001484 tetramerization interface [polypeptide binding]; other site 1172562001485 active site 1172562001486 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 1172562001487 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1172562001488 dinuclear metal binding motif [ion binding]; other site 1172562001489 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1172562001490 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 1172562001491 putative substrate translocation pore; other site 1172562001492 Phosphoglycerate kinase; Region: PGK; pfam00162 1172562001493 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 1172562001494 substrate binding site [chemical binding]; other site 1172562001495 hinge regions; other site 1172562001496 ADP binding site [chemical binding]; other site 1172562001497 catalytic site [active] 1172562001498 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1172562001499 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1172562001500 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1172562001501 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 1172562001502 active site 1172562001503 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 1172562001504 Acylphosphatase; Region: Acylphosphatase; pfam00708 1172562001505 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1172562001506 HypF finger; Region: zf-HYPF; pfam07503 1172562001507 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1172562001508 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 1172562001509 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 1172562001510 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1172562001511 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1172562001512 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1172562001513 AAA domain; Region: AAA_11; pfam13086 1172562001514 Part of AAA domain; Region: AAA_19; pfam13245 1172562001515 AAA domain; Region: AAA_12; pfam13087 1172562001516 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1172562001517 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 1172562001518 dimerization interface [polypeptide binding]; other site 1172562001519 ATP binding site [chemical binding]; other site 1172562001520 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1172562001521 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1172562001522 FtsX-like permease family; Region: FtsX; pfam02687 1172562001523 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1172562001524 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1172562001525 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1172562001526 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 1172562001527 nucleotide binding region [chemical binding]; other site 1172562001528 ATP-binding site [chemical binding]; other site 1172562001529 SEC-C motif; Region: SEC-C; pfam02810 1172562001530 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1172562001531 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1172562001532 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 1172562001533 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1172562001534 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1172562001535 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 1172562001536 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1172562001537 glutamine binding [chemical binding]; other site 1172562001538 catalytic triad [active] 1172562001539 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1172562001540 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1172562001541 Protein of unknown function DUF45; Region: DUF45; pfam01863 1172562001542 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1172562001543 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1172562001544 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1172562001545 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1172562001546 active site 1172562001547 HslU subunit interaction site [polypeptide binding]; other site 1172562001548 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1172562001549 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 1172562001550 Walker A motif; other site 1172562001551 ATP binding site [chemical binding]; other site 1172562001552 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1172562001553 Walker B motif; other site 1172562001554 arginine finger; other site 1172562001555 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1172562001556 GTPase Era; Reviewed; Region: era; PRK00089 1172562001557 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1172562001558 G1 box; other site 1172562001559 GTP/Mg2+ binding site [chemical binding]; other site 1172562001560 Switch I region; other site 1172562001561 G2 box; other site 1172562001562 Switch II region; other site 1172562001563 G3 box; other site 1172562001564 G4 box; other site 1172562001565 G5 box; other site 1172562001566 KH domain; Region: KH_2; pfam07650 1172562001567 G-X-X-G motif; other site 1172562001568 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1172562001569 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 1172562001570 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 1172562001571 putative substrate translocation pore; other site 1172562001572 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1172562001573 putative acyl-acceptor binding pocket; other site 1172562001574 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1172562001575 acyl-activating enzyme (AAE) consensus motif; other site 1172562001576 putative AMP binding site [chemical binding]; other site 1172562001577 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1172562001578 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1172562001579 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1172562001580 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1172562001581 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1172562001582 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1172562001583 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1172562001584 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1172562001585 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 1172562001586 putative translocon binding site; other site 1172562001587 protein-rRNA interface [nucleotide binding]; other site 1172562001588 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1172562001589 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 1172562001590 G-X-X-G motif; other site 1172562001591 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1172562001592 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 1172562001593 23S rRNA interface [nucleotide binding]; other site 1172562001594 5S rRNA interface [nucleotide binding]; other site 1172562001595 putative antibiotic binding site [chemical binding]; other site 1172562001596 L25 interface [polypeptide binding]; other site 1172562001597 L27 interface [polypeptide binding]; other site 1172562001598 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 1172562001599 23S rRNA interface [nucleotide binding]; other site 1172562001600 putative translocon interaction site; other site 1172562001601 signal recognition particle (SRP54) interaction site; other site 1172562001602 L23 interface [polypeptide binding]; other site 1172562001603 trigger factor interaction site; other site 1172562001604 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1172562001605 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1172562001606 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1172562001607 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1172562001608 RNA binding site [nucleotide binding]; other site 1172562001609 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1172562001610 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1172562001611 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1172562001612 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 1172562001613 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1172562001614 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1172562001615 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1172562001616 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1172562001617 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 1172562001618 23S rRNA interface [nucleotide binding]; other site 1172562001619 5S rRNA interface [nucleotide binding]; other site 1172562001620 L27 interface [polypeptide binding]; other site 1172562001621 L5 interface [polypeptide binding]; other site 1172562001622 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 1172562001623 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1172562001624 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1172562001625 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1172562001626 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1172562001627 SecY translocase; Region: SecY; pfam00344 1172562001628 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 1172562001629 active site 1172562001630 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 1172562001631 rRNA binding site [nucleotide binding]; other site 1172562001632 predicted 30S ribosome binding site; other site 1172562001633 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1172562001634 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1172562001635 30S ribosomal protein S11; Validated; Region: PRK05309 1172562001636 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1172562001637 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1172562001638 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 1172562001639 RNA binding surface [nucleotide binding]; other site 1172562001640 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1172562001641 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1172562001642 alphaNTD homodimer interface [polypeptide binding]; other site 1172562001643 alphaNTD - beta interaction site [polypeptide binding]; other site 1172562001644 alphaNTD - beta' interaction site [polypeptide binding]; other site 1172562001645 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1172562001646 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1172562001647 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1172562001648 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1172562001649 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1172562001650 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 1172562001651 substrate-cofactor binding pocket; other site 1172562001652 homodimer interface [polypeptide binding]; other site 1172562001653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562001654 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 1172562001655 catalytic residue [active] 1172562001656 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1172562001657 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1172562001658 glutamine binding [chemical binding]; other site 1172562001659 catalytic triad [active] 1172562001660 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1172562001661 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1172562001662 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 1172562001663 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1172562001664 molybdopterin cofactor binding site; other site 1172562001665 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1172562001666 molybdopterin cofactor binding site; other site 1172562001667 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1172562001668 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1172562001669 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1172562001670 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1172562001671 Outer membrane efflux protein; Region: OEP; pfam02321 1172562001672 Outer membrane efflux protein; Region: OEP; pfam02321 1172562001673 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1172562001674 HlyD family secretion protein; Region: HlyD_3; pfam13437 1172562001675 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1172562001676 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1172562001677 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1172562001678 Cytochrome c552; Region: Cytochrom_C552; pfam02335 1172562001679 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 1172562001680 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1172562001681 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1172562001682 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1172562001683 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1172562001684 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 1172562001685 S-adenosylmethionine binding site [chemical binding]; other site 1172562001686 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 1172562001687 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1172562001688 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1172562001689 dimerization interface [polypeptide binding]; other site 1172562001690 DPS ferroxidase diiron center [ion binding]; other site 1172562001691 ion pore; other site 1172562001692 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 1172562001693 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1172562001694 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; cl00522 1172562001695 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 1172562001696 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 1172562001697 active site 1172562001698 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1172562001699 UDP-galactopyranose mutase; Region: GLF; pfam03275 1172562001700 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1172562001701 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 1172562001702 ATP binding site [chemical binding]; other site 1172562001703 substrate interface [chemical binding]; other site 1172562001704 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1172562001705 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1172562001706 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1172562001707 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1172562001708 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1172562001709 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1172562001710 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1172562001711 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1172562001712 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1172562001713 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1172562001714 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1172562001715 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1172562001716 4Fe-4S binding domain; Region: Fer4; pfam00037 1172562001717 4Fe-4S binding domain; Region: Fer4; pfam00037 1172562001718 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1172562001719 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1172562001720 NADH dehydrogenase subunit G; Validated; Region: PRK08493 1172562001721 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 1172562001722 catalytic loop [active] 1172562001723 iron binding site [ion binding]; other site 1172562001724 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1172562001725 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 1172562001726 molybdopterin cofactor binding site; other site 1172562001727 NADH dehydrogenase subunit G; Validated; Region: PRK08493 1172562001728 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1172562001729 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1172562001730 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1172562001731 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1172562001732 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 1172562001733 Family description; Region: DsbD_2; pfam13386 1172562001734 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1172562001735 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1172562001736 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1172562001737 active site 1172562001738 GTP-binding protein Der; Reviewed; Region: PRK00093 1172562001739 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1172562001740 G1 box; other site 1172562001741 GTP/Mg2+ binding site [chemical binding]; other site 1172562001742 Switch I region; other site 1172562001743 G2 box; other site 1172562001744 Switch II region; other site 1172562001745 G3 box; other site 1172562001746 G4 box; other site 1172562001747 G5 box; other site 1172562001748 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1172562001749 G1 box; other site 1172562001750 GTP/Mg2+ binding site [chemical binding]; other site 1172562001751 Switch I region; other site 1172562001752 G2 box; other site 1172562001753 G3 box; other site 1172562001754 Switch II region; other site 1172562001755 G4 box; other site 1172562001756 G5 box; other site 1172562001757 Cache domain; Region: Cache_1; pfam02743 1172562001758 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 1172562001759 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 1172562001760 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1172562001761 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1172562001762 metal binding site [ion binding]; metal-binding site 1172562001763 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1172562001764 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1172562001765 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1172562001766 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 1172562001767 homodimer interface [polypeptide binding]; other site 1172562001768 substrate-cofactor binding pocket; other site 1172562001769 catalytic residue [active] 1172562001770 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1172562001771 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562001772 Walker A/P-loop; other site 1172562001773 ATP binding site [chemical binding]; other site 1172562001774 Q-loop/lid; other site 1172562001775 ABC transporter signature motif; other site 1172562001776 Walker B; other site 1172562001777 D-loop; other site 1172562001778 H-loop/switch region; other site 1172562001779 ABC transporter; Region: ABC_tran_2; pfam12848 1172562001780 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1172562001781 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1172562001782 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1172562001783 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1172562001784 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1172562001785 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1172562001786 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 1172562001787 protein binding site [polypeptide binding]; other site 1172562001788 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 1172562001789 protein binding site [polypeptide binding]; other site 1172562001790 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1172562001791 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1172562001792 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1172562001793 CheB methylesterase; Region: CheB_methylest; pfam01339 1172562001794 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1172562001795 hypothetical protein; Provisional; Region: PRK01346 1172562001796 Sterol carrier protein domain; Region: SCP2_2; pfam13530 1172562001797 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1172562001798 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1172562001799 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 1172562001800 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1172562001801 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1172562001802 sec-independent translocase; Provisional; Region: PRK04098 1172562001803 seryl-tRNA synthetase; Provisional; Region: PRK05431 1172562001804 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1172562001805 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 1172562001806 dimer interface [polypeptide binding]; other site 1172562001807 active site 1172562001808 motif 1; other site 1172562001809 motif 2; other site 1172562001810 motif 3; other site 1172562001811 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 1172562001812 TPR motif; other site 1172562001813 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1172562001814 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1172562001815 putative active site [active] 1172562001816 putative metal binding site [ion binding]; other site 1172562001817 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1172562001818 23S rRNA binding site [nucleotide binding]; other site 1172562001819 L21 binding site [polypeptide binding]; other site 1172562001820 L13 binding site [polypeptide binding]; other site 1172562001821 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1172562001822 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1172562001823 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1172562001824 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1172562001825 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1172562001826 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1172562001827 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 1172562001828 active site 1172562001829 dimer interface [polypeptide binding]; other site 1172562001830 motif 1; other site 1172562001831 motif 2; other site 1172562001832 motif 3; other site 1172562001833 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 1172562001834 anticodon binding site; other site 1172562001835 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1172562001836 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 1172562001837 hinge region; other site 1172562001838 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1172562001839 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1172562001840 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 1172562001841 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1172562001842 DXD motif; other site 1172562001843 Putative Catalytic site; other site 1172562001844 Predicted membrane protein [Function unknown]; Region: COG2246 1172562001845 GtrA-like protein; Region: GtrA; pfam04138 1172562001846 NADH dehydrogenase subunit 5; Provisional; Region: ND5; MTH00095 1172562001847 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 1172562001848 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1172562001849 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1172562001850 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1172562001851 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1172562001852 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1172562001853 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1172562001854 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1172562001855 ligand binding site [chemical binding]; other site 1172562001856 translocation protein TolB; Provisional; Region: tolB; PRK04043 1172562001857 TolB amino-terminal domain; Region: TolB_N; pfam04052 1172562001858 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1172562001859 TonB C terminal; Region: TonB_2; pfam13103 1172562001860 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1172562001861 TolR protein; Region: tolR; TIGR02801 1172562001862 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1172562001863 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1172562001864 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1172562001865 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1172562001866 gamma subunit interface [polypeptide binding]; other site 1172562001867 epsilon subunit interface [polypeptide binding]; other site 1172562001868 LBP interface [polypeptide binding]; other site 1172562001869 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1172562001870 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1172562001871 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1172562001872 alpha subunit interaction interface [polypeptide binding]; other site 1172562001873 Walker A motif; other site 1172562001874 ATP binding site [chemical binding]; other site 1172562001875 Walker B motif; other site 1172562001876 inhibitor binding site; inhibition site 1172562001877 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1172562001878 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1172562001879 core domain interface [polypeptide binding]; other site 1172562001880 delta subunit interface [polypeptide binding]; other site 1172562001881 epsilon subunit interface [polypeptide binding]; other site 1172562001882 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1172562001883 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1172562001884 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 1172562001885 beta subunit interaction interface [polypeptide binding]; other site 1172562001886 Walker A motif; other site 1172562001887 ATP binding site [chemical binding]; other site 1172562001888 Walker B motif; other site 1172562001889 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1172562001890 F0F1 ATP synthase subunit delta; Validated; Region: PRK08474 1172562001891 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1172562001892 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 1172562001893 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 1172562001894 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 1172562001895 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1172562001896 ParB-like nuclease domain; Region: ParBc; pfam02195 1172562001897 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1172562001898 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1172562001899 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 1172562001900 P-loop; other site 1172562001901 Magnesium ion binding site [ion binding]; other site 1172562001902 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 1172562001903 Magnesium ion binding site [ion binding]; other site 1172562001904 biotin--protein ligase; Provisional; Region: PRK08477 1172562001905 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1172562001906 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1172562001907 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1172562001908 putative active site [active] 1172562001909 substrate binding site [chemical binding]; other site 1172562001910 putative cosubstrate binding site; other site 1172562001911 catalytic site [active] 1172562001912 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1172562001913 substrate binding site [chemical binding]; other site 1172562001914 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 1172562001915 nucleotide binding site [chemical binding]; other site 1172562001916 homotetrameric interface [polypeptide binding]; other site 1172562001917 putative phosphate binding site [ion binding]; other site 1172562001918 putative allosteric binding site; other site 1172562001919 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1172562001920 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1172562001921 NADP binding site [chemical binding]; other site 1172562001922 active site 1172562001923 putative substrate binding site [chemical binding]; other site 1172562001924 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1172562001925 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1172562001926 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1172562001927 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1172562001928 substrate binding site [chemical binding]; other site 1172562001929 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 1172562001930 dimer interface [polypeptide binding]; other site 1172562001931 conserved gate region; other site 1172562001932 putative PBP binding loops; other site 1172562001933 ABC-ATPase subunit interface; other site 1172562001934 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1172562001935 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1172562001936 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 1172562001937 dimer interface [polypeptide binding]; other site 1172562001938 conserved gate region; other site 1172562001939 putative PBP binding loops; other site 1172562001940 ABC-ATPase subunit interface; other site 1172562001941 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1172562001942 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 1172562001943 Walker A/P-loop; other site 1172562001944 ATP binding site [chemical binding]; other site 1172562001945 Q-loop/lid; other site 1172562001946 ABC transporter signature motif; other site 1172562001947 Walker B; other site 1172562001948 D-loop; other site 1172562001949 H-loop/switch region; other site 1172562001950 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1172562001951 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1172562001952 Walker A/P-loop; other site 1172562001953 ATP binding site [chemical binding]; other site 1172562001954 Q-loop/lid; other site 1172562001955 ABC transporter signature motif; other site 1172562001956 Walker B; other site 1172562001957 D-loop; other site 1172562001958 H-loop/switch region; other site 1172562001959 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1172562001960 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1172562001961 NADP-binding site; other site 1172562001962 homotetramer interface [polypeptide binding]; other site 1172562001963 substrate binding site [chemical binding]; other site 1172562001964 homodimer interface [polypeptide binding]; other site 1172562001965 active site 1172562001966 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1172562001967 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1172562001968 HD domain; Region: HD_3; pfam13023 1172562001969 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1172562001970 Ligand binding site; other site 1172562001971 Putative Catalytic site; other site 1172562001972 DXD motif; other site 1172562001973 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1172562001974 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1172562001975 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1172562001976 Ligand binding site; other site 1172562001977 Putative Catalytic site; other site 1172562001978 DXD motif; other site 1172562001979 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1172562001980 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562001981 dimer interface [polypeptide binding]; other site 1172562001982 putative CheW interface [polypeptide binding]; other site 1172562001983 Predicted membrane protein [Function unknown]; Region: COG2246 1172562001984 GtrA-like protein; Region: GtrA; pfam04138 1172562001985 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1172562001986 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1172562001987 Ligand binding site; other site 1172562001988 oligomer interface; other site 1172562001989 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1172562001990 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1172562001991 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1172562001992 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 1172562001993 ligand binding site [chemical binding]; other site 1172562001994 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1172562001995 non-specific DNA interactions [nucleotide binding]; other site 1172562001996 DNA binding site [nucleotide binding] 1172562001997 sequence specific DNA binding site [nucleotide binding]; other site 1172562001998 putative cAMP binding site [chemical binding]; other site 1172562001999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1172562002000 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1172562002001 apolar tunnel; other site 1172562002002 heme binding site [chemical binding]; other site 1172562002003 dimerization interface [polypeptide binding]; other site 1172562002004 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1172562002005 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1172562002006 NapD protein; Region: NapD; cl01163 1172562002007 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1172562002008 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1172562002009 structural tetrad; other site 1172562002010 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1172562002011 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1172562002012 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1172562002013 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 1172562002014 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1172562002015 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 1172562002016 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1172562002017 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 1172562002018 molybdopterin cofactor binding site; other site 1172562002019 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 1172562002020 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1172562002021 molybdopterin cofactor binding site; other site 1172562002022 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1172562002023 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 1172562002024 active site 1172562002025 motif I; other site 1172562002026 motif II; other site 1172562002027 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1172562002028 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1172562002029 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1172562002030 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1172562002031 trimer interface [polypeptide binding]; other site 1172562002032 active site 1172562002033 PQQ-like domain; Region: PQQ_2; pfam13360 1172562002034 pantothenate kinase; Reviewed; Region: PRK13333 1172562002035 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1172562002036 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1172562002037 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1172562002038 Sel1-like repeats; Region: SEL1; smart00671 1172562002039 Sel1 repeat; Region: Sel1; cl02723 1172562002040 Sel1-like repeats; Region: SEL1; smart00671 1172562002041 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1172562002042 Sel1-like repeats; Region: SEL1; smart00671 1172562002043 Sel1-like repeats; Region: SEL1; smart00671 1172562002044 Sel1-like repeats; Region: SEL1; smart00671 1172562002045 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 1172562002046 hypothetical protein; Provisional; Region: PRK12378 1172562002047 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 1172562002048 dimer interface [polypeptide binding]; other site 1172562002049 active site 1172562002050 Schiff base residues; other site 1172562002051 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1172562002052 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 1172562002053 ATP binding site [chemical binding]; other site 1172562002054 Mg2+ binding site [ion binding]; other site 1172562002055 G-X-G motif; other site 1172562002056 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1172562002057 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 1172562002058 active site 1172562002059 phosphorylation site [posttranslational modification] 1172562002060 intermolecular recognition site; other site 1172562002061 dimerization interface [polypeptide binding]; other site 1172562002062 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 1172562002063 DNA binding site [nucleotide binding] 1172562002064 DNA-directed DNA polymerase III (polc); Region: polc; TIGR00594 1172562002065 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1172562002066 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 1172562002067 Ligand Binding Site [chemical binding]; other site 1172562002068 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 1172562002069 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1172562002070 putative substrate translocation pore; other site 1172562002071 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 1172562002072 active site 1172562002073 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1172562002074 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1172562002075 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 1172562002076 protein binding site [polypeptide binding]; other site 1172562002077 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1172562002078 Catalytic dyad [active] 1172562002079 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1172562002080 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1172562002081 ATP binding site [chemical binding]; other site 1172562002082 active site 1172562002083 substrate binding site [chemical binding]; other site 1172562002084 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 1172562002085 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1172562002086 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1172562002087 putative active site [active] 1172562002088 catalytic triad [active] 1172562002089 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1172562002090 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1172562002091 putative acyl-acceptor binding pocket; other site 1172562002092 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1172562002093 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; cl15377 1172562002094 FeS/SAM binding site; other site 1172562002095 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 1172562002096 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1172562002097 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 1172562002098 FeS/SAM binding site; other site 1172562002099 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1172562002100 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1172562002101 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 1172562002102 FeS/SAM binding site; other site 1172562002103 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1172562002104 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 1172562002105 S-adenosylmethionine binding site [chemical binding]; other site 1172562002106 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 1172562002107 TPP-binding site [chemical binding]; other site 1172562002108 dimer interface [polypeptide binding]; other site 1172562002109 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 1172562002110 PYR/PP interface [polypeptide binding]; other site 1172562002111 dimer interface [polypeptide binding]; other site 1172562002112 TPP binding site [chemical binding]; other site 1172562002113 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 1172562002114 TPP-binding site [chemical binding]; other site 1172562002115 dimer interface [polypeptide binding]; other site 1172562002116 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1172562002117 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 1172562002118 PYR/PP interface [polypeptide binding]; other site 1172562002119 dimer interface [polypeptide binding]; other site 1172562002120 TPP binding site [chemical binding]; other site 1172562002121 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1172562002122 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1172562002123 classical (c) SDRs; Region: SDR_c; cd05233 1172562002124 NAD(P) binding site [chemical binding]; other site 1172562002125 active site 1172562002126 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 1172562002127 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1172562002128 FeS/SAM binding site; other site 1172562002129 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1172562002130 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1172562002131 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 1172562002132 S-adenosylmethionine binding site [chemical binding]; other site 1172562002133 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 1172562002134 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1172562002135 FeS/SAM binding site; other site 1172562002136 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1172562002137 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1172562002138 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 1172562002139 S-adenosylmethionine binding site [chemical binding]; other site 1172562002140 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1172562002141 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 1172562002142 S-adenosylmethionine binding site [chemical binding]; other site 1172562002143 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1172562002144 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 1172562002145 S-adenosylmethionine binding site [chemical binding]; other site 1172562002146 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1172562002147 classical (c) SDRs; Region: SDR_c; cd05233 1172562002148 NAD(P) binding site [chemical binding]; other site 1172562002149 active site 1172562002150 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1172562002151 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 1172562002152 S-adenosylmethionine binding site [chemical binding]; other site 1172562002153 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1172562002154 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1172562002155 putative active site [active] 1172562002156 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1172562002157 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1172562002158 quinone interaction residues [chemical binding]; other site 1172562002159 active site 1172562002160 catalytic residues [active] 1172562002161 FMN binding site [chemical binding]; other site 1172562002162 substrate binding site [chemical binding]; other site 1172562002163 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1172562002164 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1172562002165 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1172562002166 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1172562002167 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1172562002168 dimer interface [polypeptide binding]; other site 1172562002169 active site 1172562002170 catalytic residue [active] 1172562002171 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 1172562002172 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 1172562002173 putative NAD(P) binding site [chemical binding]; other site 1172562002174 active site 1172562002175 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 1172562002176 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1172562002177 active site 1172562002178 catalytic triad [active] 1172562002179 dimer interface [polypeptide binding]; other site 1172562002180 TPR repeat; Region: TPR_11; pfam13414 1172562002181 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 1172562002182 binding surface 1172562002183 TPR motif; other site 1172562002184 TPR repeat; Region: TPR_11; pfam13414 1172562002185 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 1172562002186 binding surface 1172562002187 TPR motif; other site 1172562002188 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1172562002189 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1172562002190 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1172562002191 PAS domain; Region: PAS_9; pfam13426 1172562002192 putative active site [active] 1172562002193 heme pocket [chemical binding]; other site 1172562002194 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 1172562002195 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1172562002196 RNA binding site [nucleotide binding]; other site 1172562002197 active site 1172562002198 carbon storage regulator; Provisional; Region: PRK00568 1172562002199 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 1172562002200 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1172562002201 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 1172562002202 SmpB-tmRNA interface; other site 1172562002203 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1172562002204 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1172562002205 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1172562002206 Tht1-like nuclear fusion protein; Region: Tht1; pfam04163 1172562002207 flagellar motor protein MotS; Reviewed; Region: PRK06925 1172562002208 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1172562002209 ligand binding site [chemical binding]; other site 1172562002210 Ribonuclease P; Region: Ribonuclease_P; pfam00825 1172562002211 membrane protein insertase; Provisional; Region: PRK01318 1172562002212 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1172562002213 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1172562002214 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1172562002215 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1172562002216 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1172562002217 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1172562002218 G1 box; other site 1172562002219 GTP/Mg2+ binding site [chemical binding]; other site 1172562002220 Switch I region; other site 1172562002221 G2 box; other site 1172562002222 Switch II region; other site 1172562002223 G3 box; other site 1172562002224 G4 box; other site 1172562002225 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1172562002226 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1172562002227 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 1172562002228 catalytic residue [active] 1172562002229 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1172562002230 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1172562002231 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1172562002232 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1172562002233 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1172562002234 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1172562002235 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1172562002236 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1172562002237 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1172562002238 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 1172562002239 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1172562002240 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1172562002241 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1172562002242 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1172562002243 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1172562002244 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 1172562002245 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1172562002246 G1 box; other site 1172562002247 GTP/Mg2+ binding site [chemical binding]; other site 1172562002248 Switch I region; other site 1172562002249 G2 box; other site 1172562002250 G3 box; other site 1172562002251 Switch II region; other site 1172562002252 G4 box; other site 1172562002253 G5 box; other site 1172562002254 Nucleoside recognition; Region: Gate; pfam07670 1172562002255 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1172562002256 Nucleoside recognition; Region: Gate; pfam07670 1172562002257 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 1172562002258 active site 1172562002259 Methyltransferase FkbM domain; Region: Methyltransf_21; pfam05050 1172562002260 flagellin modification protein A; Provisional; Region: PRK09186 1172562002261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1172562002262 NAD(P) binding site [chemical binding]; other site 1172562002263 active site 1172562002264 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1172562002265 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1172562002266 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 1172562002267 S-adenosylmethionine binding site [chemical binding]; other site 1172562002268 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 1172562002269 nucleotide binding site/active site [active] 1172562002270 HIT family signature motif; other site 1172562002271 catalytic residue [active] 1172562002272 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1172562002273 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1172562002274 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 1172562002275 dimer interface [polypeptide binding]; other site 1172562002276 motif 1; other site 1172562002277 active site 1172562002278 motif 2; other site 1172562002279 motif 3; other site 1172562002280 phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial; Region: pheT_bact; TIGR00472 1172562002281 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 1172562002282 putative tRNA-binding site [nucleotide binding]; other site 1172562002283 tRNA synthetase B5 domain; Region: B5; smart00874 1172562002284 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 1172562002285 dimer interface [polypeptide binding]; other site 1172562002286 motif 1; other site 1172562002287 motif 3; other site 1172562002288 motif 2; other site 1172562002289 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1172562002290 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1172562002291 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 1172562002292 TPP-binding site [chemical binding]; other site 1172562002293 dimer interface [polypeptide binding]; other site 1172562002294 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 1172562002295 PYR/PP interface [polypeptide binding]; other site 1172562002296 dimer interface [polypeptide binding]; other site 1172562002297 TPP binding site [chemical binding]; other site 1172562002298 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1172562002299 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1172562002300 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 1172562002301 active site 1172562002302 oxyanion hole [active] 1172562002303 catalytic triad [active] 1172562002304 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 1172562002305 FeS/SAM binding site; other site 1172562002306 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1172562002307 glutamate racemase; Provisional; Region: PRK00865 1172562002308 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1172562002309 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1172562002310 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 1172562002311 RNA binding site [nucleotide binding]; other site 1172562002312 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1172562002313 multimer interface [polypeptide binding]; other site 1172562002314 Walker A motif; other site 1172562002315 ATP binding site [chemical binding]; other site 1172562002316 Walker B motif; other site 1172562002317 Response regulator receiver domain; Region: Response_reg; pfam00072 1172562002318 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 1172562002319 active site 1172562002320 phosphorylation site [posttranslational modification] 1172562002321 intermolecular recognition site; other site 1172562002322 dimerization interface [polypeptide binding]; other site 1172562002323 Firmicute plasmid replication protein (RepL); Region: RepL; pfam05732 1172562002324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1172562002325 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; cl00080 1172562002326 dimer interface [polypeptide binding]; other site 1172562002327 phosphorylation site [posttranslational modification] 1172562002328 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 1172562002329 ATP binding site [chemical binding]; other site 1172562002330 G-X-G motif; other site 1172562002331 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1172562002332 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1172562002333 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1172562002334 GIY-YIG motif/motif A; other site 1172562002335 active site 1172562002336 catalytic site [active] 1172562002337 putative DNA binding site [nucleotide binding]; other site 1172562002338 metal binding site [ion binding]; metal-binding site 1172562002339 UvrB/uvrC motif; Region: UVR; pfam02151 1172562002340 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1172562002341 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 1172562002342 L-aspartate oxidase; Provisional; Region: PRK06175 1172562002343 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1172562002344 RmuC family; Region: RmuC; pfam02646 1172562002345 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1172562002346 trimer interface [polypeptide binding]; other site 1172562002347 dimer interface [polypeptide binding]; other site 1172562002348 putative active site [active] 1172562002349 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1172562002350 MPT binding site; other site 1172562002351 trimer interface [polypeptide binding]; other site 1172562002352 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1172562002353 Walker A motif; other site 1172562002354 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1172562002355 MoaE homodimer interface [polypeptide binding]; other site 1172562002356 MoaD interaction [polypeptide binding]; other site 1172562002357 active site residues [active] 1172562002358 ThiS family; Region: ThiS; pfam02597 1172562002359 charged pocket; other site 1172562002360 hydrophobic patch; other site 1172562002361 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1172562002362 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1172562002363 dimer interface [polypeptide binding]; other site 1172562002364 putative functional site; other site 1172562002365 putative MPT binding site; other site 1172562002366 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 1172562002367 dimerization interface [polypeptide binding]; other site 1172562002368 active site 1172562002369 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1172562002370 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1172562002371 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1172562002372 active site clefts [active] 1172562002373 zinc binding site [ion binding]; other site 1172562002374 dimer interface [polypeptide binding]; other site 1172562002375 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1172562002376 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1172562002377 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 1172562002378 homopentamer interface [polypeptide binding]; other site 1172562002379 active site 1172562002380 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1172562002381 putative RNA binding site [nucleotide binding]; other site 1172562002382 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 1172562002383 active site 1172562002384 dimer interface [polypeptide binding]; other site 1172562002385 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1172562002386 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1172562002387 active site 1172562002388 ATP-binding site [chemical binding]; other site 1172562002389 pantoate-binding site; other site 1172562002390 HXXH motif; other site 1172562002391 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 1172562002392 heat shock protein HtpX; Provisional; Region: PRK02870 1172562002393 GTP cyclohydrolase I; Provisional; Region: PLN03044 1172562002394 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1172562002395 active site 1172562002396 hypothetical protein; Provisional; Region: PRK10621 1172562002397 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1172562002398 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1172562002399 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1172562002400 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 1172562002401 active site 1172562002402 phosphorylation site [posttranslational modification] 1172562002403 intermolecular recognition site; other site 1172562002404 dimerization interface [polypeptide binding]; other site 1172562002405 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 1172562002406 DNA binding site [nucleotide binding] 1172562002407 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1172562002408 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 1172562002409 dimer interface [polypeptide binding]; other site 1172562002410 phosphorylation site [posttranslational modification] 1172562002411 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 1172562002412 ATP binding site [chemical binding]; other site 1172562002413 Mg2+ binding site [ion binding]; other site 1172562002414 G-X-G motif; other site 1172562002415 replicative DNA helicase; Provisional; Region: PRK08506 1172562002416 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1172562002417 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 1172562002418 Walker A motif; other site 1172562002419 ATP binding site [chemical binding]; other site 1172562002420 Walker B motif; other site 1172562002421 DNA binding loops [nucleotide binding] 1172562002422 Competence protein; Region: Competence; pfam03772 1172562002423 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1172562002424 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1172562002425 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1172562002426 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 1172562002427 putative trimer interface [polypeptide binding]; other site 1172562002428 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1172562002429 putative CoA binding site [chemical binding]; other site 1172562002430 putative trimer interface [polypeptide binding]; other site 1172562002431 putative active site [active] 1172562002432 putative substrate binding site [chemical binding]; other site 1172562002433 putative CoA binding site [chemical binding]; other site 1172562002434 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1172562002435 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1172562002436 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1172562002437 Sporulation related domain; Region: SPOR; pfam05036 1172562002438 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 1172562002439 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1172562002440 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 1172562002441 dimer interface [polypeptide binding]; other site 1172562002442 active site 1172562002443 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1172562002444 folate binding site [chemical binding]; other site 1172562002445 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1172562002446 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 1172562002447 dimer interface [polypeptide binding]; other site 1172562002448 putative anticodon binding site; other site 1172562002449 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 1172562002450 motif 1; other site 1172562002451 active site 1172562002452 motif 2; other site 1172562002453 motif 3; other site 1172562002454 Colicin V production protein; Region: Colicin_V; pfam02674 1172562002455 prenyltransferase; Reviewed; Region: ubiA; PRK12874 1172562002456 UbiA prenyltransferase family; Region: UbiA; pfam01040 1172562002457 aspartate aminotransferase; Provisional; Region: PRK05764 1172562002458 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 1172562002459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562002460 homodimer interface [polypeptide binding]; other site 1172562002461 catalytic residue [active] 1172562002462 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1172562002463 BNR repeat-like domain; Region: BNR_2; pfam13088 1172562002464 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1172562002465 Sulfatase; Region: Sulfatase; cl17466 1172562002466 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 1172562002467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1172562002468 flagellin B; Provisional; Region: PRK13588 1172562002469 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1172562002470 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1172562002471 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1172562002472 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1172562002473 DNA topoisomerase I; Validated; Region: PRK05582 1172562002474 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1172562002475 active site 1172562002476 interdomain interaction site; other site 1172562002477 putative metal-binding site [ion binding]; other site 1172562002478 nucleotide binding site [chemical binding]; other site 1172562002479 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 1172562002480 domain I; other site 1172562002481 phosphate binding site [ion binding]; other site 1172562002482 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 1172562002483 domain III; other site 1172562002484 DNA binding groove [nucleotide binding] 1172562002485 catalytic site [active] 1172562002486 nucleotide binding site [chemical binding]; other site 1172562002487 domain II; other site 1172562002488 domain IV; other site 1172562002489 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1172562002490 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1172562002491 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1172562002492 histidinol-phosphatase; Provisional; Region: PRK07328 1172562002493 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 1172562002494 active site 1172562002495 dimer interface [polypeptide binding]; other site 1172562002496 META domain; Region: META; pfam03724 1172562002497 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1172562002498 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1172562002499 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1172562002500 argininosuccinate lyase; Provisional; Region: PRK00855 1172562002501 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1172562002502 active sites [active] 1172562002503 tetramer interface [polypeptide binding]; other site 1172562002504 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1172562002505 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 1172562002506 S-adenosylmethionine binding site [chemical binding]; other site 1172562002507 malate:quinone oxidoreductase; Validated; Region: PRK05257 1172562002508 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1172562002509 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 1172562002510 histidinol dehydrogenase; Region: hisD; TIGR00069 1172562002511 NAD binding site [chemical binding]; other site 1172562002512 dimerization interface [polypeptide binding]; other site 1172562002513 product binding site; other site 1172562002514 substrate binding site [chemical binding]; other site 1172562002515 zinc binding site [ion binding]; other site 1172562002516 catalytic residues [active] 1172562002517 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 1172562002518 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1172562002519 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1172562002520 substrate binding pocket [chemical binding]; other site 1172562002521 chain length determination region; other site 1172562002522 substrate-Mg2+ binding site; other site 1172562002523 catalytic residues [active] 1172562002524 aspartate-rich region 1; other site 1172562002525 active site lid residues [active] 1172562002526 aspartate-rich region 2; other site 1172562002527 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1172562002528 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1172562002529 tRNA; other site 1172562002530 putative tRNA binding site [nucleotide binding]; other site 1172562002531 putative NADP binding site [chemical binding]; other site 1172562002532 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1172562002533 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1172562002534 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 1172562002535 dimer interface [polypeptide binding]; other site 1172562002536 motif 1; other site 1172562002537 active site 1172562002538 motif 2; other site 1172562002539 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 1172562002540 putative deacylase active site [active] 1172562002541 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 1172562002542 active site 1172562002543 motif 3; other site 1172562002544 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 1172562002545 anticodon binding site; other site 1172562002546 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1172562002547 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1172562002548 domain interfaces; other site 1172562002549 active site 1172562002550 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1172562002551 biotin synthase; Provisional; Region: PRK08508 1172562002552 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 1172562002553 FeS/SAM binding site; other site 1172562002554 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1172562002555 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1172562002556 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 1172562002557 generic binding surface II; other site 1172562002558 generic binding surface I; other site 1172562002559 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1172562002560 dimerization interface [polypeptide binding]; other site 1172562002561 putative ATP binding site [chemical binding]; other site 1172562002562 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 1172562002563 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 1172562002564 CPxP motif; other site 1172562002565 DsrE/DsrF-like family; Region: DrsE; pfam02635 1172562002566 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1172562002567 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1172562002568 substrate binding site [chemical binding]; other site 1172562002569 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1172562002570 substrate binding site [chemical binding]; other site 1172562002571 ligand binding site [chemical binding]; other site 1172562002572 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1172562002573 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 1172562002574 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1172562002575 catalytic residue [active] 1172562002576 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1172562002577 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1172562002578 G1 box; other site 1172562002579 putative GEF interaction site [polypeptide binding]; other site 1172562002580 GTP/Mg2+ binding site [chemical binding]; other site 1172562002581 Switch I region; other site 1172562002582 G2 box; other site 1172562002583 G3 box; other site 1172562002584 Switch II region; other site 1172562002585 G4 box; other site 1172562002586 G5 box; other site 1172562002587 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 1172562002588 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 1172562002589 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1172562002590 dimer interface [polypeptide binding]; other site 1172562002591 FMN binding site [chemical binding]; other site 1172562002592 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 1172562002593 ATP cone domain; Region: ATP-cone; pfam03477 1172562002594 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1172562002595 active site 1172562002596 dimer interface [polypeptide binding]; other site 1172562002597 catalytic residues [active] 1172562002598 effector binding site; other site 1172562002599 R2 peptide binding site; other site 1172562002600 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1172562002601 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 1172562002602 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1172562002603 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1172562002604 RF-1 domain; Region: RF-1; pfam00472 1172562002605 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1172562002606 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 1172562002607 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1172562002608 active site 1172562002609 substrate binding site [chemical binding]; other site 1172562002610 metal binding site [ion binding]; metal-binding site 1172562002611 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1172562002612 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 1172562002613 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1172562002614 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 1172562002615 nucleotide binding region [chemical binding]; other site 1172562002616 ATP-binding site [chemical binding]; other site 1172562002617 Predicted helicase [General function prediction only]; Region: COG4889 1172562002618 Predicted permease [General function prediction only]; Region: COG2056 1172562002619 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1172562002620 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1172562002621 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 1172562002622 S-adenosylmethionine binding site [chemical binding]; other site 1172562002623 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1172562002624 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1172562002625 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1172562002626 substrate binding site [chemical binding]; other site 1172562002627 active site 1172562002628 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1172562002629 Domain of unknown function DUF21; Region: DUF21; pfam01595 1172562002630 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 1172562002631 Transporter associated domain; Region: CorC_HlyC; smart01091 1172562002632 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1172562002633 Phosphate transporter family; Region: PHO4; pfam01384 1172562002634 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 1172562002635 DctM-like transporters; Region: DctM; pfam06808 1172562002636 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1172562002637 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1172562002638 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1172562002639 NifU-like domain; Region: NifU; cl00484 1172562002640 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1172562002641 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1172562002642 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1172562002643 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1172562002644 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1172562002645 dimer interface [polypeptide binding]; other site 1172562002646 catalytic triad [active] 1172562002647 peroxidatic and resolving cysteines [active] 1172562002648 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1172562002649 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1172562002650 putative active site [active] 1172562002651 PhoH-like protein; Region: PhoH; pfam02562 1172562002652 Sporulation related domain; Region: SPOR; pfam05036 1172562002653 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1172562002654 NlpC/P60 family; Region: NLPC_P60; pfam00877 1172562002655 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1172562002656 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1172562002657 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1172562002658 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1172562002659 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1172562002660 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 1172562002661 dimerization interface [polypeptide binding]; other site 1172562002662 ATP binding site [chemical binding]; other site 1172562002663 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 1172562002664 dimerization interface [polypeptide binding]; other site 1172562002665 ATP binding site [chemical binding]; other site 1172562002666 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 1172562002667 thiamine phosphate binding site [chemical binding]; other site 1172562002668 active site 1172562002669 pyrophosphate binding site [ion binding]; other site 1172562002670 Predicted helicase [General function prediction only]; Region: COG4889 1172562002671 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1172562002672 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1172562002673 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1172562002674 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1172562002675 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 1172562002676 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1172562002677 catalytic residue [active] 1172562002678 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 1172562002679 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 1172562002680 FeS/SAM binding site; other site 1172562002681 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1172562002682 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1172562002683 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1172562002684 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 1172562002685 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 1172562002686 dimerization interface [polypeptide binding]; other site 1172562002687 active site 1172562002688 thiamine monophosphate kinase; Provisional; Region: PRK05731 1172562002689 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 1172562002690 dimerization interface [polypeptide binding]; other site 1172562002691 ATP binding site [chemical binding]; other site 1172562002692 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 1172562002693 active site 1172562002694 dimerization interface [polypeptide binding]; other site 1172562002695 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1172562002696 ligand binding site [chemical binding]; other site 1172562002697 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1172562002698 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 1172562002699 quinolinate synthetase; Provisional; Region: PRK09375 1172562002700 UGMP family protein; Validated; Region: PRK09604 1172562002701 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1172562002702 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1172562002703 DJ-1 family protein; Region: not_thiJ; TIGR01383 1172562002704 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1172562002705 conserved cys residue [active] 1172562002706 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 1172562002707 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1172562002708 active site 1172562002709 DNA binding site [nucleotide binding] 1172562002710 Int/Topo IB signature motif; other site 1172562002711 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; cl00474 1172562002712 active site 1172562002713 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 1172562002714 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1172562002715 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 1172562002716 dimer interface [polypeptide binding]; other site 1172562002717 substrate binding site [chemical binding]; other site 1172562002718 metal binding sites [ion binding]; metal-binding site 1172562002719 acetyl-CoA carboxylase subunit A; Validated; Region: PRK08463 1172562002720 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1172562002721 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1172562002722 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1172562002723 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1172562002724 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 1172562002725 putative substrate binding site [chemical binding]; other site 1172562002726 putative ATP binding site [chemical binding]; other site 1172562002727 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 1172562002728 ThiS interaction site; other site 1172562002729 putative active site [active] 1172562002730 tetramer interface [polypeptide binding]; other site 1172562002731 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 1172562002732 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1172562002733 Acid Phosphatase; Region: Acid_PPase; cl17256 1172562002734 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1172562002735 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 1172562002736 dimer interaction site [polypeptide binding]; other site 1172562002737 substrate-binding tunnel; other site 1172562002738 active site 1172562002739 catalytic site [active] 1172562002740 substrate binding site [chemical binding]; other site 1172562002741 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1172562002742 classical (c) SDRs; Region: SDR_c; cd05233 1172562002743 NAD(P) binding site [chemical binding]; other site 1172562002744 active site 1172562002745 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1172562002746 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1172562002747 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1172562002748 FtsX-like permease family; Region: FtsX; pfam02687 1172562002749 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1172562002750 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1172562002751 Walker A/P-loop; other site 1172562002752 ATP binding site [chemical binding]; other site 1172562002753 Q-loop/lid; other site 1172562002754 ABC transporter signature motif; other site 1172562002755 Walker B; other site 1172562002756 D-loop; other site 1172562002757 H-loop/switch region; other site 1172562002758 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1172562002759 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1172562002760 HlyD family secretion protein; Region: HlyD_3; pfam13437 1172562002761 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1172562002762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 1172562002763 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 1172562002764 LPP20 lipoprotein; Region: LPP20; pfam02169 1172562002765 LPP20 lipoprotein; Region: LPP20; pfam02169 1172562002766 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1172562002767 putative metal binding site [ion binding]; other site 1172562002768 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1172562002769 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1172562002770 active site 1172562002771 Zn binding site [ion binding]; other site 1172562002772 histidyl-tRNA synthetase; Region: hisS; TIGR00442 1172562002773 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 1172562002774 dimer interface [polypeptide binding]; other site 1172562002775 motif 1; other site 1172562002776 active site 1172562002777 motif 2; other site 1172562002778 motif 3; other site 1172562002779 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1172562002780 anticodon binding site; other site 1172562002781 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1172562002782 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 1172562002783 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1172562002784 putative active site [active] 1172562002785 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1172562002786 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1172562002787 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1172562002788 metal binding site [ion binding]; metal-binding site 1172562002789 dimer interface [polypeptide binding]; other site 1172562002790 Domain of unknown function (DUF386); Region: DUF386; cl01047 1172562002791 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1172562002792 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 1172562002793 nucleotide binding pocket [chemical binding]; other site 1172562002794 K-X-D-G motif; other site 1172562002795 catalytic site [active] 1172562002796 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1172562002797 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1172562002798 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 1172562002799 Dimer interface [polypeptide binding]; other site 1172562002800 BRCT sequence motif; other site 1172562002801 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 1172562002802 Response regulator receiver domain; Region: Response_reg; pfam00072 1172562002803 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 1172562002804 active site 1172562002805 phosphorylation site [posttranslational modification] 1172562002806 intermolecular recognition site; other site 1172562002807 dimerization interface [polypeptide binding]; other site 1172562002808 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1172562002809 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 1172562002810 dimer interface [polypeptide binding]; other site 1172562002811 anticodon binding site; other site 1172562002812 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 1172562002813 homodimer interface [polypeptide binding]; other site 1172562002814 motif 1; other site 1172562002815 active site 1172562002816 motif 2; other site 1172562002817 GAD domain; Region: GAD; pfam02938 1172562002818 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 1172562002819 active site 1172562002820 motif 3; other site 1172562002821 adenylate kinase; Reviewed; Region: adk; PRK00279 1172562002822 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 1172562002823 AMP-binding site [chemical binding]; other site 1172562002824 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1172562002825 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 1172562002826 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 1172562002827 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1172562002828 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 1172562002829 DNA binding site [nucleotide binding] 1172562002830 active site 1172562002831 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1172562002832 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 1172562002833 ATP binding site [chemical binding]; other site 1172562002834 Mg++ binding site [ion binding]; other site 1172562002835 motif III; other site 1172562002836 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 1172562002837 nucleotide binding region [chemical binding]; other site 1172562002838 ATP-binding site [chemical binding]; other site 1172562002839 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1172562002840 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1172562002841 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 1172562002842 dihydroorotase; Provisional; Region: PRK08417 1172562002843 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1172562002844 active site 1172562002845 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1172562002846 chlorohydrolase; Provisional; Region: PRK08418 1172562002847 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_D; cd01312 1172562002848 active site 1172562002849 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1172562002850 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1172562002851 active site 1172562002852 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 1172562002853 ArsC family; Region: ArsC; pfam03960 1172562002854 catalytic residue [active] 1172562002855 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 1172562002856 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 1172562002857 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 1172562002858 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1172562002859 NlpC/P60 family; Region: NLPC_P60; cl17555 1172562002860 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 1172562002861 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1172562002862 intersubunit interface [polypeptide binding]; other site 1172562002863 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1172562002864 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1172562002865 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1172562002866 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 1172562002867 ABC-ATPase subunit interface; other site 1172562002868 dimer interface [polypeptide binding]; other site 1172562002869 putative PBP binding regions; other site 1172562002870 hypothetical protein; Reviewed; Region: PRK12497 1172562002871 homoserine dehydrogenase; Provisional; Region: PRK06349 1172562002872 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1172562002873 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1172562002874 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 1172562002875 aspartate aminotransferase; Provisional; Region: PRK08636 1172562002876 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 1172562002877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562002878 homodimer interface [polypeptide binding]; other site 1172562002879 catalytic residue [active] 1172562002880 Protein of unknown function (DUF2861); Region: DUF2861; pfam11060 1172562002881 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1172562002882 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1172562002883 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1172562002884 Predicted methyltransferases [General function prediction only]; Region: COG0313 1172562002885 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1172562002886 putative SAM binding site [chemical binding]; other site 1172562002887 putative homodimer interface [polypeptide binding]; other site 1172562002888 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 1172562002889 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1172562002890 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 1172562002891 FeS/SAM binding site; other site 1172562002892 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1172562002893 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1172562002894 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1172562002895 active site 1172562002896 nucleophile elbow; other site 1172562002897 heat shock protein 90; Provisional; Region: PRK05218 1172562002898 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 1172562002899 ATP binding site [chemical binding]; other site 1172562002900 Mg2+ binding site [ion binding]; other site 1172562002901 G-X-G motif; other site 1172562002902 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1172562002903 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562002904 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1172562002905 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562002906 dimer interface [polypeptide binding]; other site 1172562002907 putative CheW interface [polypeptide binding]; other site 1172562002908 Cache domain; Region: Cache_1; pfam02743 1172562002909 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1172562002910 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1172562002911 active site 1172562002912 thymidylate kinase; Validated; Region: tmk; PRK00698 1172562002913 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 1172562002914 TMP-binding site; other site 1172562002915 ATP-binding site [chemical binding]; other site 1172562002916 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1172562002917 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1172562002918 active site 1172562002919 (T/H)XGH motif; other site 1172562002920 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1172562002921 Flavoprotein; Region: Flavoprotein; pfam02441 1172562002922 SAF-like; Region: SAF_2; pfam13144 1172562002923 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 1172562002924 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1172562002925 Family description; Region: UvrD_C_2; pfam13538 1172562002926 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1172562002927 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1172562002928 active site 1172562002929 RDD family; Region: RDD; pfam06271 1172562002930 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1172562002931 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562002932 Protein of unknown function DUF262; Region: DUF262; pfam03235 1172562002933 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1172562002934 Protein of unknown function DUF262; Region: DUF262; pfam03235 1172562002935 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1172562002936 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1172562002937 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 1172562002938 dimer interface [polypeptide binding]; other site 1172562002939 conserved gate region; other site 1172562002940 putative PBP binding loops; other site 1172562002941 ABC-ATPase subunit interface; other site 1172562002942 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 1172562002943 dimer interface [polypeptide binding]; other site 1172562002944 conserved gate region; other site 1172562002945 putative PBP binding loops; other site 1172562002946 ABC-ATPase subunit interface; other site 1172562002947 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 1172562002948 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 1172562002949 substrate binding pocket [chemical binding]; other site 1172562002950 membrane-bound complex binding site; other site 1172562002951 hinge residues; other site 1172562002952 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1172562002953 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1172562002954 Walker A/P-loop; other site 1172562002955 ATP binding site [chemical binding]; other site 1172562002956 Q-loop/lid; other site 1172562002957 ABC transporter signature motif; other site 1172562002958 Walker B; other site 1172562002959 D-loop; other site 1172562002960 H-loop/switch region; other site 1172562002961 AIPR protein; Region: AIPR; pfam10592 1172562002962 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1172562002963 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 1172562002964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562002965 catalytic residue [active] 1172562002966 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1172562002967 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 1172562002968 substrate binding site [chemical binding]; other site 1172562002969 active site 1172562002970 catalytic residues [active] 1172562002971 heterodimer interface [polypeptide binding]; other site 1172562002972 methionine sulfoxide reductase B; Provisional; Region: PRK05508 1172562002973 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1172562002974 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1172562002975 arsenical pump membrane protein; Provisional; Region: PRK15445 1172562002976 transmembrane helices; other site 1172562002977 Protein of unknown function (DUF996); Region: DUF996; pfam06195 1172562002978 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1172562002979 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1172562002980 AMP/PPi binding site [chemical binding]; other site 1172562002981 candidate oxyanion hole; other site 1172562002982 catalytic triad [active] 1172562002983 potential glutamine specificity residues [chemical binding]; other site 1172562002984 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 1172562002985 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 1172562002986 ATP Binding subdomain [chemical binding]; other site 1172562002987 Ligand Binding sites [chemical binding]; other site 1172562002988 Dimerization subdomain; other site 1172562002989 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1172562002990 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1172562002991 GMP synthase C terminal domain; Region: GMP_synt_C; pfam00958 1172562002992 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1172562002993 R.Pab1 restriction endonuclease; Region: RE_R_Pab1; pfam09522 1172562002994 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1172562002995 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1172562002996 active site 1172562002997 NTP binding site [chemical binding]; other site 1172562002998 metal binding triad [ion binding]; metal-binding site 1172562002999 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1172562003000 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1172562003001 putative oxidoreductase; Provisional; Region: PRK11445 1172562003002 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1172562003003 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1172562003004 active site 1172562003005 NAD binding site [chemical binding]; other site 1172562003006 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1172562003007 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1172562003008 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1172562003009 metal binding site [ion binding]; metal-binding site 1172562003010 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1172562003011 PYR/PP interface [polypeptide binding]; other site 1172562003012 TPP binding site [chemical binding]; other site 1172562003013 dimer interface [polypeptide binding]; other site 1172562003014 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1172562003015 TPP binding site [chemical binding]; other site 1172562003016 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1172562003017 TPP-binding site [chemical binding]; other site 1172562003018 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1172562003019 CoA binding domain; Region: CoA_binding; cl17356 1172562003020 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1172562003021 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1172562003022 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1172562003023 active site 1172562003024 nucleotide binding site [chemical binding]; other site 1172562003025 HIGH motif; other site 1172562003026 KMSKS motif; other site 1172562003027 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1172562003028 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 1172562003029 tetramer interface [polypeptide binding]; other site 1172562003030 active site 1172562003031 Mg2+/Mn2+ binding site [ion binding]; other site 1172562003032 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1172562003033 active site 1172562003034 metal-binding site 1172562003035 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1172562003036 active site 1172562003037 substrate binding site [chemical binding]; other site 1172562003038 cosubstrate binding site; other site 1172562003039 catalytic site [active] 1172562003040 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1172562003041 conserved cys residue [active] 1172562003042 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1172562003043 active site 1172562003044 hypothetical protein; Provisional; Region: PRK05849 1172562003045 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1172562003046 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1172562003047 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1172562003048 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 1172562003049 S-adenosylmethionine binding site [chemical binding]; other site 1172562003050 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 1172562003051 Sulfatase; Region: Sulfatase; cl17466 1172562003052 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1172562003053 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1172562003054 flagellar hook protein FlgE, epsilon proteobacterial; Region: flgE_epsilon; TIGR02489 1172562003055 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1172562003056 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1172562003057 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1172562003058 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1172562003059 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1172562003060 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 1172562003061 RNA binding surface [nucleotide binding]; other site 1172562003062 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1172562003063 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1172562003064 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1172562003065 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1172562003066 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1172562003067 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 1172562003068 CoA-binding site [chemical binding]; other site 1172562003069 ATP-binding [chemical binding]; other site 1172562003070 spermidine synthase; Provisional; Region: speE; PRK00536 1172562003071 spermidine synthase; Provisional; Region: PRK00811 1172562003072 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1172562003073 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 1172562003074 active site 1172562003075 phosphorylation site [posttranslational modification] 1172562003076 intermolecular recognition site; other site 1172562003077 dimerization interface [polypeptide binding]; other site 1172562003078 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 1172562003079 DNA binding site [nucleotide binding] 1172562003080 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 1172562003081 putative active site [active] 1172562003082 putative metal binding site [ion binding]; other site 1172562003083 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 1172562003084 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1172562003085 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1172562003086 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1172562003087 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 1172562003088 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1172562003089 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1172562003090 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 1172562003091 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1172562003092 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 1172562003093 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1172562003094 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 1172562003095 IMP binding site; other site 1172562003096 dimer interface [polypeptide binding]; other site 1172562003097 interdomain contacts; other site 1172562003098 partial ornithine binding site; other site 1172562003099 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1172562003100 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1172562003101 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1172562003102 putative active site [active] 1172562003103 putative substrate binding site [chemical binding]; other site 1172562003104 putative cosubstrate binding site; other site 1172562003105 catalytic site [active] 1172562003106 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1172562003107 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1172562003108 oligomer interface [polypeptide binding]; other site 1172562003109 tandem repeat interface [polypeptide binding]; other site 1172562003110 active site residues [active] 1172562003111 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1172562003112 homotrimer interaction site [polypeptide binding]; other site 1172562003113 putative active site [active] 1172562003114 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1172562003115 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1172562003116 active site 1172562003117 catalytic residues [active] 1172562003118 metal binding site [ion binding]; metal-binding site 1172562003119 homodimer binding site [polypeptide binding]; other site 1172562003120 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 1172562003121 carboxyltransferase (CT) interaction site; other site 1172562003122 biotinylation site [posttranslational modification]; other site 1172562003123 Protein of unknown function (DUF328); Region: DUF328; cl01143 1172562003124 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1172562003125 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1172562003126 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1172562003127 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1172562003128 catalytic residue [active] 1172562003129 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1172562003130 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 1172562003131 active site 1172562003132 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 1172562003133 protein binding site [polypeptide binding]; other site 1172562003134 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 1172562003135 putative substrate binding region [chemical binding]; other site 1172562003136 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1172562003137 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1172562003138 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1172562003139 oligomer interface [polypeptide binding]; other site 1172562003140 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1172562003141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1172562003142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1172562003143 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1172562003144 heme binding pocket [chemical binding]; other site 1172562003145 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1172562003146 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 1172562003147 generic binding surface I; other site 1172562003148 generic binding surface II; other site 1172562003149 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 1172562003150 Fumarase C-terminus; Region: Fumerase_C; cl00795 1172562003151 fumarate hydratase; Provisional; Region: PRK06246 1172562003152 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 1172562003153 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1172562003154 minor groove reading motif; other site 1172562003155 helix-hairpin-helix signature motif; other site 1172562003156 active site 1172562003157 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1172562003158 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1172562003159 Walker A/P-loop; other site 1172562003160 ATP binding site [chemical binding]; other site 1172562003161 Q-loop/lid; other site 1172562003162 ABC transporter signature motif; other site 1172562003163 Walker B; other site 1172562003164 D-loop; other site 1172562003165 H-loop/switch region; other site 1172562003166 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1172562003167 Walker A/P-loop; other site 1172562003168 ATP binding site [chemical binding]; other site 1172562003169 Q-loop/lid; other site 1172562003170 ABC transporter signature motif; other site 1172562003171 Walker B; other site 1172562003172 D-loop; other site 1172562003173 H-loop/switch region; other site 1172562003174 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1172562003175 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 1172562003176 putative PBP binding loops; other site 1172562003177 dimer interface [polypeptide binding]; other site 1172562003178 ABC-ATPase subunit interface; other site 1172562003179 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1172562003180 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 1172562003181 dimer interface [polypeptide binding]; other site 1172562003182 conserved gate region; other site 1172562003183 putative PBP binding loops; other site 1172562003184 ABC-ATPase subunit interface; other site 1172562003185 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1172562003186 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1172562003187 Carbon starvation protein CstA; Region: CstA; pfam02554 1172562003188 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1172562003189 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1172562003190 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1172562003191 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 1172562003192 active site 1172562003193 ribulose/triose binding site [chemical binding]; other site 1172562003194 phosphate binding site [ion binding]; other site 1172562003195 substrate (anthranilate) binding pocket [chemical binding]; other site 1172562003196 product (indole) binding pocket [chemical binding]; other site 1172562003197 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 1172562003198 active site 1172562003199 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1172562003200 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1172562003201 putative active site [active] 1172562003202 putative metal binding site [ion binding]; other site 1172562003203 Hemerythrin; Region: Hemerythrin; cd12107 1172562003204 Fe binding site [ion binding]; other site 1172562003205 Hemerythrin; Region: Hemerythrin; cd12107 1172562003206 Fe binding site [ion binding]; other site 1172562003207 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1172562003208 RNA/DNA hybrid binding site [nucleotide binding]; other site 1172562003209 active site 1172562003210 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 1172562003211 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1172562003212 substrate binding pocket [chemical binding]; other site 1172562003213 membrane-bound complex binding site; other site 1172562003214 hinge residues; other site 1172562003215 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 1172562003216 dimer interface [polypeptide binding]; other site 1172562003217 conserved gate region; other site 1172562003218 putative PBP binding loops; other site 1172562003219 ABC-ATPase subunit interface; other site 1172562003220 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1172562003221 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1172562003222 Walker A/P-loop; other site 1172562003223 ATP binding site [chemical binding]; other site 1172562003224 Q-loop/lid; other site 1172562003225 ABC transporter signature motif; other site 1172562003226 Walker B; other site 1172562003227 D-loop; other site 1172562003228 H-loop/switch region; other site 1172562003229 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 1172562003230 trimer interface [polypeptide binding]; other site 1172562003231 active site 1172562003232 substrate binding site [chemical binding]; other site 1172562003233 CoA binding site [chemical binding]; other site 1172562003234 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 1172562003235 GTP1/OBG; Region: GTP1_OBG; pfam01018 1172562003236 Obg GTPase; Region: Obg; cd01898 1172562003237 G1 box; other site 1172562003238 GTP/Mg2+ binding site [chemical binding]; other site 1172562003239 Switch I region; other site 1172562003240 G2 box; other site 1172562003241 G3 box; other site 1172562003242 Switch II region; other site 1172562003243 G4 box; other site 1172562003244 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1172562003245 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 1172562003246 active site 1172562003247 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 1172562003248 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1172562003249 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1172562003250 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1172562003251 Peptidase family M23; Region: Peptidase_M23; pfam01551 1172562003252 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1172562003253 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 1172562003254 NAD binding site [chemical binding]; other site 1172562003255 substrate binding site [chemical binding]; other site 1172562003256 active site 1172562003257 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1172562003258 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 1172562003259 FeS/SAM binding site; other site 1172562003260 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1172562003261 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 1172562003262 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 1172562003263 inhibitor-cofactor binding pocket; inhibition site 1172562003264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562003265 catalytic residue [active] 1172562003266 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 1172562003267 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1172562003268 putative trimer interface [polypeptide binding]; other site 1172562003269 putative CoA binding site [chemical binding]; other site 1172562003270 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1172562003271 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1172562003272 trimer interface [polypeptide binding]; other site 1172562003273 active site 1172562003274 substrate binding site [chemical binding]; other site 1172562003275 CoA binding site [chemical binding]; other site 1172562003276 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 1172562003277 active site 1172562003278 cosubstrate binding site; other site 1172562003279 substrate binding site [chemical binding]; other site 1172562003280 catalytic site [active] 1172562003281 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 1172562003282 active site 1172562003283 substrate binding site [chemical binding]; other site 1172562003284 cosubstrate binding site; other site 1172562003285 catalytic site [active] 1172562003286 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 1172562003287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1172562003288 NAD(P) binding site [chemical binding]; other site 1172562003289 classical (c) SDRs; Region: SDR_c; cd05233 1172562003290 active site 1172562003291 AMP-binding enzyme; Region: AMP-binding; pfam00501 1172562003292 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003293 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003294 acyl-activating enzyme (AAE) consensus motif; other site 1172562003295 acyl-activating enzyme (AAE) consensus motif; other site 1172562003296 active site 1172562003297 AMP binding site [chemical binding]; other site 1172562003298 CoA binding site [chemical binding]; other site 1172562003299 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003300 AMP-binding enzyme; Region: AMP-binding; pfam00501 1172562003301 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003302 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003303 acyl-activating enzyme (AAE) consensus motif; other site 1172562003304 acyl-activating enzyme (AAE) consensus motif; other site 1172562003305 active site 1172562003306 AMP binding site [chemical binding]; other site 1172562003307 CoA binding site [chemical binding]; other site 1172562003308 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003309 CoA binding site [chemical binding]; other site 1172562003310 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1172562003311 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1172562003312 trimer interface [polypeptide binding]; other site 1172562003313 active site 1172562003314 substrate binding site [chemical binding]; other site 1172562003315 CoA binding site [chemical binding]; other site 1172562003316 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 1172562003317 active site 1172562003318 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 1172562003319 active site 1172562003320 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1172562003321 classical (c) SDRs; Region: SDR_c; cd05233 1172562003322 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 1172562003323 NAD(P) binding site [chemical binding]; other site 1172562003324 active site 1172562003325 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 1172562003326 putative trimer interface [polypeptide binding]; other site 1172562003327 putative CoA binding site [chemical binding]; other site 1172562003328 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 1172562003329 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 1172562003330 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1172562003331 NeuB family; Region: NeuB; pfam03102 1172562003332 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1172562003333 NeuB binding interface [polypeptide binding]; other site 1172562003334 putative substrate binding site [chemical binding]; other site 1172562003335 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 1172562003336 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1172562003337 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 1172562003338 active site 1172562003339 homodimer interface [polypeptide binding]; other site 1172562003340 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 1172562003341 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_4; cd08651 1172562003342 putative active site [active] 1172562003343 putative substrate binding site [chemical binding]; other site 1172562003344 putative cosubstrate binding site; other site 1172562003345 catalytic site [active] 1172562003346 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1172562003347 active site 1172562003348 hexamer interface [polypeptide binding]; other site 1172562003349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1172562003350 NAD(P) binding site [chemical binding]; other site 1172562003351 classical (c) SDRs; Region: SDR_c; cd05233 1172562003352 active site 1172562003353 AMP-binding enzyme; Region: AMP-binding; pfam00501 1172562003354 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003355 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003356 acyl-activating enzyme (AAE) consensus motif; other site 1172562003357 acyl-activating enzyme (AAE) consensus motif; other site 1172562003358 active site 1172562003359 AMP binding site [chemical binding]; other site 1172562003360 CoA binding site [chemical binding]; other site 1172562003361 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003362 AMP-binding enzyme; Region: AMP-binding; pfam00501 1172562003363 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003364 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003365 acyl-activating enzyme (AAE) consensus motif; other site 1172562003366 acyl-activating enzyme (AAE) consensus motif; other site 1172562003367 active site 1172562003368 AMP binding site [chemical binding]; other site 1172562003369 CoA binding site [chemical binding]; other site 1172562003370 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1172562003371 CoA binding site [chemical binding]; other site 1172562003372 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1172562003373 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 1172562003374 active site 1172562003375 homodimer interface [polypeptide binding]; other site 1172562003376 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1172562003377 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 1172562003378 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1172562003379 active site 1172562003380 homodimer interface [polypeptide binding]; other site 1172562003381 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1172562003382 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 1172562003383 ligand binding site [chemical binding]; other site 1172562003384 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 1172562003385 non-specific DNA interactions [nucleotide binding]; other site 1172562003386 DNA binding site [nucleotide binding] 1172562003387 sequence specific DNA binding site [nucleotide binding]; other site 1172562003388 putative cAMP binding site [chemical binding]; other site 1172562003389 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1172562003390 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1172562003391 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1172562003392 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1172562003393 hypothetical protein; Provisional; Region: PRK04081 1172562003394 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1172562003395 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1172562003396 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1172562003397 Sulfatase; Region: Sulfatase; pfam00884 1172562003398 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 1172562003399 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1172562003400 catalytic residues [active] 1172562003401 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 1172562003402 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1172562003403 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1172562003404 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1172562003405 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 1172562003406 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 1172562003407 putative substrate-binding site; other site 1172562003408 nickel binding site [ion binding]; other site 1172562003409 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1172562003410 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1172562003411 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 1172562003412 homodimer interface [polypeptide binding]; other site 1172562003413 substrate-cofactor binding pocket; other site 1172562003414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562003415 catalytic residue [active] 1172562003416 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562003417 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1172562003418 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1172562003419 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1172562003420 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562003421 DpnII restriction endonuclease; Region: DpnII; pfam04556 1172562003422 DpnII restriction endonuclease; Region: DpnII; pfam04556 1172562003423 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1172562003424 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 1172562003425 dimer interface [polypeptide binding]; other site 1172562003426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562003427 catalytic residue [active] 1172562003428 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1172562003429 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 1172562003430 cofactor binding site; other site 1172562003431 DNA binding site [nucleotide binding] 1172562003432 substrate interaction site [chemical binding]; other site 1172562003433 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1172562003434 HNH endonuclease; Region: HNH_3; pfam13392 1172562003435 DinB family; Region: DinB; cl17821 1172562003436 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1172562003437 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562003438 dimer interface [polypeptide binding]; other site 1172562003439 putative CheW interface [polypeptide binding]; other site 1172562003440 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 1172562003441 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1172562003442 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 1172562003443 inhibitor-cofactor binding pocket; inhibition site 1172562003444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562003445 catalytic residue [active] 1172562003446 WxcM-like, C-terminal; Region: FdtA; pfam05523 1172562003447 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 1172562003448 putative trimer interface [polypeptide binding]; other site 1172562003449 putative CoA binding site [chemical binding]; other site 1172562003450 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1172562003451 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1172562003452 NAD binding site [chemical binding]; other site 1172562003453 substrate binding site [chemical binding]; other site 1172562003454 homodimer interface [polypeptide binding]; other site 1172562003455 active site 1172562003456 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1172562003457 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1172562003458 substrate binding site; other site 1172562003459 tetramer interface; other site 1172562003460 GTP-binding protein LepA; Provisional; Region: PRK05433 1172562003461 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1172562003462 G1 box; other site 1172562003463 putative GEF interaction site [polypeptide binding]; other site 1172562003464 GTP/Mg2+ binding site [chemical binding]; other site 1172562003465 Switch I region; other site 1172562003466 G2 box; other site 1172562003467 G3 box; other site 1172562003468 Switch II region; other site 1172562003469 G4 box; other site 1172562003470 G5 box; other site 1172562003471 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 1172562003472 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 1172562003473 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1172562003474 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 1172562003475 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1172562003476 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 1172562003477 S-adenosylmethionine binding site [chemical binding]; other site 1172562003478 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_III; cd01996 1172562003479 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1172562003480 Ligand Binding Site [chemical binding]; other site 1172562003481 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; cl12060 1172562003482 AP (apurinic/apyrimidinic) site pocket; other site 1172562003483 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1172562003484 DNA interaction; other site 1172562003485 Metal-binding active site; metal-binding site 1172562003486 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1172562003487 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 1172562003488 S-adenosylmethionine binding site [chemical binding]; other site 1172562003489 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1172562003490 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1172562003491 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 1172562003492 inhibitor-cofactor binding pocket; inhibition site 1172562003493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562003494 catalytic residue [active] 1172562003495 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 1172562003496 FOG: CBS domain [General function prediction only]; Region: COG0517 1172562003497 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 1172562003498 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 1172562003499 Substrate binding site; other site 1172562003500 metal-binding site 1172562003501 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 1172562003502 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1172562003503 ligand binding site; other site 1172562003504 tetramer interface; other site 1172562003505 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1172562003506 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1172562003507 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1172562003508 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1172562003509 ligand binding site; other site 1172562003510 tetramer interface; other site 1172562003511 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1172562003512 ligand binding site; other site 1172562003513 tetramer interface; other site 1172562003514 classical (c) SDRs; Region: SDR_c; cd05233 1172562003515 NAD(P) binding site [chemical binding]; other site 1172562003516 active site 1172562003517 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1172562003518 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1172562003519 NAD(P) binding site [chemical binding]; other site 1172562003520 active site 1172562003521 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1172562003522 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1172562003523 ligand binding site; other site 1172562003524 tetramer interface; other site 1172562003525 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1172562003526 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1172562003527 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1172562003528 ligand binding site; other site 1172562003529 tetramer interface; other site 1172562003530 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1172562003531 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 1172562003532 S-adenosylmethionine binding site [chemical binding]; other site 1172562003533 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 1172562003534 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 1172562003535 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1172562003536 catalytic residue [active] 1172562003537 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 1172562003538 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1172562003539 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 1172562003540 S-adenosylmethionine binding site [chemical binding]; other site 1172562003541 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 1172562003542 putative trimer interface [polypeptide binding]; other site 1172562003543 putative CoA binding site [chemical binding]; other site 1172562003544 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 1172562003545 Ligand Binding Site [chemical binding]; other site 1172562003546 cell division protein FtsW; Region: ftsW; TIGR02614 1172562003547 Short repeat of unknown function (DUF308); Region: DUF308; pfam03729 1172562003548 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 1172562003549 active site 1172562003550 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 1172562003551 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1172562003552 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 1172562003553 intersubunit interface [polypeptide binding]; other site 1172562003554 active site 1172562003555 zinc binding site [ion binding]; other site 1172562003556 Na+ binding site [ion binding]; other site 1172562003557 elongation factor P; Validated; Region: PRK00529 1172562003558 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1172562003559 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 1172562003560 RNA binding site [nucleotide binding]; other site 1172562003561 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 1172562003562 RNA binding site [nucleotide binding]; other site 1172562003563 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 1172562003564 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 1172562003565 putative catalytic site [active] 1172562003566 CdtC interface [polypeptide binding]; other site 1172562003567 heterotrimer interface [polypeptide binding]; other site 1172562003568 CdtA interface [polypeptide binding]; other site 1172562003569 putative metal binding site [ion binding]; other site 1172562003570 putative phosphate binding site [ion binding]; other site 1172562003571 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 1172562003572 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1172562003573 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1172562003574 Clp amino terminal domain; Region: Clp_N; pfam02861 1172562003575 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 1172562003576 Walker A motif; other site 1172562003577 ATP binding site [chemical binding]; other site 1172562003578 Walker B motif; other site 1172562003579 arginine finger; other site 1172562003580 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 1172562003581 Walker A motif; other site 1172562003582 ATP binding site [chemical binding]; other site 1172562003583 Walker B motif; other site 1172562003584 arginine finger; other site 1172562003585 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1172562003586 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1172562003587 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1172562003588 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 1172562003589 Walker B motif; other site 1172562003590 arginine finger; other site 1172562003591 GTP-binding protein YchF; Reviewed; Region: PRK09601 1172562003592 YchF GTPase; Region: YchF; cd01900 1172562003593 G1 box; other site 1172562003594 GTP/Mg2+ binding site [chemical binding]; other site 1172562003595 Switch I region; other site 1172562003596 G2 box; other site 1172562003597 Switch II region; other site 1172562003598 G3 box; other site 1172562003599 G4 box; other site 1172562003600 G5 box; other site 1172562003601 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 1172562003602 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1172562003603 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 1172562003604 interface (dimer of trimers) [polypeptide binding]; other site 1172562003605 Substrate-binding/catalytic site; other site 1172562003606 Zn-binding sites [ion binding]; other site 1172562003607 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1172562003608 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1172562003609 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1172562003610 active site 1172562003611 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1172562003612 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1172562003613 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 1172562003614 Catalytic site [active] 1172562003615 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 1172562003616 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 1172562003617 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1172562003618 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1172562003619 homodimer interface [polypeptide binding]; other site 1172562003620 NADP binding site [chemical binding]; other site 1172562003621 substrate binding site [chemical binding]; other site 1172562003622 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1172562003623 flagellin A; Reviewed; Region: PRK12584 1172562003624 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1172562003625 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1172562003626 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1172562003627 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 1172562003628 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1172562003629 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1172562003630 Protein export membrane protein; Region: SecD_SecF; cl14618 1172562003631 protein-export membrane protein SecD; Region: secD; TIGR01129 1172562003632 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1172562003633 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1172562003634 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 1172562003635 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1172562003636 putative recombination protein RecB; Provisional; Region: PRK13909 1172562003637 Family description; Region: UvrD_C_2; pfam13538 1172562003638 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1172562003639 chaperone protein DnaJ; Provisional; Region: PRK14299 1172562003640 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 1172562003641 HSP70 interaction site [polypeptide binding]; other site 1172562003642 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1172562003643 substrate binding site [polypeptide binding]; other site 1172562003644 dimer interface [polypeptide binding]; other site 1172562003645 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 1172562003646 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1172562003647 DNA binding residues [nucleotide binding] 1172562003648 putative dimer interface [polypeptide binding]; other site 1172562003649 recombination factor protein RarA; Reviewed; Region: PRK13342 1172562003650 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 1172562003651 Walker A motif; other site 1172562003652 ATP binding site [chemical binding]; other site 1172562003653 Walker B motif; other site 1172562003654 arginine finger; other site 1172562003655 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1172562003656 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1172562003657 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1172562003658 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 1172562003659 active site 1172562003660 phosphorylation site [posttranslational modification] 1172562003661 intermolecular recognition site; other site 1172562003662 dimerization interface [polypeptide binding]; other site 1172562003663 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 1172562003664 Walker A motif; other site 1172562003665 ATP binding site [chemical binding]; other site 1172562003666 Walker B motif; other site 1172562003667 arginine finger; other site 1172562003668 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1172562003669 DNA gyrase subunit A; Validated; Region: PRK05560 1172562003670 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 1172562003671 CAP-like domain; other site 1172562003672 active site 1172562003673 primary dimer interface [polypeptide binding]; other site 1172562003674 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1172562003675 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1172562003676 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1172562003677 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1172562003678 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1172562003679 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1172562003680 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1172562003681 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 1172562003682 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1172562003683 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 1172562003684 nucleotide binding site/active site [active] 1172562003685 HIT family signature motif; other site 1172562003686 catalytic residue [active] 1172562003687 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1172562003688 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1172562003689 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1172562003690 Acylphosphatase; Region: Acylphosphatase; pfam00708 1172562003691 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1172562003692 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1172562003693 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1172562003694 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1172562003695 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1172562003696 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1172562003697 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1172562003698 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1172562003699 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1172562003700 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1172562003701 ligand binding site [chemical binding]; other site 1172562003702 NAD binding site [chemical binding]; other site 1172562003703 dimerization interface [polypeptide binding]; other site 1172562003704 catalytic site [active] 1172562003705 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1172562003706 putative L-serine binding site [chemical binding]; other site 1172562003707 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1172562003708 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 1172562003709 RNA binding site [nucleotide binding]; other site 1172562003710 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 1172562003711 RNA binding site [nucleotide binding]; other site 1172562003712 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1172562003713 RNA binding site [nucleotide binding]; other site 1172562003714 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 1172562003715 RNA binding site [nucleotide binding]; other site 1172562003716 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 1172562003717 RNA binding site [nucleotide binding]; other site 1172562003718 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 1172562003719 RNA binding site [nucleotide binding]; other site 1172562003720 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1172562003721 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1172562003722 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 1172562003723 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1172562003724 hinge; other site 1172562003725 active site 1172562003726 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1172562003727 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1172562003728 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1172562003729 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1172562003730 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; cl00080 1172562003731 dimer interface [polypeptide binding]; other site 1172562003732 phosphorylation site [posttranslational modification] 1172562003733 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 1172562003734 ATP binding site [chemical binding]; other site 1172562003735 Mg2+ binding site [ion binding]; other site 1172562003736 G-X-G motif; other site 1172562003737 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1172562003738 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1172562003739 NADH dehydrogenase subunit A; Validated; Region: PRK08489 1172562003740 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1172562003741 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1172562003742 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1172562003743 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1172562003744 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1172562003745 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1172562003746 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1172562003747 hypothetical protein; Provisional; Region: PRK10236 1172562003748 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1172562003749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1172562003750 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1172562003751 GTP/Mg2+ binding site [chemical binding]; other site 1172562003752 G2 box; other site 1172562003753 Switch I region; other site 1172562003754 G3 box; other site 1172562003755 Switch II region; other site 1172562003756 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1172562003757 GTP/Mg2+ binding site [chemical binding]; other site 1172562003758 G4 box; other site 1172562003759 G4 box; other site 1172562003760 G5 box; other site 1172562003761 G1 box; other site 1172562003762 Predicted transcriptional regulator [Transcription]; Region: COG2378 1172562003763 HTH domain; Region: HTH_11; cl17392 1172562003764 WYL domain; Region: WYL; pfam13280 1172562003765 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1172562003766 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1172562003767 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 1172562003768 ATP binding site [chemical binding]; other site 1172562003769 putative Mg++ binding site [ion binding]; other site 1172562003770 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 1172562003771 nucleotide binding region [chemical binding]; other site 1172562003772 ATP-binding site [chemical binding]; other site 1172562003773 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1172562003774 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1172562003775 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1172562003776 Peptidase family M23; Region: Peptidase_M23; pfam01551 1172562003777 Peptidase family M23; Region: Peptidase_M23; pfam01551 1172562003778 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1172562003779 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1172562003780 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1172562003781 Lipopolysaccharide-assembly; Region: LptE; pfam04390 1172562003782 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1172562003783 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1172562003784 HIGH motif; other site 1172562003785 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1172562003786 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1172562003787 active site 1172562003788 KMSKS motif; other site 1172562003789 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1172562003790 tRNA binding surface [nucleotide binding]; other site 1172562003791 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1172562003792 ParB-like nuclease domain; Region: ParB; smart00470 1172562003793 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; cl11266 1172562003794 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1172562003795 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1172562003796 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 1172562003797 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 1172562003798 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 1172562003799 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1172562003800 active site 1172562003801 DNA binding site [nucleotide binding] 1172562003802 Int/Topo IB signature motif; other site 1172562003803 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1172562003804 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 1172562003805 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 1172562003806 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 1172562003807 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 1172562003808 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 1172562003809 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 1172562003810 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 1172562003811 AAA-like domain; Region: AAA_10; pfam12846 1172562003812 Walker A motif; other site 1172562003813 ATP binding site [chemical binding]; other site 1172562003814 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1172562003815 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1172562003816 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1172562003817 active site 1172562003818 metal binding site [ion binding]; metal-binding site 1172562003819 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 1172562003820 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1172562003821 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562003822 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562003823 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1172562003824 GIY-YIG motif/motif A; other site 1172562003825 active site 1172562003826 catalytic site [active] 1172562003827 metal binding site [ion binding]; metal-binding site 1172562003828 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1172562003829 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1172562003830 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1172562003831 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1172562003832 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1172562003833 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1172562003834 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1172562003835 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 1172562003836 active site 1172562003837 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1172562003838 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1172562003839 catalytic residue [active] 1172562003840 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 1172562003841 TIGR02594 family protein; Region: TIGR02594 1172562003842 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 1172562003843 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1172562003844 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1172562003845 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1172562003846 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1172562003847 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1172562003848 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562003849 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1172562003850 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1172562003851 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 1172562003852 nucleophilic elbow; other site 1172562003853 catalytic triad; other site 1172562003854 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1172562003855 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1172562003856 nucleophilic elbow; other site 1172562003857 catalytic triad; other site 1172562003858 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1172562003859 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1172562003860 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1172562003861 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 1172562003862 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1172562003863 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1172562003864 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1172562003865 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1172562003866 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 1172562003867 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1172562003868 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1172562003869 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1172562003870 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1172562003871 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1172562003872 active site 1172562003873 metal binding site [ion binding]; metal-binding site 1172562003874 Fic/DOC family; Region: Fic; pfam02661 1172562003875 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1172562003876 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1172562003877 Fic family protein [Function unknown]; Region: COG3177 1172562003878 Fic/DOC family; Region: Fic; pfam02661 1172562003879 PemK-like protein; Region: PemK; pfam02452 1172562003880 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1172562003881 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1172562003882 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1172562003883 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1172562003884 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 1172562003885 ATP binding site [chemical binding]; other site 1172562003886 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 1172562003887 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1172562003888 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1172562003889 SEA domain; Region: SEA; cl02507 1172562003890 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 1172562003891 active site 1172562003892 metal binding site [ion binding]; metal-binding site 1172562003893 CHC2 zinc finger; Region: zf-CHC2; cl17510 1172562003894 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1172562003895 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1172562003896 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1172562003897 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1172562003898 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1172562003899 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 1172562003900 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1172562003901 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1172562003902 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1172562003903 FHIPEP family; Region: FHIPEP; pfam00771 1172562003904 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 1172562003905 DHH family; Region: DHH; pfam01368 1172562003906 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1172562003907 active site 1172562003908 substrate binding site [chemical binding]; other site 1172562003909 cosubstrate binding site; other site 1172562003910 catalytic site [active] 1172562003911 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1172562003912 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1172562003913 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1172562003914 Na2 binding site [ion binding]; other site 1172562003915 putative substrate binding site 1 [chemical binding]; other site 1172562003916 Na binding site 1 [ion binding]; other site 1172562003917 putative substrate binding site 2 [chemical binding]; other site 1172562003918 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1172562003919 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 1172562003920 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1172562003921 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1172562003922 Walker A/P-loop; other site 1172562003923 ATP binding site [chemical binding]; other site 1172562003924 Q-loop/lid; other site 1172562003925 ABC transporter signature motif; other site 1172562003926 Walker B; other site 1172562003927 D-loop; other site 1172562003928 H-loop/switch region; other site 1172562003929 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1172562003930 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 1172562003931 Walker A motif; other site 1172562003932 ATP binding site [chemical binding]; other site 1172562003933 Walker B motif; other site 1172562003934 arginine finger; other site 1172562003935 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1172562003936 AAA domain; Region: AAA_14; pfam13173 1172562003937 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1172562003938 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1172562003939 purine monophosphate binding site [chemical binding]; other site 1172562003940 dimer interface [polypeptide binding]; other site 1172562003941 putative catalytic residues [active] 1172562003942 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1172562003943 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1172562003944 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1172562003945 active site 1172562003946 catalytic site [active] 1172562003947 substrate binding site [chemical binding]; other site 1172562003948 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1172562003949 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1172562003950 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1172562003951 putative active site [active] 1172562003952 oxyanion strand; other site 1172562003953 catalytic triad [active] 1172562003954 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1172562003955 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1172562003956 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1172562003957 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1172562003958 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1172562003959 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1172562003960 amidophosphoribosyltransferase; Provisional; Region: PRK08525 1172562003961 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 1172562003962 active site 1172562003963 tetramer interface [polypeptide binding]; other site 1172562003964 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1172562003965 active site 1172562003966 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1172562003967 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 1172562003968 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 1172562003969 dimer interface [polypeptide binding]; other site 1172562003970 active site 1172562003971 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 1172562003972 dimer interface [polypeptide binding]; other site 1172562003973 active site 1172562003974 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1172562003975 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1172562003976 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1172562003977 polyphosphate kinase; Provisional; Region: PRK05443 1172562003978 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1172562003979 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1172562003980 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1172562003981 putative domain interface [polypeptide binding]; other site 1172562003982 putative active site [active] 1172562003983 catalytic site [active] 1172562003984 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1172562003985 putative domain interface [polypeptide binding]; other site 1172562003986 putative active site [active] 1172562003987 catalytic site [active] 1172562003988 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 1172562003989 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1172562003990 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 1172562003991 23S rRNA interface [nucleotide binding]; other site 1172562003992 L3 interface [polypeptide binding]; other site 1172562003993 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1172562003994 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1172562003995 flagellar motor protein MotA; Validated; Region: PRK08456 1172562003996 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1172562003997 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 1172562003998 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1172562003999 ligand binding site [chemical binding]; other site 1172562004000 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1172562004001 Cytochrome c; Region: Cytochrom_C; cl11414 1172562004002 elongation factor G; Reviewed; Region: PRK00007 1172562004003 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1172562004004 G1 box; other site 1172562004005 putative GEF interaction site [polypeptide binding]; other site 1172562004006 GTP/Mg2+ binding site [chemical binding]; other site 1172562004007 Switch I region; other site 1172562004008 G2 box; other site 1172562004009 G3 box; other site 1172562004010 Switch II region; other site 1172562004011 G4 box; other site 1172562004012 G5 box; other site 1172562004013 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1172562004014 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 1172562004015 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 1172562004016 30S ribosomal protein S7; Validated; Region: PRK05302 1172562004017 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1172562004018 S17 interaction site [polypeptide binding]; other site 1172562004019 S8 interaction site; other site 1172562004020 16S rRNA interaction site [nucleotide binding]; other site 1172562004021 streptomycin interaction site [chemical binding]; other site 1172562004022 23S rRNA interaction site [nucleotide binding]; other site 1172562004023 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1172562004024 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 1172562004025 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 1172562004026 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1172562004027 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 1172562004028 RPB11 interaction site [polypeptide binding]; other site 1172562004029 RPB12 interaction site [polypeptide binding]; other site 1172562004030 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 1172562004031 RPB3 interaction site [polypeptide binding]; other site 1172562004032 RPB1 interaction site [polypeptide binding]; other site 1172562004033 RPB11 interaction site [polypeptide binding]; other site 1172562004034 RPB10 interaction site [polypeptide binding]; other site 1172562004035 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1172562004036 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1172562004037 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1172562004038 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1172562004039 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1172562004040 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1172562004041 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1172562004042 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1172562004043 DNA binding site [nucleotide binding] 1172562004044 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1172562004045 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 1172562004046 core dimer interface [polypeptide binding]; other site 1172562004047 peripheral dimer interface [polypeptide binding]; other site 1172562004048 L10 interface [polypeptide binding]; other site 1172562004049 L11 interface [polypeptide binding]; other site 1172562004050 putative EF-Tu interaction site [polypeptide binding]; other site 1172562004051 putative EF-G interaction site [polypeptide binding]; other site 1172562004052 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 1172562004053 23S rRNA interface [nucleotide binding]; other site 1172562004054 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1172562004055 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 1172562004056 mRNA/rRNA interface [nucleotide binding]; other site 1172562004057 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1172562004058 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 1172562004059 23S rRNA interface [nucleotide binding]; other site 1172562004060 L7/L12 interface [polypeptide binding]; other site 1172562004061 putative thiostrepton binding site; other site 1172562004062 L25 interface [polypeptide binding]; other site 1172562004063 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1172562004064 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1172562004065 putative homodimer interface [polypeptide binding]; other site 1172562004066 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1172562004067 heterodimer interface [polypeptide binding]; other site 1172562004068 homodimer interface [polypeptide binding]; other site 1172562004069 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1172562004070 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1172562004071 elongation factor Tu; Reviewed; Region: PRK00049 1172562004072 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1172562004073 G1 box; other site 1172562004074 GEF interaction site [polypeptide binding]; other site 1172562004075 GTP/Mg2+ binding site [chemical binding]; other site 1172562004076 Switch I region; other site 1172562004077 G2 box; other site 1172562004078 G3 box; other site 1172562004079 Switch II region; other site 1172562004080 G4 box; other site 1172562004081 G5 box; other site 1172562004082 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 1172562004083 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 1172562004084 Antibiotic Binding Site [chemical binding]; other site 1172562004085 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 1172562004086 hypothetical protein; Provisional; Region: PRK05839 1172562004087 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 1172562004088 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562004089 homodimer interface [polypeptide binding]; other site 1172562004090 catalytic residue [active] 1172562004091 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1172562004092 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1172562004093 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1172562004094 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1172562004095 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1172562004096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562004097 Walker A/P-loop; other site 1172562004098 ATP binding site [chemical binding]; other site 1172562004099 Q-loop/lid; other site 1172562004100 ABC transporter signature motif; other site 1172562004101 Walker B; other site 1172562004102 D-loop; other site 1172562004103 H-loop/switch region; other site 1172562004104 Smr domain; Region: Smr; pfam01713 1172562004105 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1172562004106 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562004107 dimer interface [polypeptide binding]; other site 1172562004108 putative CheW interface [polypeptide binding]; other site 1172562004109 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1172562004110 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 1172562004111 inhibitor-cofactor binding pocket; inhibition site 1172562004112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562004113 catalytic residue [active] 1172562004114 biotin carboxylase; Validated; Region: PRK08462 1172562004115 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1172562004116 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1172562004117 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1172562004118 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1172562004119 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 1172562004120 carboxyltransferase (CT) interaction site; other site 1172562004121 biotinylation site [posttranslational modification]; other site 1172562004122 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1172562004123 trimer interface [polypeptide binding]; other site 1172562004124 active site 1172562004125 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 1172562004126 active site 1172562004127 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1172562004128 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1172562004129 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 1172562004130 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1172562004131 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1172562004132 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 1172562004133 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 1172562004134 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 1172562004135 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1172562004136 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1172562004137 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1172562004138 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1172562004139 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1172562004140 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1172562004141 PLD-like domain; Region: PLDc_2; pfam13091 1172562004142 putative active site [active] 1172562004143 catalytic site [active] 1172562004144 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1172562004145 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 1172562004146 ATP binding site [chemical binding]; other site 1172562004147 putative Mg++ binding site [ion binding]; other site 1172562004148 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 1172562004149 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1172562004150 nucleotide binding region [chemical binding]; other site 1172562004151 ATP-binding site [chemical binding]; other site 1172562004152 Fic/DOC family; Region: Fic; pfam02661 1172562004153 Sel1 repeat; Region: Sel1; cl02723 1172562004154 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1172562004155 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1172562004156 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1172562004157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1172562004158 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 1172562004159 NAD(P) binding site [chemical binding]; other site 1172562004160 active site 1172562004161 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1172562004162 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1172562004163 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 1172562004164 dimer interface [polypeptide binding]; other site 1172562004165 Citrate synthase; Region: Citrate_synt; pfam00285 1172562004166 active site 1172562004167 citrylCoA binding site [chemical binding]; other site 1172562004168 oxalacetate/citrate binding site [chemical binding]; other site 1172562004169 coenzyme A binding site [chemical binding]; other site 1172562004170 catalytic triad [active] 1172562004171 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1172562004172 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 1172562004173 tetramer interface [polypeptide binding]; other site 1172562004174 active site 1172562004175 Mg2+/Mn2+ binding site [ion binding]; other site 1172562004176 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1172562004177 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1172562004178 acyl-activating enzyme (AAE) consensus motif; other site 1172562004179 putative AMP binding site [chemical binding]; other site 1172562004180 putative active site [active] 1172562004181 putative CoA binding site [chemical binding]; other site 1172562004182 Pirin-related protein [General function prediction only]; Region: COG1741 1172562004183 Pirin; Region: Pirin; pfam02678 1172562004184 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1172562004185 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1172562004186 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1172562004187 HlyD family secretion protein; Region: HlyD_3; pfam13437 1172562004188 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1172562004189 Predicted membrane protein [Function unknown]; Region: COG1238 1172562004190 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1172562004191 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 1172562004192 putative ligand binding site [chemical binding]; other site 1172562004193 putative NAD binding site [chemical binding]; other site 1172562004194 catalytic site [active] 1172562004195 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1172562004196 feedback inhibition sensing region; other site 1172562004197 homohexameric interface [polypeptide binding]; other site 1172562004198 nucleotide binding site [chemical binding]; other site 1172562004199 N-acetyl-L-glutamate binding site [chemical binding]; other site 1172562004200 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 1172562004201 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1172562004202 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1172562004203 tetramer interfaces [polypeptide binding]; other site 1172562004204 binuclear metal-binding site [ion binding]; other site 1172562004205 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1172562004206 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 1172562004207 active site 1172562004208 intermolecular recognition site; other site 1172562004209 dimerization interface [polypeptide binding]; other site 1172562004210 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1172562004211 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1172562004212 substrate binding site; other site 1172562004213 dimer interface; other site 1172562004214 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 1172562004215 homotrimer interaction site [polypeptide binding]; other site 1172562004216 zinc binding site [ion binding]; other site 1172562004217 CDP-binding sites; other site 1172562004218 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 1172562004219 ThiC family; Region: ThiC; pfam01964 1172562004220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 1172562004221 GAD domain; Region: GAD; pfam02938 1172562004222 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1172562004223 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1172562004224 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1172562004225 flagellar motor switch protein; Validated; Region: PRK08433 1172562004226 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1172562004227 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1172562004228 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1172562004229 minor groove reading motif; other site 1172562004230 helix-hairpin-helix signature motif; other site 1172562004231 substrate binding pocket [chemical binding]; other site 1172562004232 active site 1172562004233 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1172562004234 FeoA domain; Region: FeoA; pfam04023 1172562004235 Protein of unknown function; Region: DUF3971; pfam13116 1172562004236 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 1172562004237 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1172562004238 dimerization interface [polypeptide binding]; other site 1172562004239 malate dehydrogenase; Reviewed; Region: PRK06223 1172562004240 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1172562004241 NAD(P) binding site [chemical binding]; other site 1172562004242 dimer interface [polypeptide binding]; other site 1172562004243 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1172562004244 substrate binding site [chemical binding]; other site 1172562004245 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 1172562004246 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1172562004247 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 1172562004248 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 1172562004249 dimer interface [polypeptide binding]; other site 1172562004250 PYR/PP interface [polypeptide binding]; other site 1172562004251 TPP binding site [chemical binding]; other site 1172562004252 substrate binding site [chemical binding]; other site 1172562004253 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 1172562004254 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 1172562004255 TPP-binding site [chemical binding]; other site 1172562004256 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 1172562004257 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1172562004258 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1172562004259 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1172562004260 Clp amino terminal domain; Region: Clp_N; pfam02861 1172562004261 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 1172562004262 Walker A motif; other site 1172562004263 ATP binding site [chemical binding]; other site 1172562004264 Walker B motif; other site 1172562004265 arginine finger; other site 1172562004266 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 1172562004267 Walker A motif; other site 1172562004268 ATP binding site [chemical binding]; other site 1172562004269 Walker B motif; other site 1172562004270 arginine finger; other site 1172562004271 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1172562004272 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 1172562004273 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1172562004274 S1 domain; Region: S1_2; pfam13509 1172562004275 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1172562004276 malonic semialdehyde reductase; Provisional; Region: PRK10538 1172562004277 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1172562004278 putative NAD(P) binding site [chemical binding]; other site 1172562004279 homodimer interface [polypeptide binding]; other site 1172562004280 homotetramer interface [polypeptide binding]; other site 1172562004281 active site 1172562004282 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1172562004283 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562004284 dimer interface [polypeptide binding]; other site 1172562004285 putative CheW interface [polypeptide binding]; other site 1172562004286 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1172562004287 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 1172562004288 Walker A motif; other site 1172562004289 ATP binding site [chemical binding]; other site 1172562004290 Walker B motif; other site 1172562004291 arginine finger; other site 1172562004292 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1172562004293 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 1172562004294 oligomerization interface [polypeptide binding]; other site 1172562004295 active site 1172562004296 metal binding site [ion binding]; metal-binding site 1172562004297 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1172562004298 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1172562004299 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1172562004300 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1172562004301 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 1172562004302 dimerization interface [polypeptide binding]; other site 1172562004303 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1172562004304 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562004305 dimer interface [polypeptide binding]; other site 1172562004306 putative CheW interface [polypeptide binding]; other site 1172562004307 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1172562004308 RuvA N terminal domain; Region: RuvA_N; pfam01330 1172562004309 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1172562004310 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1172562004311 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1172562004312 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1172562004313 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1172562004314 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1172562004315 active site 1172562004316 HIGH motif; other site 1172562004317 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1172562004318 KMSKS motif; other site 1172562004319 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1172562004320 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1172562004321 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1172562004322 active site 1172562004323 nucleotide binding site [chemical binding]; other site 1172562004324 HIGH motif; other site 1172562004325 KMSKS motif; other site 1172562004326 Riboflavin kinase; Region: Flavokinase; pfam01687 1172562004327 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1172562004328 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 1172562004329 RNA binding surface [nucleotide binding]; other site 1172562004330 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 1172562004331 S-adenosylmethionine binding site [chemical binding]; other site 1172562004332 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1172562004333 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1172562004334 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1172562004335 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1172562004336 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1172562004337 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1172562004338 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1172562004339 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1172562004340 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1172562004341 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1172562004342 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1172562004343 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1172562004344 metal binding site [ion binding]; metal-binding site 1172562004345 dimer interface [polypeptide binding]; other site 1172562004346 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1172562004347 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1172562004348 N-terminal plug; other site 1172562004349 ligand-binding site [chemical binding]; other site 1172562004350 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 1172562004351 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1172562004352 DNA primase; Validated; Region: dnaG; PRK05667 1172562004353 Helix-turn-helix domain; Region: HTH_36; pfam13730 1172562004354 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1172562004355 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 1172562004356 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1172562004357 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 1172562004358 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1172562004359 G1 box; other site 1172562004360 putative GEF interaction site [polypeptide binding]; other site 1172562004361 GTP/Mg2+ binding site [chemical binding]; other site 1172562004362 Switch I region; other site 1172562004363 G2 box; other site 1172562004364 G3 box; other site 1172562004365 Switch II region; other site 1172562004366 G4 box; other site 1172562004367 G5 box; other site 1172562004368 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1172562004369 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1172562004370 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 1172562004371 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1172562004372 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1172562004373 dimer interface [polypeptide binding]; other site 1172562004374 putative functional site; other site 1172562004375 putative MPT binding site; other site 1172562004376 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1172562004377 Ligand Binding Site [chemical binding]; other site 1172562004378 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 1172562004379 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1172562004380 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1172562004381 putative metal binding site; other site 1172562004382 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1172562004383 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 1172562004384 Substrate binding site; other site 1172562004385 metal-binding site 1172562004386 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 1172562004387 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1172562004388 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 1172562004389 putative ADP-binding pocket [chemical binding]; other site 1172562004390 Sulfatase; Region: Sulfatase; pfam00884 1172562004391 hypothetical protein; Provisional; Region: PRK10649 1172562004392 exosortase/archaeosortase family protein; Region: exo_archaeo; TIGR04178 1172562004393 Sulfatase; Region: Sulfatase; pfam00884 1172562004394 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1172562004395 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 1172562004396 cell division protein FtsZ; Validated; Region: PRK09330 1172562004397 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 1172562004398 nucleotide binding site [chemical binding]; other site 1172562004399 SulA interaction site; other site 1172562004400 cell division protein FtsA; Region: ftsA; TIGR01174 1172562004401 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1172562004402 nucleotide binding site [chemical binding]; other site 1172562004403 Cell division protein FtsA; Region: FtsA; pfam14450 1172562004404 SurA N-terminal domain; Region: SurA_N_3; cl07813 1172562004405 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1172562004406 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1172562004407 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1172562004408 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1172562004409 active site 1172562004410 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 1172562004411 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 1172562004412 Interdomain contacts; other site 1172562004413 Cytokine receptor motif; other site 1172562004414 Fibronectin type 3 domain; Region: FN3; smart00060 1172562004415 Interdomain contacts; other site 1172562004416 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 1172562004417 Interdomain contacts; other site 1172562004418 Cytokine receptor motif; other site 1172562004419 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 1172562004420 S-adenosylmethionine binding site [chemical binding]; other site 1172562004421 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1172562004422 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1172562004423 Walker A/P-loop; other site 1172562004424 ATP binding site [chemical binding]; other site 1172562004425 Q-loop/lid; other site 1172562004426 ABC transporter signature motif; other site 1172562004427 Walker B; other site 1172562004428 D-loop; other site 1172562004429 H-loop/switch region; other site 1172562004430 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1172562004431 Peptidase family M23; Region: Peptidase_M23; pfam01551 1172562004432 FlaG protein; Region: FlaG; cl00591 1172562004433 flagellar capping protein; Validated; Region: fliD; PRK08453 1172562004434 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1172562004435 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1172562004436 flagellar protein FliS; Validated; Region: fliS; PRK05685 1172562004437 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 1172562004438 IHF - DNA interface [nucleotide binding]; other site 1172562004439 IHF dimer interface [polypeptide binding]; other site 1172562004440 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1172562004441 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1172562004442 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1172562004443 Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AspS; COG0173 1172562004444 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1172562004445 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1172562004446 GatB domain; Region: GatB_Yqey; smart00845 1172562004447 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1172562004448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1172562004449 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1172562004450 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1172562004451 putative catalytic cysteine [active] 1172562004452 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1172562004453 GcpE protein; Region: GcpE; pfam04551 1172562004454 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1172562004455 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 1172562004456 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 1172562004457 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1172562004458 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1172562004459 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1172562004460 Putative Catalytic site; other site 1172562004461 DXD motif; other site 1172562004462 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1172562004463 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 1172562004464 S-adenosylmethionine binding site [chemical binding]; other site 1172562004465 Predicted membrane protein [Function unknown]; Region: COG2246 1172562004466 GtrA-like protein; Region: GtrA; pfam04138 1172562004467 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1172562004468 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1172562004469 EamA-like transporter family; Region: EamA; pfam00892 1172562004470 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1172562004471 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1172562004472 Na2 binding site [ion binding]; other site 1172562004473 putative substrate binding site 1 [chemical binding]; other site 1172562004474 Na binding site 1 [ion binding]; other site 1172562004475 putative substrate binding site 2 [chemical binding]; other site 1172562004476 TfoX N-terminal domain; Region: TfoX_N; cl17592 1172562004477 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; cl00246 1172562004478 FAD binding site [chemical binding]; other site 1172562004479 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1172562004480 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1172562004481 THF binding site; other site 1172562004482 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1172562004483 substrate binding site [chemical binding]; other site 1172562004484 THF binding site; other site 1172562004485 zinc-binding site [ion binding]; other site 1172562004486 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 1172562004487 dimerization interface [polypeptide binding]; other site 1172562004488 substrate binding site [chemical binding]; other site 1172562004489 active site 1172562004490 calcium binding site [ion binding]; other site 1172562004491 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1172562004492 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 1172562004493 glutaminase active site [active] 1172562004494 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 1172562004495 dimer interface [polypeptide binding]; other site 1172562004496 active site 1172562004497 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 1172562004498 dimer interface [polypeptide binding]; other site 1172562004499 active site 1172562004500 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1172562004501 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1172562004502 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562004503 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1172562004504 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1172562004505 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562004506 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1172562004507 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562004508 DNA methylase; Region: N6_N4_Mtase; cl17433 1172562004509 HNH endonuclease; Region: HNH_2; pfam13391 1172562004510 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1172562004511 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562004512 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 1172562004513 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 1172562004514 motif 1; other site 1172562004515 active site 1172562004516 motif 2; other site 1172562004517 motif 3; other site 1172562004518 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1172562004519 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 1172562004520 DHHA1 domain; Region: DHHA1; pfam02272 1172562004521 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; cl00474 1172562004522 active site 1172562004523 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1172562004524 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 1172562004525 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1172562004526 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 1172562004527 active site 1172562004528 hydrophilic channel; other site 1172562004529 dimerization interface [polypeptide binding]; other site 1172562004530 catalytic residues [active] 1172562004531 active site lid [active] 1172562004532 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1172562004533 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1172562004534 putative valine binding site [chemical binding]; other site 1172562004535 dimer interface [polypeptide binding]; other site 1172562004536 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1172562004537 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 1172562004538 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1172562004539 PYR/PP interface [polypeptide binding]; other site 1172562004540 dimer interface [polypeptide binding]; other site 1172562004541 TPP binding site [chemical binding]; other site 1172562004542 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1172562004543 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 1172562004544 TPP-binding site [chemical binding]; other site 1172562004545 dimer interface [polypeptide binding]; other site 1172562004546 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1172562004547 Ferredoxin [Energy production and conversion]; Region: COG1146 1172562004548 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1172562004549 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1172562004550 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1172562004551 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1172562004552 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1172562004553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1172562004554 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1172562004555 FAD binding domain; Region: FAD_binding_4; pfam01565 1172562004556 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1172562004557 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1172562004558 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 1172562004559 dimer interface [polypeptide binding]; other site 1172562004560 ADP-ribose binding site [chemical binding]; other site 1172562004561 active site 1172562004562 nudix motif; other site 1172562004563 metal binding site [ion binding]; metal-binding site 1172562004564 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1172562004565 Peptidase family M23; Region: Peptidase_M23; pfam01551 1172562004566 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 1172562004567 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 1172562004568 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1172562004569 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1172562004570 Peptidase family C69; Region: Peptidase_C69; cl17793 1172562004571 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1172562004572 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 1172562004573 Walker B motif; other site 1172562004574 arginine finger; other site 1172562004575 Peptidase family M41; Region: Peptidase_M41; pfam01434 1172562004576 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1172562004577 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1172562004578 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; cl15377 1172562004579 FeS/SAM binding site; other site 1172562004580 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1172562004581 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1172562004582 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1172562004583 active site 1172562004584 dimer interface [polypeptide binding]; other site 1172562004585 metal binding site [ion binding]; metal-binding site 1172562004586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 1172562004587 TrkA-C domain; Region: TrkA_C; pfam02080 1172562004588 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 1172562004589 Protein of unknown function (DUF493); Region: DUF493; pfam04359 1172562004590 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 1172562004591 active site 1172562004592 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1172562004593 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562004594 Tsp45I type II restriction enzyme; Region: Tsp45I; pfam06300 1172562004595 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1172562004596 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1172562004597 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 1172562004598 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 1172562004599 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 1172562004600 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 1172562004601 Protein of unknown function, DUF462; Region: DUF462; cl01190 1172562004602 CRISPR-associated protein; Region: TIGR03986 1172562004603 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 1172562004604 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1172562004605 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1172562004606 Mg++ binding site [ion binding]; other site 1172562004607 putative catalytic motif [active] 1172562004608 substrate binding site [chemical binding]; other site 1172562004609 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1172562004610 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1172562004611 catalytic residues [active] 1172562004612 catalytic nucleophile [active] 1172562004613 Presynaptic Site I dimer interface [polypeptide binding]; other site 1172562004614 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1172562004615 Synaptic Flat tetramer interface [polypeptide binding]; other site 1172562004616 Synaptic Site I dimer interface [polypeptide binding]; other site 1172562004617 DNA binding site [nucleotide binding] 1172562004618 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1172562004619 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 1172562004620 putative catalytic motif [active] 1172562004621 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1172562004622 Na2 binding site [ion binding]; other site 1172562004623 putative substrate binding site 1 [chemical binding]; other site 1172562004624 Na binding site 1 [ion binding]; other site 1172562004625 putative substrate binding site 2 [chemical binding]; other site 1172562004626 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1172562004627 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1172562004628 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1172562004629 catalytic site [active] 1172562004630 subunit interface [polypeptide binding]; other site 1172562004631 Protein of unknown function (DUF507); Region: DUF507; pfam04368 1172562004632 Transglycosylase; Region: Transgly; pfam00912 1172562004633 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1172562004634 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1172562004635 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562004636 dimer interface [polypeptide binding]; other site 1172562004637 putative CheW interface [polypeptide binding]; other site 1172562004638 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1172562004639 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1172562004640 metal binding site 2 [ion binding]; metal-binding site 1172562004641 putative DNA binding helix; other site 1172562004642 metal binding site 1 [ion binding]; metal-binding site 1172562004643 dimer interface [polypeptide binding]; other site 1172562004644 structural Zn2+ binding site [ion binding]; other site 1172562004645 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1172562004646 threonine dehydratase; Provisional; Region: PRK08526 1172562004647 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1172562004648 tetramer interface [polypeptide binding]; other site 1172562004649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562004650 catalytic residue [active] 1172562004651 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1172562004652 EamA-like transporter family; Region: EamA; pfam00892 1172562004653 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1172562004654 EamA-like transporter family; Region: EamA; cl17759 1172562004655 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1172562004656 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1172562004657 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1172562004658 ligand binding site; other site 1172562004659 tetramer interface; other site 1172562004660 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1172562004661 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 1172562004662 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1172562004663 Walker A motif; other site 1172562004664 ATP binding site [chemical binding]; other site 1172562004665 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1172562004666 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1172562004667 catalytic residue [active] 1172562004668 pseudaminic acid synthase; Region: PseI; TIGR03586 1172562004669 NeuB family; Region: NeuB; pfam03102 1172562004670 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1172562004671 NeuB binding interface [polypeptide binding]; other site 1172562004672 putative substrate binding site [chemical binding]; other site 1172562004673 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1172562004674 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 1172562004675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1172562004676 Coenzyme A binding pocket [chemical binding]; other site 1172562004677 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 1172562004678 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1172562004679 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1172562004680 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1172562004681 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1172562004682 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 1172562004683 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1172562004684 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 1172562004685 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 1172562004686 GDP-Fucose binding site [chemical binding]; other site 1172562004687 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1172562004688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562004689 Walker A/P-loop; other site 1172562004690 ATP binding site [chemical binding]; other site 1172562004691 Q-loop/lid; other site 1172562004692 ABC transporter signature motif; other site 1172562004693 Walker B; other site 1172562004694 D-loop; other site 1172562004695 H-loop/switch region; other site 1172562004696 ABC transporter; Region: ABC_tran_2; pfam12848 1172562004697 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1172562004698 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 1172562004699 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1172562004700 cofactor binding site; other site 1172562004701 DNA binding site [nucleotide binding] 1172562004702 substrate interaction site [chemical binding]; other site 1172562004703 hypothetical protein; Provisional; Region: PRK05834 1172562004704 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1172562004705 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1172562004706 metal binding site [ion binding]; metal-binding site 1172562004707 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1172562004708 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1172562004709 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1172562004710 putative active site [active] 1172562004711 putative metal binding site [ion binding]; other site 1172562004712 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1172562004713 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1172562004714 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 1172562004715 active site 1172562004716 phosphorylation site [posttranslational modification] 1172562004717 intermolecular recognition site; other site 1172562004718 dimerization interface [polypeptide binding]; other site 1172562004719 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1172562004720 putative binding surface; other site 1172562004721 active site 1172562004722 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1172562004723 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1172562004724 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 1172562004725 ATP binding site [chemical binding]; other site 1172562004726 Mg2+ binding site [ion binding]; other site 1172562004727 G-X-G motif; other site 1172562004728 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1172562004729 Response regulator receiver domain; Region: Response_reg; pfam00072 1172562004730 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 1172562004731 active site 1172562004732 phosphorylation site [posttranslational modification] 1172562004733 intermolecular recognition site; other site 1172562004734 dimerization interface [polypeptide binding]; other site 1172562004735 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1172562004736 putative CheA interaction surface; other site 1172562004737 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1172562004738 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1172562004739 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 1172562004740 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1172562004741 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 1172562004742 active site 1172562004743 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; cl00246 1172562004744 FAD binding site [chemical binding]; other site 1172562004745 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1172562004746 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 1172562004747 motif II; other site 1172562004748 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1172562004749 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1172562004750 Substrate binding site; other site 1172562004751 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1172562004752 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK07636 1172562004753 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1172562004754 DNA binding site [nucleotide binding] 1172562004755 active site 1172562004756 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 1172562004757 DNA binding site [nucleotide binding] 1172562004758 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 1172562004759 active site 1172562004760 multimer interface [polypeptide binding]; other site 1172562004761 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1172562004762 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1172562004763 putative phosphate acyltransferase; Provisional; Region: PRK05331 1172562004764 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1172562004765 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1172562004766 dimer interface [polypeptide binding]; other site 1172562004767 active site 1172562004768 CoA binding pocket [chemical binding]; other site 1172562004769 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1172562004770 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 1172562004771 metal-binding site [ion binding] 1172562004772 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1172562004773 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 1172562004774 metal-binding site [ion binding] 1172562004775 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1172562004776 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1172562004777 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1172562004778 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1172562004779 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1172562004780 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 1172562004781 metal-binding site [ion binding] 1172562004782 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1172562004783 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1172562004784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562004785 Walker A/P-loop; other site 1172562004786 ATP binding site [chemical binding]; other site 1172562004787 Q-loop/lid; other site 1172562004788 ABC transporter signature motif; other site 1172562004789 Walker B; other site 1172562004790 D-loop; other site 1172562004791 H-loop/switch region; other site 1172562004792 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 1172562004793 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 1172562004794 Iron-sulfur protein interface; other site 1172562004795 proximal heme binding site [chemical binding]; other site 1172562004796 distal heme binding site [chemical binding]; other site 1172562004797 dimer interface [polypeptide binding]; other site 1172562004798 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 1172562004799 L-aspartate oxidase; Provisional; Region: PRK06175 1172562004800 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1172562004801 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 1172562004802 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1172562004803 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1172562004804 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1172562004805 putative active site [active] 1172562004806 catalytic site [active] 1172562004807 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1172562004808 putative active site [active] 1172562004809 catalytic site [active] 1172562004810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1172562004811 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 1172562004812 heterotetramer interface [polypeptide binding]; other site 1172562004813 active site pocket [active] 1172562004814 cleavage site 1172562004815 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1172562004816 TrkA-N domain; Region: TrkA_N; pfam02254 1172562004817 TrkA-C domain; Region: TrkA_C; pfam02080 1172562004818 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1172562004819 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1172562004820 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1172562004821 HlyD family secretion protein; Region: HlyD_3; pfam13437 1172562004822 Outer membrane efflux protein; Region: OEP; pfam02321 1172562004823 Outer membrane efflux protein; Region: OEP; pfam02321 1172562004824 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 1172562004825 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 1172562004826 catalytic core [active] 1172562004827 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1172562004828 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1172562004829 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1172562004830 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1172562004831 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1172562004832 MraW methylase family; Region: Methyltransf_5; cl17771 1172562004833 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1172562004834 putative acyl-acceptor binding pocket; other site 1172562004835 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 1172562004836 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1172562004837 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 1172562004838 FeS/SAM binding site; other site 1172562004839 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1172562004840 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1172562004841 molybdopterin cofactor binding site [chemical binding]; other site 1172562004842 substrate binding site [chemical binding]; other site 1172562004843 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1172562004844 molybdopterin cofactor binding site; other site 1172562004845 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1172562004846 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1172562004847 Flagellar FliJ protein; Region: FliJ; pfam02050 1172562004848 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1172562004849 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 1172562004850 GDP-binding site [chemical binding]; other site 1172562004851 ACT binding site; other site 1172562004852 IMP binding site; other site 1172562004853 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12293 1172562004854 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 1172562004855 motif 1; other site 1172562004856 dimer interface [polypeptide binding]; other site 1172562004857 active site 1172562004858 motif 2; other site 1172562004859 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1172562004860 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 1172562004861 Ligand Binding Site [chemical binding]; other site 1172562004862 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1172562004863 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1172562004864 N-terminal plug; other site 1172562004865 ligand-binding site [chemical binding]; other site 1172562004866 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1172562004867 Aspartase; Region: Aspartase; cd01357 1172562004868 active sites [active] 1172562004869 tetramer interface [polypeptide binding]; other site 1172562004870 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 1172562004871 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 1172562004872 GSCFA family; Region: GSCFA; pfam08885 1172562004873 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 1172562004874 nuclease NucT; Provisional; Region: PRK13912 1172562004875 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 1172562004876 putative active site [active] 1172562004877 catalytic site [active] 1172562004878 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 1172562004879 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1172562004880 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 1172562004881 catalytic site [active] 1172562004882 G-X2-G-X-G-K; other site 1172562004883 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 1172562004884 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 1172562004885 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1172562004886 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1172562004887 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1172562004888 active site 1172562004889 HIGH motif; other site 1172562004890 KMSK motif region; other site 1172562004891 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1172562004892 tRNA binding surface [nucleotide binding]; other site 1172562004893 anticodon binding site; other site 1172562004894 AzlC protein; Region: AzlC; cl00570 1172562004895 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1172562004896 flavodoxin FldA; Validated; Region: PRK09267 1172562004897 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 1172562004898 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1172562004899 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562004900 dimer interface [polypeptide binding]; other site 1172562004901 putative CheW interface [polypeptide binding]; other site 1172562004902 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1172562004903 PAS domain; Region: PAS_9; pfam13426 1172562004904 putative active site [active] 1172562004905 heme pocket [chemical binding]; other site 1172562004906 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1172562004907 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1172562004908 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1172562004909 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1172562004910 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 1172562004911 dimer interface [polypeptide binding]; other site 1172562004912 conserved gate region; other site 1172562004913 ABC-ATPase subunit interface; other site 1172562004914 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1172562004915 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1172562004916 Walker A/P-loop; other site 1172562004917 ATP binding site [chemical binding]; other site 1172562004918 Q-loop/lid; other site 1172562004919 ABC transporter signature motif; other site 1172562004920 Walker B; other site 1172562004921 D-loop; other site 1172562004922 H-loop/switch region; other site 1172562004923 NIL domain; Region: NIL; pfam09383 1172562004924 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1172562004925 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1172562004926 active site 1172562004927 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1172562004928 Sel1-like repeats; Region: SEL1; smart00671 1172562004929 Sel1-like repeats; Region: SEL1; smart00671 1172562004930 Sel1-like repeats; Region: SEL1; smart00671 1172562004931 Sel1-like repeats; Region: SEL1; smart00671 1172562004932 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 1172562004933 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 1172562004934 putative trimer interface [polypeptide binding]; other site 1172562004935 putative CoA binding site [chemical binding]; other site 1172562004936 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1172562004937 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1172562004938 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 1172562004939 inhibitor-cofactor binding pocket; inhibition site 1172562004940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562004941 catalytic residue [active] 1172562004942 YceI-like domain; Region: YceI; pfam04264 1172562004943 acetylornithine aminotransferase; Provisional; Region: PRK02627 1172562004944 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 1172562004945 inhibitor-cofactor binding pocket; inhibition site 1172562004946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1172562004947 catalytic residue [active] 1172562004948 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1172562004949 Cache domain; Region: Cache_1; pfam02743 1172562004950 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; cl01054 1172562004951 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562004952 dimer interface [polypeptide binding]; other site 1172562004953 putative CheW interface [polypeptide binding]; other site 1172562004954 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1172562004955 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1172562004956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562004957 Walker A/P-loop; other site 1172562004958 ATP binding site [chemical binding]; other site 1172562004959 Q-loop/lid; other site 1172562004960 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1172562004961 ABC transporter signature motif; other site 1172562004962 Walker B; other site 1172562004963 D-loop; other site 1172562004964 H-loop/switch region; other site 1172562004965 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1172562004966 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1172562004967 DNA-specific endonuclease I; Provisional; Region: PRK15137 1172562004968 Endonuclease I; Region: Endonuclease_1; pfam04231 1172562004969 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 1172562004970 HSP70 interaction site [polypeptide binding]; other site 1172562004971 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1172562004972 Isochorismatase family; Region: Isochorismatase; pfam00857 1172562004973 catalytic triad [active] 1172562004974 dimer interface [polypeptide binding]; other site 1172562004975 conserved cis-peptide bond; other site 1172562004976 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1172562004977 propionate/acetate kinase; Provisional; Region: PRK12379 1172562004978 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1172562004979 Nitrate and nitrite sensing; Region: NIT; pfam08376 1172562004980 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1172562004981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1172562004982 dimer interface [polypeptide binding]; other site 1172562004983 putative CheW interface [polypeptide binding]; other site 1172562004984 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1172562004985 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1172562004986 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 1172562004987 FeS/SAM binding site; other site 1172562004988 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 1172562004989 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1172562004990 NAD binding site [chemical binding]; other site 1172562004991 homotetramer interface [polypeptide binding]; other site 1172562004992 homodimer interface [polypeptide binding]; other site 1172562004993 substrate binding site [chemical binding]; other site 1172562004994 active site 1172562004995 triosephosphate isomerase; Provisional; Region: PRK14565 1172562004996 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 1172562004997 substrate binding site [chemical binding]; other site 1172562004998 dimer interface [polypeptide binding]; other site 1172562004999 catalytic triad [active] 1172562005000 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 1172562005001 active site 1172562005002 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 1172562005003 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1172562005004 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562005005 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562005006 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1172562005007 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1172562005008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 1172562005009 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 1172562005010 ATP binding site [chemical binding]; other site 1172562005011 putative Mg++ binding site [ion binding]; other site 1172562005012 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1172562005013 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1172562005014 DNA binding residues [nucleotide binding] 1172562005015 putative dimer interface [polypeptide binding]; other site 1172562005016 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1172562005017 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1172562005018 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 1172562005019 ATP binding site [chemical binding]; other site 1172562005020 Walker B motif; other site 1172562005021 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1172562005022 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 1172562005023 Walker A motif; other site 1172562005024 ATP binding site [chemical binding]; other site 1172562005025 Walker B motif; other site 1172562005026 YopX protein; Region: YopX; cl09859 1172562005027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1172562005028 AAA domain; Region: AAA_33; pfam13671 1172562005029 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1172562005030 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 1172562005031 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 1172562005032 active site 1172562005033 putative metal-binding site [ion binding]; other site 1172562005034 interdomain interaction site; other site 1172562005035 nucleotide binding site [chemical binding]; other site 1172562005036 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 1172562005037 domain I; other site 1172562005038 DNA binding groove [nucleotide binding] 1172562005039 phosphate binding site [ion binding]; other site 1172562005040 domain II; other site 1172562005041 domain III; other site 1172562005042 nucleotide binding site [chemical binding]; other site 1172562005043 catalytic site [active] 1172562005044 domain IV; other site 1172562005045 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1172562005046 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 1172562005047 active site 1172562005048 metal binding site [ion binding]; metal-binding site 1172562005049 interdomain interaction site; other site 1172562005050 hypothetical protein; Provisional; Region: PRK12705 1172562005051 Staphylococcal nuclease homologues; Region: SNc; smart00318 1172562005052 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1172562005053 Catalytic site; other site 1172562005054 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1172562005055 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1172562005056 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1172562005057 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 1172562005058 dimer interface [polypeptide binding]; other site 1172562005059 ssDNA binding site [nucleotide binding]; other site 1172562005060 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1172562005061 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1172562005062 active site 1172562005063 catalytic residues [active] 1172562005064 DNA binding site [nucleotide binding] 1172562005065 Int/Topo IB signature motif; other site 1172562005066 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 1172562005067 P-loop; other site 1172562005068 Magnesium ion binding site [ion binding]; other site 1172562005069 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08115 1172562005070 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 1172562005071 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1172562005072 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1172562005073 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 1172562005074 putative substrate translocation pore; other site 1172562005075 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1172562005076 CrcB-like protein; Region: CRCB; pfam02537 1172562005077 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1172562005078 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1172562005079 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1172562005080 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1172562005081 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1172562005082 Lumazine binding domain; Region: Lum_binding; pfam00677 1172562005083 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1172562005084 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1172562005085 active site 1172562005086 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 1172562005087 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1172562005088 catalytic residue [active] 1172562005089 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1172562005090 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1172562005091 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1172562005092 Sporulation related domain; Region: SPOR; pfam05036 1172562005093 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1172562005094 putative active site pocket [active] 1172562005095 4-fold oligomerization interface [polypeptide binding]; other site 1172562005096 metal binding residues [ion binding]; metal-binding site 1172562005097 3-fold/trimer interface [polypeptide binding]; other site 1172562005098 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1172562005099 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 1172562005100 active site 1172562005101 motif I; other site 1172562005102 motif II; other site 1172562005103 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1172562005104 OstA-like protein; Region: OstA; pfam03968 1172562005105 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1172562005106 G1 box; other site 1172562005107 GTP/Mg2+ binding site [chemical binding]; other site 1172562005108 Switch I region; other site 1172562005109 G2 box; other site 1172562005110 G3 box; other site 1172562005111 Switch II region; other site 1172562005112 G4 box; other site 1172562005113 G5 box; other site 1172562005114 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1172562005115 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1172562005116 Coenzyme A binding pocket [chemical binding]; other site 1172562005117 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1172562005118 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1172562005119 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1172562005120 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1172562005121 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1172562005122 NAD(P) binding site [chemical binding]; other site 1172562005123 homodimer interface [polypeptide binding]; other site 1172562005124 substrate binding site [chemical binding]; other site 1172562005125 active site 1172562005126 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1172562005127 Ferritin-like domain; Region: Ferritin; pfam00210 1172562005128 ferroxidase diiron center [ion binding]; other site 1172562005129 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1172562005130 Flavoprotein; Region: Flavoprotein; pfam02441 1172562005131 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1172562005132 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1172562005133 FAD binding domain; Region: FAD_binding_4; pfam01565 1172562005134 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1172562005135 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1172562005136 DNA polymerase I; Provisional; Region: PRK05755 1172562005137 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1172562005138 active site 1172562005139 metal binding site 1 [ion binding]; metal-binding site 1172562005140 putative 5' ssDNA interaction site; other site 1172562005141 metal binding site 3; metal-binding site 1172562005142 metal binding site 2 [ion binding]; metal-binding site 1172562005143 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1172562005144 putative DNA binding site [nucleotide binding]; other site 1172562005145 putative metal binding site [ion binding]; other site 1172562005146 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 1172562005147 active site 1172562005148 catalytic site [active] 1172562005149 substrate binding site [chemical binding]; other site 1172562005150 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1172562005151 active site 1172562005152 DNA binding site [nucleotide binding] 1172562005153 catalytic site [active] 1172562005154 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1172562005155 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 1172562005156 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1172562005157 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1172562005158 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1172562005159 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 1172562005160 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1172562005161 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1172562005162 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 1172562005163 Low-spin heme binding site [chemical binding]; other site 1172562005164 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1172562005165 D-pathway; other site 1172562005166 Putative water exit pathway; other site 1172562005167 Binuclear center (active site) [active] 1172562005168 K-pathway; other site 1172562005169 Putative proton exit pathway; other site 1172562005170 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1172562005171 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 1172562005172 Ligand Binding Site [chemical binding]; other site 1172562005173 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1172562005174 Citrate transporter; Region: CitMHS; pfam03600 1172562005175 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1172562005176 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 1172562005177 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1172562005178 Predicted permeases [General function prediction only]; Region: COG0730 1172562005179 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1172562005180 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1172562005181 putative active site [active] 1172562005182 putative metal binding site [ion binding]; other site 1172562005183 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1172562005184 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1172562005185 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1172562005186 TrkA-N domain; Region: TrkA_N; pfam02254 1172562005187 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1172562005188 ligand binding site [chemical binding]; other site 1172562005189 active site 1172562005190 UGI interface [polypeptide binding]; other site 1172562005191 catalytic site [active] 1172562005192 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1172562005193 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1172562005194 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1172562005195 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1172562005196 shikimate binding site; other site 1172562005197 NAD(P) binding site [chemical binding]; other site 1172562005198 Bacterial SH3 domain; Region: SH3_3; pfam08239 1172562005199 Bacterial SH3 domain; Region: SH3_3; pfam08239 1172562005200 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1172562005201 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 1172562005202 dimerization interface [polypeptide binding]; other site 1172562005203 putative ATP binding site [chemical binding]; other site 1172562005204 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1172562005205 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1172562005206 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1172562005207 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1172562005208 minor groove reading motif; other site 1172562005209 helix-hairpin-helix signature motif; other site 1172562005210 substrate binding pocket [chemical binding]; other site 1172562005211 active site 1172562005212 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1172562005213 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1172562005214 glutamate dehydrogenase; Provisional; Region: PRK09414 1172562005215 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1172562005216 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1172562005217 NAD(P) binding site [chemical binding]; other site 1172562005218 RecO N terminal; Region: RecO_N_2; cl15812 1172562005219 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1172562005220 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 1172562005221 active site 1172562005222 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 1172562005223 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 1172562005224 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1172562005225 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1172562005226 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1172562005227 serine O-acetyltransferase; Region: cysE; TIGR01172 1172562005228 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 1172562005229 trimer interface [polypeptide binding]; other site 1172562005230 active site 1172562005231 substrate binding site [chemical binding]; other site 1172562005232 CoA binding site [chemical binding]; other site 1172562005233 arginine decarboxylase; Provisional; Region: PRK05354 1172562005234 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1172562005235 dimer interface [polypeptide binding]; other site 1172562005236 active site 1172562005237 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1172562005238 catalytic residues [active] 1172562005239 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1172562005240 metal-binding heat shock protein; Provisional; Region: PRK00016 1172562005241 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1172562005242 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1172562005243 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1172562005244 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1172562005245 DNA protecting protein DprA; Region: dprA; TIGR00732 1172562005246 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1172562005247 NodB motif; other site 1172562005248 putative active site [active] 1172562005249 putative catalytic site [active] 1172562005250 Zn binding site [ion binding]; other site 1172562005251 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1172562005252 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1172562005253 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1172562005254 P-loop; other site 1172562005255 ADP binding residues [chemical binding]; other site 1172562005256 Switch I; other site 1172562005257 Switch II; other site 1172562005258 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1172562005259 argininosuccinate synthase; Provisional; Region: PRK13820 1172562005260 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 1172562005261 ANP binding site [chemical binding]; other site 1172562005262 Substrate Binding Site II [chemical binding]; other site 1172562005263 Substrate Binding Site I [chemical binding]; other site 1172562005264 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1172562005265 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1172562005266 Cation efflux family; Region: Cation_efflux; cl00316 1172562005267 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1172562005268 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1172562005269 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 1172562005270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562005271 Walker A/P-loop; other site 1172562005272 ATP binding site [chemical binding]; other site 1172562005273 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1172562005274 G4 box; other site 1172562005275 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; cl00125 1172562005276 active site residue [active] 1172562005277 hypothetical protein; Provisional; Region: PRK06850 1172562005278 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 1172562005279 Active Sites [active] 1172562005280 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1172562005281 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 1172562005282 putative switch regulator; other site 1172562005283 non-specific DNA interactions [nucleotide binding]; other site 1172562005284 DNA binding site [nucleotide binding] 1172562005285 sequence specific DNA binding site [nucleotide binding]; other site 1172562005286 putative cAMP binding site [chemical binding]; other site 1172562005287 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1172562005288 DNA methylase; Region: N6_N4_Mtase; pfam01555 1172562005289 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1172562005290 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 1172562005291 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 1172562005292 gating phenylalanine in ion channel; other site 1172562005293 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 1172562005294 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1172562005295 FeS/SAM binding site; other site 1172562005296 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1172562005297 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1172562005298 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1172562005299 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1172562005300 active site 1172562005301 non-prolyl cis peptide bond; other site 1172562005302 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 1172562005303 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1172562005304 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1172562005305 active site 1172562005306 dimer interface [polypeptide binding]; other site 1172562005307 non-prolyl cis peptide bond; other site 1172562005308 insertion regions; other site 1172562005309 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1172562005310 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1172562005311 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1172562005312 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1172562005313 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 1172562005314 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1172562005315 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 1172562005316 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1172562005317 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 1172562005318 ring oligomerisation interface [polypeptide binding]; other site 1172562005319 ATP/Mg binding site [chemical binding]; other site 1172562005320 stacking interactions; other site 1172562005321 hinge regions; other site 1172562005322 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 1172562005323 oligomerisation interface [polypeptide binding]; other site 1172562005324 mobile loop; other site 1172562005325 roof hairpin; other site 1172562005326 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1172562005327 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1172562005328 Ligand Binding Site [chemical binding]; other site 1172562005329 DNA primase; Validated; Region: dnaG; PRK05667 1172562005330 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1172562005331 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1172562005332 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 1172562005333 active site 1172562005334 metal binding site [ion binding]; metal-binding site 1172562005335 interdomain interaction site; other site 1172562005336 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1172562005337 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1172562005338 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1172562005339 LysE type translocator; Region: LysE; cl00565 1172562005340 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1172562005341 PhnA protein; Region: PhnA; pfam03831 1172562005342 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1172562005343 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1172562005344 N-terminal plug; other site 1172562005345 ligand-binding site [chemical binding]; other site 1172562005346 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1172562005347 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1172562005348 active site 1172562005349 HIGH motif; other site 1172562005350 nucleotide binding site [chemical binding]; other site 1172562005351 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1172562005352 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1172562005353 active site 1172562005354 KMSKS motif; other site 1172562005355 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1172562005356 tRNA binding surface [nucleotide binding]; other site 1172562005357 anticodon binding site; other site 1172562005358 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1172562005359 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1172562005360 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 1172562005361 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1172562005362 rod shape-determining protein MreC; Provisional; Region: PRK13922 1172562005363 rod shape-determining protein MreC; Region: MreC; pfam04085 1172562005364 rod shape-determining protein MreB; Provisional; Region: PRK13927 1172562005365 MreB and similar proteins; Region: MreB_like; cd10225 1172562005366 nucleotide binding site [chemical binding]; other site 1172562005367 Mg binding site [ion binding]; other site 1172562005368 putative protofilament interaction site [polypeptide binding]; other site 1172562005369 RodZ interaction site [polypeptide binding]; other site 1172562005370 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1172562005371 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1172562005372 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 1172562005373 Walker A motif; other site 1172562005374 ATP binding site [chemical binding]; other site 1172562005375 Walker B motif; other site 1172562005376 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1172562005377 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1172562005378 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 1172562005379 active site 1172562005380 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 1172562005381 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 1172562005382 Ligand Binding Site [chemical binding]; other site 1172562005383 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 1172562005384 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 1172562005385 FeS/SAM binding site; other site 1172562005386 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 1172562005387 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1172562005388 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 1172562005389 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1172562005390 substrate binding site [chemical binding]; other site 1172562005391 glutamase interaction surface [polypeptide binding]; other site 1172562005392 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1172562005393 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1172562005394 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1172562005395 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1172562005396 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1172562005397 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1172562005398 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1172562005399 putative active site [active] 1172562005400 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1172562005401 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 1172562005402 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 1172562005403 catalytic center binding site [active] 1172562005404 ATP binding site [chemical binding]; other site 1172562005405 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1172562005406 2-isopropylmalate synthase; Validated; Region: PRK03739 1172562005407 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1172562005408 active site 1172562005409 catalytic residues [active] 1172562005410 metal binding site [ion binding]; metal-binding site 1172562005411 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1172562005412 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1172562005413 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1172562005414 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1172562005415 substrate binding site [chemical binding]; other site 1172562005416 ligand binding site [chemical binding]; other site 1172562005417 3-isopropylmalate dehydratase, small subunit; Region: leud; TIGR02084 1172562005418 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 1172562005419 substrate binding site [chemical binding]; other site 1172562005420 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1172562005421 tartrate dehydrogenase; Region: TTC; TIGR02089 1172562005422 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 1172562005423 putative active site [active] 1172562005424 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1172562005425 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 1172562005426 Mg2+ binding site [ion binding]; other site 1172562005427 G-X-G motif; other site 1172562005428 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1172562005429 anchoring element; other site 1172562005430 dimer interface [polypeptide binding]; other site 1172562005431 ATP binding site [chemical binding]; other site 1172562005432 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1172562005433 active site 1172562005434 putative metal-binding site [ion binding]; other site 1172562005435 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1172562005436 DNA polymerase III subunit beta; Validated; Region: PRK05643 1172562005437 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 1172562005438 putative DNA binding surface [nucleotide binding]; other site 1172562005439 dimer interface [polypeptide binding]; other site 1172562005440 beta-clamp/clamp loader binding surface; other site 1172562005441 beta-clamp/translesion DNA polymerase binding surface; other site 1172562005442 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1172562005443 Permease; Region: Permease; cl00510 1172562005444 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1172562005445 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1172562005446 Walker A/P-loop; other site 1172562005447 ATP binding site [chemical binding]; other site 1172562005448 Q-loop/lid; other site 1172562005449 ABC transporter signature motif; other site 1172562005450 Walker B; other site 1172562005451 D-loop; other site 1172562005452 H-loop/switch region; other site 1172562005453 mce related protein; Region: MCE; pfam02470 1172562005454 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1172562005455 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 1172562005456 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1172562005457 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1172562005458 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1172562005459 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 1172562005460 Walker A motif; other site 1172562005461 ATP binding site [chemical binding]; other site 1172562005462 Walker B motif; other site 1172562005463 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 1172562005464 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1172562005465 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 1172562005466 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1172562005467 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1172562005468 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 1172562005469 active site 1172562005470 putative DNA-binding cleft [nucleotide binding]; other site 1172562005471 dimer interface [polypeptide binding]; other site 1172562005472 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1172562005473 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1172562005474 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1172562005475 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1172562005476 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1172562005477 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872