-- dump date 20140620_021027 -- class Genbank::misc_feature -- table misc_feature_note -- id note 314282000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 314282000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 314282000003 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 314282000004 Walker A motif; other site 314282000005 ATP binding site [chemical binding]; other site 314282000006 Walker B motif; other site 314282000007 arginine finger; other site 314282000008 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 314282000009 DnaA box-binding interface [nucleotide binding]; other site 314282000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 314282000011 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 314282000012 putative DNA binding surface [nucleotide binding]; other site 314282000013 dimer interface [polypeptide binding]; other site 314282000014 beta-clamp/clamp loader binding surface; other site 314282000015 beta-clamp/translesion DNA polymerase binding surface; other site 314282000016 recombination protein F; Reviewed; Region: recF; PRK00064 314282000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282000018 Walker A/P-loop; other site 314282000019 ATP binding site [chemical binding]; other site 314282000020 Q-loop/lid; other site 314282000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282000022 ABC transporter signature motif; other site 314282000023 Walker B; other site 314282000024 D-loop; other site 314282000025 H-loop/switch region; other site 314282000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 314282000027 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 314282000028 ATP binding site [chemical binding]; other site 314282000029 Mg2+ binding site [ion binding]; other site 314282000030 G-X-G motif; other site 314282000031 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 314282000032 anchoring element; other site 314282000033 dimer interface [polypeptide binding]; other site 314282000034 ATP binding site [chemical binding]; other site 314282000035 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 314282000036 active site 314282000037 putative metal-binding site [ion binding]; other site 314282000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 314282000039 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 314282000040 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 314282000041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282000042 homodimer interface [polypeptide binding]; other site 314282000043 catalytic residue [active] 314282000044 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 314282000045 DALR anticodon binding domain; Region: DALR_1; pfam05746 314282000046 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 314282000047 dimer interface [polypeptide binding]; other site 314282000048 motif 1; other site 314282000049 active site 314282000050 motif 2; other site 314282000051 motif 3; other site 314282000052 Uncharacterized conserved protein (DUF2161); Region: DUF2161; pfam09929 314282000053 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 314282000054 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314282000055 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 314282000056 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 314282000057 dimer interface [polypeptide binding]; other site 314282000058 active site 314282000059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314282000060 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 314282000061 NAD(P) binding site [chemical binding]; other site 314282000062 active site 314282000063 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 314282000064 putative active site 1 [active] 314282000065 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 314282000066 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 314282000067 dimer interface [polypeptide binding]; other site 314282000068 active site 314282000069 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 314282000070 Predicted exporter [General function prediction only]; Region: COG4258 314282000071 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 314282000072 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 314282000073 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 314282000074 active site 314282000075 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 314282000076 active sites [active] 314282000077 tetramer interface [polypeptide binding]; other site 314282000078 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314282000079 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 314282000080 Ligand binding site; other site 314282000081 Putative Catalytic site; other site 314282000082 DXD motif; other site 314282000083 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 314282000084 putative acyl-acceptor binding pocket; other site 314282000085 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 314282000086 active site 2 [active] 314282000087 active site 1 [active] 314282000088 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 314282000089 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314282000090 AMP binding site [chemical binding]; other site 314282000091 active site 314282000092 acyl-activating enzyme (AAE) consensus motif; other site 314282000093 CoA binding site [chemical binding]; other site 314282000094 Predicted membrane protein [Function unknown]; Region: COG4648 314282000095 acyl carrier protein; Provisional; Region: PRK05350 314282000096 Phosphopantetheine attachment site; Region: PP-binding; cl09936 314282000097 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314282000098 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 314282000099 putative acyl-acceptor binding pocket; other site 314282000100 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 314282000101 O-methyltransferase; Region: Methyltransf_2; pfam00891 314282000102 Methyltransferase domain; Region: Methyltransf_31; pfam13847 314282000103 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 314282000104 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 314282000105 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 314282000106 gamma subunit interface [polypeptide binding]; other site 314282000107 epsilon subunit interface [polypeptide binding]; other site 314282000108 LBP interface [polypeptide binding]; other site 314282000109 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 314282000110 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 314282000111 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 314282000112 alpha subunit interaction interface [polypeptide binding]; other site 314282000113 Walker A motif; other site 314282000114 ATP binding site [chemical binding]; other site 314282000115 Walker B motif; other site 314282000116 inhibitor binding site; inhibition site 314282000117 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 314282000118 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 314282000119 core domain interface [polypeptide binding]; other site 314282000120 delta subunit interface [polypeptide binding]; other site 314282000121 epsilon subunit interface [polypeptide binding]; other site 314282000122 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 314282000123 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 314282000124 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 314282000125 beta subunit interaction interface [polypeptide binding]; other site 314282000126 Walker A motif; other site 314282000127 ATP binding site [chemical binding]; other site 314282000128 Walker B motif; other site 314282000129 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 314282000130 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 314282000131 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 314282000132 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 314282000133 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 314282000134 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 314282000135 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 314282000136 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 314282000137 ATP synthase I chain; Region: ATP_synt_I; pfam03899 314282000138 regulatory ATPase RavA; Provisional; Region: PRK13531 314282000139 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 314282000140 Walker A motif; other site 314282000141 ATP binding site [chemical binding]; other site 314282000142 Walker B motif; other site 314282000143 arginine finger; other site 314282000144 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 314282000145 hypothetical protein; Provisional; Region: yieM; PRK10997 314282000146 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 314282000147 metal ion-dependent adhesion site (MIDAS); other site 314282000148 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 314282000149 ParB-like nuclease domain; Region: ParBc; pfam02195 314282000150 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 314282000151 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 314282000152 P-loop; other site 314282000153 Magnesium ion binding site [ion binding]; other site 314282000154 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 314282000155 Magnesium ion binding site [ion binding]; other site 314282000156 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 314282000157 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 314282000158 S-adenosylmethionine binding site [chemical binding]; other site 314282000159 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 314282000160 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 314282000161 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 314282000162 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 314282000163 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 314282000164 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 314282000165 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 314282000166 metal binding site [ion binding]; metal-binding site 314282000167 putative dimer interface [polypeptide binding]; other site 314282000168 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 314282000169 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 314282000170 conserved gate region; other site 314282000171 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 314282000172 ABC-ATPase subunit interface; other site 314282000173 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 314282000174 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 314282000175 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 314282000176 dimer interface [polypeptide binding]; other site 314282000177 conserved gate region; other site 314282000178 putative PBP binding loops; other site 314282000179 ABC-ATPase subunit interface; other site 314282000180 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 314282000181 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 314282000182 Walker A/P-loop; other site 314282000183 ATP binding site [chemical binding]; other site 314282000184 Q-loop/lid; other site 314282000185 ABC transporter signature motif; other site 314282000186 Walker B; other site 314282000187 D-loop; other site 314282000188 H-loop/switch region; other site 314282000189 transcriptional regulator PhoU; Provisional; Region: PRK11115 314282000190 PhoU domain; Region: PhoU; pfam01895 314282000191 PhoU domain; Region: PhoU; pfam01895 314282000192 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 314282000193 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 314282000194 active site 314282000195 phosphorylation site [posttranslational modification] 314282000196 intermolecular recognition site; other site 314282000197 dimerization interface [polypeptide binding]; other site 314282000198 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 314282000199 DNA binding site [nucleotide binding] 314282000200 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 314282000201 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 314282000202 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; cl02459 314282000203 putative active site [active] 314282000204 heme pocket [chemical binding]; other site 314282000205 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 314282000206 dimer interface [polypeptide binding]; other site 314282000207 phosphorylation site [posttranslational modification] 314282000208 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 314282000209 ATP binding site [chemical binding]; other site 314282000210 Mg2+ binding site [ion binding]; other site 314282000211 G-X-G motif; other site 314282000212 PBP superfamily domain; Region: PBP_like_2; cl17296 314282000213 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 314282000214 putative deacylase active site [active] 314282000215 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 314282000216 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 314282000217 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 314282000218 FAD binding pocket [chemical binding]; other site 314282000219 FAD binding motif [chemical binding]; other site 314282000220 phosphate binding motif [ion binding]; other site 314282000221 beta-alpha-beta structure motif; other site 314282000222 NAD binding pocket [chemical binding]; other site 314282000223 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 314282000224 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 314282000225 Walker A motif; other site 314282000226 ATP binding site [chemical binding]; other site 314282000227 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 314282000228 Walker B motif; other site 314282000229 arginine finger; other site 314282000230 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 314282000231 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 314282000232 Sporulation related domain; Region: SPOR; pfam05036 314282000233 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 314282000234 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 314282000235 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 314282000236 active site 314282000237 HIGH motif; other site 314282000238 KMSK motif region; other site 314282000239 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 314282000240 tRNA binding surface [nucleotide binding]; other site 314282000241 anticodon binding site; other site 314282000242 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 314282000243 Part of AAA domain; Region: AAA_19; pfam13245 314282000244 Family description; Region: UvrD_C_2; pfam13538 314282000245 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 314282000246 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 314282000247 motif II; other site 314282000248 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 314282000249 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 314282000250 active site 314282000251 Int/Topo IB signature motif; other site 314282000252 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 314282000253 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 314282000254 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 314282000255 diaminopimelate decarboxylase; Region: lysA; TIGR01048 314282000256 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 314282000257 active site 314282000258 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314282000259 substrate binding site [chemical binding]; other site 314282000260 catalytic residues [active] 314282000261 dimer interface [polypeptide binding]; other site 314282000262 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 314282000263 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 314282000264 putative iron binding site [ion binding]; other site 314282000265 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 314282000266 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 314282000267 active site 314282000268 (T/H)XGH motif; other site 314282000269 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 314282000270 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 314282000271 DNA binding site [nucleotide binding] 314282000272 catalytic residue [active] 314282000273 H2TH interface [polypeptide binding]; other site 314282000274 putative catalytic residues [active] 314282000275 turnover-facilitating residue; other site 314282000276 intercalation triad [nucleotide binding]; other site 314282000277 8OG recognition residue [nucleotide binding]; other site 314282000278 putative reading head residues; other site 314282000279 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 314282000280 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 314282000281 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 314282000282 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 314282000283 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 314282000284 Flavoprotein; Region: Flavoprotein; pfam02441 314282000285 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 314282000286 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 314282000287 trimer interface [polypeptide binding]; other site 314282000288 active site 314282000289 division inhibitor protein; Provisional; Region: slmA; PRK09480 314282000290 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314282000291 mechanosensitive channel MscS; Provisional; Region: PRK10334 314282000292 Conserved TM helix; Region: TM_helix; pfam05552 314282000293 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314282000294 transcriptional repressor protein MetJ; Provisional; Region: PRK05264 314282000295 dimerization interface [polypeptide binding]; other site 314282000296 DNA binding site [nucleotide binding] 314282000297 corepressor binding sites; other site 314282000298 adenylate cyclase; Provisional; Region: cyaA; PRK09450 314282000299 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 314282000300 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 314282000301 putative global regulator; Reviewed; Region: PRK09559 314282000302 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 314282000303 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 314282000304 Uncharacterized conserved protein [Function unknown]; Region: COG2938 314282000305 L-aspartate oxidase; Provisional; Region: PRK09077 314282000306 L-aspartate oxidase; Provisional; Region: PRK06175 314282000307 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 314282000308 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 314282000309 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314282000310 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 314282000311 DNA binding residues [nucleotide binding] 314282000312 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 314282000313 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 314282000314 anti-sigma E factor; Provisional; Region: rseB; PRK09455 314282000315 MucB/RseB family; Region: MucB_RseB; pfam03888 314282000316 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 314282000317 Beta protein; Region: Beta_protein; pfam14350 314282000318 Domain of unknown function (DUF955); Region: DUF955; pfam06114 314282000319 Virulence protein [General function prediction only]; Region: COG3943 314282000320 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 314282000321 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 314282000322 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; cl17915 314282000323 active site 314282000324 motif I; other site 314282000325 motif II; other site 314282000326 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314282000327 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 314282000328 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 314282000329 Walker A/P-loop; other site 314282000330 ATP binding site [chemical binding]; other site 314282000331 Q-loop/lid; other site 314282000332 ABC transporter signature motif; other site 314282000333 Walker B; other site 314282000334 D-loop; other site 314282000335 H-loop/switch region; other site 314282000336 TOBE domain; Region: TOBE_2; pfam08402 314282000337 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 314282000338 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 314282000339 dimer interface [polypeptide binding]; other site 314282000340 conserved gate region; other site 314282000341 putative PBP binding loops; other site 314282000342 ABC-ATPase subunit interface; other site 314282000343 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 314282000344 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 314282000345 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 314282000346 dimer interface [polypeptide binding]; other site 314282000347 conserved gate region; other site 314282000348 putative PBP binding loops; other site 314282000349 ABC-ATPase subunit interface; other site 314282000350 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 314282000351 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 314282000352 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 314282000353 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 314282000354 putative active site [active] 314282000355 catalytic site [active] 314282000356 putative metal binding site [ion binding]; other site 314282000357 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 314282000358 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 314282000359 active site 314282000360 phosphorylation site [posttranslational modification] 314282000361 intermolecular recognition site; other site 314282000362 dimerization interface [polypeptide binding]; other site 314282000363 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 314282000364 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314282000365 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 314282000366 HAMP domain; Region: HAMP; pfam00672 314282000367 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 314282000368 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 314282000369 dimer interface [polypeptide binding]; other site 314282000370 phosphorylation site [posttranslational modification] 314282000371 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 314282000372 ATP binding site [chemical binding]; other site 314282000373 Mg2+ binding site [ion binding]; other site 314282000374 G-X-G motif; other site 314282000375 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 314282000376 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 314282000377 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 314282000378 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 314282000379 putative substrate translocation pore; other site 314282000380 pyruvate kinase; Provisional; Region: PRK05826 314282000381 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 314282000382 domain interfaces; other site 314282000383 active site 314282000384 Predicted membrane protein [Function unknown]; Region: COG1288 314282000385 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 314282000386 hypothetical protein; Provisional; Region: PRK10977 314282000387 Pyruvate formate lyase; Region: PFL; pfam02901 314282000388 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 314282000389 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 314282000390 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 314282000391 FeS/SAM binding site; other site 314282000392 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314282000393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282000394 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 314282000395 substrate binding pocket [chemical binding]; other site 314282000396 dimerization interface [polypeptide binding]; other site 314282000397 DctM-like transporters; Region: DctM; pfam06808 314282000398 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 314282000399 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 314282000400 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 314282000401 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 314282000402 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 314282000403 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 314282000404 Bacterial transcriptional regulator; Region: IclR; pfam01614 314282000405 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 314282000406 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 314282000407 NADP binding site [chemical binding]; other site 314282000408 homodimer interface [polypeptide binding]; other site 314282000409 active site 314282000410 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 314282000411 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314282000412 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 314282000413 substrate binding site [chemical binding]; other site 314282000414 ATP binding site [chemical binding]; other site 314282000415 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 314282000416 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 314282000417 active site 314282000418 intersubunit interface [polypeptide binding]; other site 314282000419 catalytic residue [active] 314282000420 Domain of unknown function (DUF386); Region: DUF386; cl01047 314282000421 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 314282000422 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 314282000423 domain interfaces; other site 314282000424 active site 314282000425 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 314282000426 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 314282000427 active site 314282000428 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 314282000429 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 314282000430 HemY protein N-terminus; Region: HemY_N; pfam07219 314282000431 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 314282000432 Predicted permease; Region: DUF318; cl17795 314282000433 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 314282000434 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 314282000435 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 314282000436 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 314282000437 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 314282000438 DsbD alpha interface [polypeptide binding]; other site 314282000439 catalytic residues [active] 314282000440 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 314282000441 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 314282000442 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 314282000443 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 314282000444 molybdopterin cofactor binding site [chemical binding]; other site 314282000445 substrate binding site [chemical binding]; other site 314282000446 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 314282000447 molybdopterin cofactor binding site; other site 314282000448 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 314282000449 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 314282000450 Dihaem cytochrome c; Region: DHC; pfam09626 314282000451 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 314282000452 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 314282000453 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 314282000454 AIR carboxylase; Region: AIRC; pfam00731 314282000455 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314282000456 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314282000457 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314282000458 Protein of unknown function (DUF494); Region: DUF494; pfam04361 314282000459 DNA protecting protein DprA; Region: dprA; TIGR00732 314282000460 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 314282000461 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 314282000462 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282000463 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 314282000464 active site 314282000465 catalytic residues [active] 314282000466 metal binding site [ion binding]; metal-binding site 314282000467 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 314282000468 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 314282000469 putative active site [active] 314282000470 substrate binding site [chemical binding]; other site 314282000471 putative cosubstrate binding site; other site 314282000472 catalytic site [active] 314282000473 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 314282000474 substrate binding site [chemical binding]; other site 314282000475 16S rRNA methyltransferase B; Provisional; Region: PRK10901 314282000476 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 314282000477 putative RNA binding site [nucleotide binding]; other site 314282000478 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 314282000479 S-adenosylmethionine binding site [chemical binding]; other site 314282000480 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 314282000481 TrkA-N domain; Region: TrkA_N; pfam02254 314282000482 TrkA-C domain; Region: TrkA_C; pfam02080 314282000483 TrkA-N domain; Region: TrkA_N; pfam02254 314282000484 TrkA-C domain; Region: TrkA_C; pfam02080 314282000485 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 314282000486 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 314282000487 RmuC family; Region: RmuC; pfam02646 314282000488 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 314282000489 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 314282000490 glutaminase active site [active] 314282000491 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 314282000492 dimer interface [polypeptide binding]; other site 314282000493 active site 314282000494 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 314282000495 dimer interface [polypeptide binding]; other site 314282000496 active site 314282000497 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 314282000498 AMP binding site [chemical binding]; other site 314282000499 metal binding site [ion binding]; metal-binding site 314282000500 active site 314282000501 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 314282000502 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 314282000503 motif II; other site 314282000504 nitrite reductase subunit NirD; Provisional; Region: PRK14989 314282000505 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314282000506 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 314282000507 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 314282000508 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 314282000509 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 314282000510 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 314282000511 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 314282000512 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 314282000513 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 314282000514 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 314282000515 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 314282000516 catalytic site [active] 314282000517 G-X2-G-X-G-K; other site 314282000518 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314282000519 active site 314282000520 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314282000521 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314282000522 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 314282000523 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 314282000524 active site 314282000525 substrate-binding site [chemical binding]; other site 314282000526 metal-binding site [ion binding] 314282000527 ATP binding site [chemical binding]; other site 314282000528 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 314282000529 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 314282000530 dimerization interface [polypeptide binding]; other site 314282000531 domain crossover interface; other site 314282000532 redox-dependent activation switch; other site 314282000533 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 314282000534 RNA binding surface [nucleotide binding]; other site 314282000535 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 314282000536 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 314282000537 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 314282000538 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314282000539 ApbE family; Region: ApbE; pfam02424 314282000540 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 314282000541 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 314282000542 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 314282000543 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314282000544 catalytic residues [active] 314282000545 von Willebrand factor type A domain; Region: VWA_2; pfam13519 314282000546 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 314282000547 TadE-like protein; Region: TadE; pfam07811 314282000548 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 314282000549 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 314282000550 binding surface 314282000551 TPR motif; other site 314282000552 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 314282000553 binding surface 314282000554 TPR motif; other site 314282000555 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 314282000556 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314282000557 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 314282000558 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314282000559 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 314282000560 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 314282000561 ATP binding site [chemical binding]; other site 314282000562 Walker A motif; other site 314282000563 hexamer interface [polypeptide binding]; other site 314282000564 Walker B motif; other site 314282000565 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314282000566 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 314282000567 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 314282000568 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 314282000569 G3 box; other site 314282000570 Switch II region; other site 314282000571 G4 box; other site 314282000572 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 314282000573 Type IV pili component [Cell motility and secretion]; Region: COG5461 314282000574 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 314282000575 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 314282000576 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 314282000577 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 314282000578 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 314282000579 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 314282000580 type II secretion system protein D; Region: type_II_gspD; TIGR02517 314282000581 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314282000582 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314282000583 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314282000584 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 314282000585 type II secretion system protein E; Region: type_II_gspE; TIGR02533 314282000586 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 314282000587 Walker A motif; other site 314282000588 ATP binding site [chemical binding]; other site 314282000589 Walker B motif; other site 314282000590 type II secretion system protein F; Region: GspF; TIGR02120 314282000591 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314282000592 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314282000593 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 314282000594 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 314282000595 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 314282000596 Type II transport protein GspH; Region: GspH; pfam12019 314282000597 type II secretion system protein I; Region: gspI; TIGR01707 314282000598 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 314282000599 type II secretion system protein J; Region: gspJ; TIGR01711 314282000600 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 314282000601 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 314282000602 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 314282000603 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 314282000604 GspL periplasmic domain; Region: GspL_C; cl14909 314282000605 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 314282000606 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 314282000607 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 314282000608 LexA repressor; Validated; Region: PRK00215 314282000609 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 314282000610 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 314282000611 Catalytic site [active] 314282000612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314282000613 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314282000614 Coenzyme A binding pocket [chemical binding]; other site 314282000615 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 314282000616 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 314282000617 active site 314282000618 phosphorylation site [posttranslational modification] 314282000619 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 314282000620 active site 314282000621 P-loop; other site 314282000622 phosphorylation site [posttranslational modification] 314282000623 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 314282000624 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 314282000625 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 314282000626 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 314282000627 Cupin domain; Region: Cupin_2; cl17218 314282000628 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 314282000629 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 314282000630 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 314282000631 regulatory protein interface [polypeptide binding]; other site 314282000632 regulatory phosphorylation site [posttranslational modification]; other site 314282000633 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 314282000634 active site 314282000635 phosphorylation site [posttranslational modification] 314282000636 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 314282000637 active site 314282000638 P-loop; other site 314282000639 phosphorylation site [posttranslational modification] 314282000640 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 314282000641 active site 314282000642 phosphorylation site [posttranslational modification] 314282000643 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 314282000644 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 314282000645 active site 314282000646 P-loop; other site 314282000647 phosphorylation site [posttranslational modification] 314282000648 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 314282000649 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 314282000650 ATP binding site [chemical binding]; other site 314282000651 putative Mg++ binding site [ion binding]; other site 314282000652 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 314282000653 nucleotide binding region [chemical binding]; other site 314282000654 ATP-binding site [chemical binding]; other site 314282000655 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314282000656 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 314282000657 putative acyl-acceptor binding pocket; other site 314282000658 Esterase/lipase [General function prediction only]; Region: COG1647 314282000659 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282000660 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282000661 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 314282000662 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282000663 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282000664 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 314282000665 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282000666 ligand binding site [chemical binding]; other site 314282000667 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 314282000668 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 314282000669 RNA binding surface [nucleotide binding]; other site 314282000670 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 314282000671 active site 314282000672 uracil binding [chemical binding]; other site 314282000673 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 314282000674 Helicase; Region: Helicase_RecD; pfam05127 314282000675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314282000676 Coenzyme A binding pocket [chemical binding]; other site 314282000677 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 314282000678 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 314282000679 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 314282000680 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 314282000681 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 314282000682 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 314282000683 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 314282000684 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 314282000685 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 314282000686 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 314282000687 putative translocon binding site; other site 314282000688 protein-rRNA interface [nucleotide binding]; other site 314282000689 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 314282000690 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 314282000691 G-X-X-G motif; other site 314282000692 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 314282000693 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 314282000694 23S rRNA interface [nucleotide binding]; other site 314282000695 5S rRNA interface [nucleotide binding]; other site 314282000696 putative antibiotic binding site [chemical binding]; other site 314282000697 L25 interface [polypeptide binding]; other site 314282000698 L27 interface [polypeptide binding]; other site 314282000699 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 314282000700 23S rRNA interface [nucleotide binding]; other site 314282000701 putative translocon interaction site; other site 314282000702 signal recognition particle (SRP54) interaction site; other site 314282000703 L23 interface [polypeptide binding]; other site 314282000704 trigger factor interaction site; other site 314282000705 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 314282000706 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 314282000707 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 314282000708 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 314282000709 RNA binding site [nucleotide binding]; other site 314282000710 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 314282000711 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 314282000712 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 314282000713 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 314282000714 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 314282000715 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 314282000716 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 314282000717 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 314282000718 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 314282000719 5S rRNA interface [nucleotide binding]; other site 314282000720 L5 interface [polypeptide binding]; other site 314282000721 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 314282000722 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 314282000723 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 314282000724 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 314282000725 23S rRNA binding site [nucleotide binding]; other site 314282000726 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 314282000727 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 314282000728 SecY translocase; Region: SecY; pfam00344 314282000729 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 314282000730 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 314282000731 30S ribosomal protein S13; Region: bact_S13; TIGR03631 314282000732 30S ribosomal protein S11; Validated; Region: PRK05309 314282000733 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 314282000734 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 314282000735 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 314282000736 RNA binding surface [nucleotide binding]; other site 314282000737 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 314282000738 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 314282000739 alphaNTD homodimer interface [polypeptide binding]; other site 314282000740 alphaNTD - beta interaction site [polypeptide binding]; other site 314282000741 alphaNTD - beta' interaction site [polypeptide binding]; other site 314282000742 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 314282000743 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 314282000744 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 314282000745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282000746 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 314282000747 dimerization interface [polypeptide binding]; other site 314282000748 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 314282000749 Na binding site [ion binding]; other site 314282000750 Superinfection exclusion protein B; Region: SieB; pfam14163 314282000751 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 314282000752 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314282000753 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 314282000754 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 314282000755 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 314282000756 G1 box; other site 314282000757 GTP/Mg2+ binding site [chemical binding]; other site 314282000758 G2 box; other site 314282000759 Switch I region; other site 314282000760 G3 box; other site 314282000761 Switch II region; other site 314282000762 G4 box; other site 314282000763 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 314282000764 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 314282000765 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314282000766 DNA binding site [nucleotide binding] 314282000767 domain linker motif; other site 314282000768 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 314282000769 dimerization interface [polypeptide binding]; other site 314282000770 ligand binding site [chemical binding]; other site 314282000771 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 314282000772 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 314282000773 active site 314282000774 phosphorylation site [posttranslational modification] 314282000775 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 314282000776 dimerization domain swap beta strand [polypeptide binding]; other site 314282000777 regulatory protein interface [polypeptide binding]; other site 314282000778 active site 314282000779 regulatory phosphorylation site [posttranslational modification]; other site 314282000780 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 314282000781 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 314282000782 putative substrate binding site [chemical binding]; other site 314282000783 putative ATP binding site [chemical binding]; other site 314282000784 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 314282000785 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 314282000786 active site 314282000787 P-loop; other site 314282000788 phosphorylation site [posttranslational modification] 314282000789 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 314282000790 active site 314282000791 P-loop; other site 314282000792 phosphorylation site [posttranslational modification] 314282000793 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 314282000794 hybrid cluster protein; Provisional; Region: PRK05290 314282000795 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 314282000796 ACS interaction site; other site 314282000797 CODH interaction site; other site 314282000798 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 314282000799 hybrid metal cluster; other site 314282000800 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 314282000801 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 314282000802 FAD binding pocket [chemical binding]; other site 314282000803 FAD binding motif [chemical binding]; other site 314282000804 phosphate binding motif [ion binding]; other site 314282000805 beta-alpha-beta structure motif; other site 314282000806 NAD binding pocket [chemical binding]; other site 314282000807 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 314282000808 catalytic loop [active] 314282000809 iron binding site [ion binding]; other site 314282000810 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 314282000811 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 314282000812 ssDNA binding site; other site 314282000813 generic binding surface II; other site 314282000814 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 314282000815 ATP binding site [chemical binding]; other site 314282000816 putative Mg++ binding site [ion binding]; other site 314282000817 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 314282000818 nucleotide binding region [chemical binding]; other site 314282000819 ATP-binding site [chemical binding]; other site 314282000820 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 314282000821 Na binding site [ion binding]; other site 314282000822 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 314282000823 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 314282000824 active site 314282000825 phosphorylation site [posttranslational modification] 314282000826 intermolecular recognition site; other site 314282000827 dimerization interface [polypeptide binding]; other site 314282000828 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 314282000829 Walker A motif; other site 314282000830 ATP binding site [chemical binding]; other site 314282000831 Walker B motif; other site 314282000832 arginine finger; other site 314282000833 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314282000834 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 314282000835 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 314282000836 dimer interface [polypeptide binding]; other site 314282000837 phosphorylation site [posttranslational modification] 314282000838 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 314282000839 ATP binding site [chemical binding]; other site 314282000840 Mg2+ binding site [ion binding]; other site 314282000841 G-X-G motif; other site 314282000842 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 314282000843 glutamine synthetase; Provisional; Region: glnA; PRK09469 314282000844 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 314282000845 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 314282000846 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 314282000847 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 314282000848 G1 box; other site 314282000849 putative GEF interaction site [polypeptide binding]; other site 314282000850 GTP/Mg2+ binding site [chemical binding]; other site 314282000851 Switch I region; other site 314282000852 G2 box; other site 314282000853 G3 box; other site 314282000854 Switch II region; other site 314282000855 G4 box; other site 314282000856 G5 box; other site 314282000857 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 314282000858 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 314282000859 outer membrane protein A; Reviewed; Region: PRK10808 314282000860 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 314282000861 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282000862 ligand binding site [chemical binding]; other site 314282000863 hypothetical protein; Reviewed; Region: PRK01637 314282000864 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 314282000865 putative active site [active] 314282000866 dimerization interface [polypeptide binding]; other site 314282000867 putative tRNAtyr binding site [nucleotide binding]; other site 314282000868 protease3; Provisional; Region: PRK15101 314282000869 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314282000870 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314282000871 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314282000872 ribonuclease PH; Reviewed; Region: rph; PRK00173 314282000873 Ribonuclease PH; Region: RNase_PH_bact; cd11362 314282000874 hexamer interface [polypeptide binding]; other site 314282000875 active site 314282000876 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314282000877 active site 314282000878 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u8; cd10932 314282000879 NodB motif; other site 314282000880 putative active site [active] 314282000881 putative catalytic site [active] 314282000882 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 314282000883 binding surface 314282000884 TPR motif; other site 314282000885 Tetratricopeptide repeat; Region: TPR_16; pfam13432 314282000886 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 314282000887 TPR motif; other site 314282000888 binding surface 314282000889 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 314282000890 binding surface 314282000891 TPR motif; other site 314282000892 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 314282000893 binding surface 314282000894 TPR motif; other site 314282000895 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 314282000896 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 314282000897 active site 314282000898 phosphorylation site [posttranslational modification] 314282000899 intermolecular recognition site; other site 314282000900 dimerization interface [polypeptide binding]; other site 314282000901 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 314282000902 Walker A motif; other site 314282000903 ATP binding site [chemical binding]; other site 314282000904 Walker B motif; other site 314282000905 arginine finger; other site 314282000906 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314282000907 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 314282000908 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 314282000909 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 314282000910 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 314282000911 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 314282000912 SLBB domain; Region: SLBB; pfam10531 314282000913 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 314282000914 GAF domain; Region: GAF_3; pfam13492 314282000915 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 314282000916 ATP binding site [chemical binding]; other site 314282000917 Mg2+ binding site [ion binding]; other site 314282000918 G-X-G motif; other site 314282000919 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 314282000920 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314282000921 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 314282000922 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 314282000923 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 314282000924 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 314282000925 active site 314282000926 homodimer interface [polypeptide binding]; other site 314282000927 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 314282000928 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 314282000929 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 314282000930 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 314282000931 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 314282000932 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 314282000933 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 314282000934 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 314282000935 putative active site [active] 314282000936 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314282000937 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 314282000938 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 314282000939 S-adenosylmethionine binding site [chemical binding]; other site 314282000940 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 314282000941 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314282000942 putative ADP-binding pocket [chemical binding]; other site 314282000943 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 314282000944 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 314282000945 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 314282000946 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 314282000947 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 314282000948 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314282000949 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 314282000950 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 314282000951 O-Antigen ligase; Region: Wzy_C; pfam04932 314282000952 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 314282000953 Right handed beta helix region; Region: Beta_helix; pfam13229 314282000954 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 314282000955 Bacterial sugar transferase; Region: Bac_transf; pfam02397 314282000956 multidrug efflux protein; Reviewed; Region: PRK09579 314282000957 Protein export membrane protein; Region: SecD_SecF; cl14618 314282000958 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314282000959 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314282000960 HlyD family secretion protein; Region: HlyD_3; pfam13437 314282000961 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314282000962 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314282000963 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 314282000964 Part of AAA domain; Region: AAA_19; pfam13245 314282000965 Family description; Region: UvrD_C_2; pfam13538 314282000966 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 314282000967 catalytic triad [active] 314282000968 dimer interface [polypeptide binding]; other site 314282000969 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314282000970 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 314282000971 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314282000972 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314282000973 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 314282000974 UbiA prenyltransferase family; Region: UbiA; pfam01040 314282000975 Chorismate lyase; Region: Chor_lyase; cl01230 314282000976 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 314282000977 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 314282000978 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 314282000979 RimM N-terminal domain; Region: RimM; pfam01782 314282000980 PRC-barrel domain; Region: PRC; pfam05239 314282000981 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 314282000982 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 314282000983 Protein of unknown function (DUF454); Region: DUF454; cl01063 314282000984 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314282000985 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 314282000986 ligand binding site [chemical binding]; other site 314282000987 flexible hinge region; other site 314282000988 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 314282000989 phosphorylation site [posttranslational modification] 314282000990 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314282000991 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 314282000992 ATP binding site [chemical binding]; other site 314282000993 Mg2+ binding site [ion binding]; other site 314282000994 G-X-G motif; other site 314282000995 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 314282000996 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 314282000997 putative ribose interaction site [chemical binding]; other site 314282000998 putative ADP binding site [chemical binding]; other site 314282000999 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 314282001000 active site 314282001001 nucleotide binding site [chemical binding]; other site 314282001002 HIGH motif; other site 314282001003 KMSKS motif; other site 314282001004 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 314282001005 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 314282001006 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 314282001007 dimer interface [polypeptide binding]; other site 314282001008 ADP-ribose binding site [chemical binding]; other site 314282001009 active site 314282001010 nudix motif; other site 314282001011 metal binding site [ion binding]; metal-binding site 314282001012 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 314282001013 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 314282001014 active site 314282001015 metal binding site [ion binding]; metal-binding site 314282001016 hexamer interface [polypeptide binding]; other site 314282001017 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 314282001018 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314282001019 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 314282001020 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 314282001021 ATP binding site [chemical binding]; other site 314282001022 Mg2+ binding site [ion binding]; other site 314282001023 G-X-G motif; other site 314282001024 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 314282001025 anchoring element; other site 314282001026 dimer interface [polypeptide binding]; other site 314282001027 ATP binding site [chemical binding]; other site 314282001028 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 314282001029 active site 314282001030 metal binding site [ion binding]; metal-binding site 314282001031 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 314282001032 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 314282001033 active site 314282001034 multimer interface [polypeptide binding]; other site 314282001035 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 314282001036 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 314282001037 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 314282001038 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 314282001039 nucleoside/Zn binding site; other site 314282001040 dimer interface [polypeptide binding]; other site 314282001041 catalytic motif [active] 314282001042 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 314282001043 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 314282001044 substrate binding pocket [chemical binding]; other site 314282001045 membrane-bound complex binding site; other site 314282001046 hinge residues; other site 314282001047 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 314282001048 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314282001049 catalytic residue [active] 314282001050 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 314282001051 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 314282001052 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 314282001053 dimerization interface [polypeptide binding]; other site 314282001054 ATP binding site [chemical binding]; other site 314282001055 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 314282001056 dimerization interface [polypeptide binding]; other site 314282001057 ATP binding site [chemical binding]; other site 314282001058 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 314282001059 putative active site [active] 314282001060 catalytic triad [active] 314282001061 HemN family oxidoreductase; Provisional; Region: PRK05660 314282001062 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 314282001063 FeS/SAM binding site; other site 314282001064 HemN C-terminal domain; Region: HemN_C; pfam06969 314282001065 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 314282001066 active site 314282001067 dimerization interface [polypeptide binding]; other site 314282001068 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 314282001069 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 314282001070 YGGT family; Region: YGGT; pfam02325 314282001071 YGGT family; Region: YGGT; pfam02325 314282001072 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 314282001073 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 314282001074 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 314282001075 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314282001076 catalytic residue [active] 314282001077 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 314282001078 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 314282001079 Walker A motif; other site 314282001080 ATP binding site [chemical binding]; other site 314282001081 Walker B motif; other site 314282001082 hypothetical protein; Validated; Region: PRK02101 314282001083 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314282001084 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 314282001085 ATP binding site [chemical binding]; other site 314282001086 Mg++ binding site [ion binding]; other site 314282001087 motif III; other site 314282001088 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 314282001089 nucleotide binding region [chemical binding]; other site 314282001090 ATP-binding site [chemical binding]; other site 314282001091 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 314282001092 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 314282001093 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 314282001094 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 314282001095 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 314282001096 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 314282001097 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 314282001098 Walker A/P-loop; other site 314282001099 ATP binding site [chemical binding]; other site 314282001100 Q-loop/lid; other site 314282001101 ABC transporter signature motif; other site 314282001102 Walker B; other site 314282001103 D-loop; other site 314282001104 H-loop/switch region; other site 314282001105 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 314282001106 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 314282001107 ABC-ATPase subunit interface; other site 314282001108 dimer interface [polypeptide binding]; other site 314282001109 putative PBP binding regions; other site 314282001110 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 314282001111 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 314282001112 intersubunit interface [polypeptide binding]; other site 314282001113 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 314282001114 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 314282001115 N-terminal plug; other site 314282001116 ligand-binding site [chemical binding]; other site 314282001117 Ion channel; Region: Ion_trans_2; pfam07885 314282001118 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 314282001119 GTPase RsgA; Reviewed; Region: PRK12288 314282001120 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 314282001121 RNA binding site [nucleotide binding]; other site 314282001122 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 314282001123 GTPase/Zn-binding domain interface [polypeptide binding]; other site 314282001124 GTP/Mg2+ binding site [chemical binding]; other site 314282001125 G4 box; other site 314282001126 G5 box; other site 314282001127 G1 box; other site 314282001128 Switch I region; other site 314282001129 G2 box; other site 314282001130 G3 box; other site 314282001131 Switch II region; other site 314282001132 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 314282001133 catalytic site [active] 314282001134 putative active site [active] 314282001135 putative substrate binding site [chemical binding]; other site 314282001136 dimer interface [polypeptide binding]; other site 314282001137 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 314282001138 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 314282001139 NAD binding site [chemical binding]; other site 314282001140 homodimer interface [polypeptide binding]; other site 314282001141 active site 314282001142 substrate binding site [chemical binding]; other site 314282001143 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 314282001144 CPxP motif; other site 314282001145 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 314282001146 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 314282001147 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 314282001148 HAMP domain; Region: HAMP; pfam00672 314282001149 dimerization interface [polypeptide binding]; other site 314282001150 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282001151 dimer interface [polypeptide binding]; other site 314282001152 putative CheW interface [polypeptide binding]; other site 314282001153 argininosuccinate synthase; Provisional; Region: PRK13820 314282001154 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 314282001155 ANP binding site [chemical binding]; other site 314282001156 Substrate Binding Site II [chemical binding]; other site 314282001157 Substrate Binding Site I [chemical binding]; other site 314282001158 argininosuccinate lyase; Provisional; Region: PRK04833 314282001159 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 314282001160 active sites [active] 314282001161 tetramer interface [polypeptide binding]; other site 314282001162 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 314282001163 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 314282001164 trimer interface [polypeptide binding]; other site 314282001165 putative metal binding site [ion binding]; other site 314282001166 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 314282001167 exopolyphosphatase; Region: exo_poly_only; TIGR03706 314282001168 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 314282001169 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 314282001170 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 314282001171 ATP binding site [chemical binding]; other site 314282001172 Mg++ binding site [ion binding]; other site 314282001173 motif III; other site 314282001174 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 314282001175 nucleotide binding region [chemical binding]; other site 314282001176 ATP-binding site [chemical binding]; other site 314282001177 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 314282001178 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 314282001179 putative substrate translocation pore; other site 314282001180 MarR family; Region: MarR_2; cl17246 314282001181 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314282001182 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 314282001183 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314282001184 catalytic residues [active] 314282001185 transcription termination factor Rho; Provisional; Region: rho; PRK09376 314282001186 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 314282001187 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 314282001188 RNA binding site [nucleotide binding]; other site 314282001189 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 314282001190 multimer interface [polypeptide binding]; other site 314282001191 Walker A motif; other site 314282001192 ATP binding site [chemical binding]; other site 314282001193 Walker B motif; other site 314282001194 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 314282001195 FMN reductase; Validated; Region: fre; PRK08051 314282001196 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 314282001197 FAD binding pocket [chemical binding]; other site 314282001198 FAD binding motif [chemical binding]; other site 314282001199 phosphate binding motif [ion binding]; other site 314282001200 beta-alpha-beta structure motif; other site 314282001201 NAD binding pocket [chemical binding]; other site 314282001202 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314282001203 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 314282001204 putative acyl-acceptor binding pocket; other site 314282001205 DNA polymerase I; Provisional; Region: PRK05755 314282001206 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 314282001207 active site 314282001208 metal binding site 1 [ion binding]; metal-binding site 314282001209 putative 5' ssDNA interaction site; other site 314282001210 metal binding site 3; metal-binding site 314282001211 metal binding site 2 [ion binding]; metal-binding site 314282001212 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 314282001213 putative DNA binding site [nucleotide binding]; other site 314282001214 putative metal binding site [ion binding]; other site 314282001215 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 314282001216 active site 314282001217 catalytic site [active] 314282001218 substrate binding site [chemical binding]; other site 314282001219 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 314282001220 active site 314282001221 DNA binding site [nucleotide binding] 314282001222 catalytic site [active] 314282001223 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 314282001224 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 314282001225 ligand binding site [chemical binding]; other site 314282001226 flexible hinge region; other site 314282001227 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 314282001228 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314282001229 metal binding triad; other site 314282001230 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 314282001231 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 314282001232 active site 314282001233 catalytic site [active] 314282001234 substrate binding site [chemical binding]; other site 314282001235 BCCT family transporter; Region: BCCT; pfam02028 314282001236 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 314282001237 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 314282001238 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 314282001239 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 314282001240 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 314282001241 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 314282001242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314282001243 Coenzyme A binding pocket [chemical binding]; other site 314282001244 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 314282001245 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314282001246 hypothetical protein; Provisional; Region: PRK04860 314282001247 SprT homologues; Region: SprT; cl01182 314282001248 S-adenosylmethionine synthetase; Validated; Region: PRK05250 314282001249 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 314282001250 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 314282001251 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 314282001252 putative peptidase; Provisional; Region: PRK11649 314282001253 Peptidase family M23; Region: Peptidase_M23; pfam01551 314282001254 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 314282001255 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 314282001256 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 314282001257 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 314282001258 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 314282001259 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 314282001260 putative NADH binding site [chemical binding]; other site 314282001261 putative active site [active] 314282001262 nudix motif; other site 314282001263 putative metal binding site [ion binding]; other site 314282001264 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 314282001265 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 314282001266 substrate binding site [chemical binding]; other site 314282001267 active site 314282001268 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 314282001269 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 314282001270 purine monophosphate binding site [chemical binding]; other site 314282001271 dimer interface [polypeptide binding]; other site 314282001272 putative catalytic residues [active] 314282001273 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 314282001274 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 314282001275 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 314282001276 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 314282001277 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 314282001278 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 314282001279 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 314282001280 IHF dimer interface [polypeptide binding]; other site 314282001281 IHF - DNA interface [nucleotide binding]; other site 314282001282 Protein of unknown function (DUF416); Region: DUF416; pfam04222 314282001283 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 314282001284 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 314282001285 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 314282001286 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 314282001287 FMN binding site [chemical binding]; other site 314282001288 active site 314282001289 catalytic residues [active] 314282001290 substrate binding site [chemical binding]; other site 314282001291 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 314282001292 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 314282001293 S-adenosylmethionine binding site [chemical binding]; other site 314282001294 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 314282001295 Dehydroquinase class II; Region: DHquinase_II; pfam01220 314282001296 active site 314282001297 trimer interface [polypeptide binding]; other site 314282001298 dimer interface [polypeptide binding]; other site 314282001299 PilX N-terminal; Region: PilX_N; pfam14341 314282001300 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 314282001301 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 314282001302 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 314282001303 DctM-like transporters; Region: DctM; pfam06808 314282001304 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 314282001305 SlyX; Region: SlyX; pfam04102 314282001306 FOG: WD40 repeat [General function prediction only]; Region: COG2319 314282001307 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 314282001308 structural tetrad; other site 314282001309 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 314282001310 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 314282001311 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 314282001312 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314282001313 HI0933-like protein; Region: HI0933_like; pfam03486 314282001314 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 314282001315 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 314282001316 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 314282001317 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 314282001318 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 314282001319 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 314282001320 Glutamate binding site [chemical binding]; other site 314282001321 NAD binding site [chemical binding]; other site 314282001322 catalytic residues [active] 314282001323 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 314282001324 NAD(P) binding site [chemical binding]; other site 314282001325 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 314282001326 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 314282001327 Na binding site [ion binding]; other site 314282001328 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 314282001329 active site 314282001330 metal binding site [ion binding]; metal-binding site 314282001331 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314282001332 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 314282001333 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 314282001334 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 314282001335 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 314282001336 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 314282001337 putative catalytic cysteine [active] 314282001338 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 314282001339 putative active site [active] 314282001340 metal binding site [ion binding]; metal-binding site 314282001341 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 314282001342 Domain of unknown function DUF20; Region: UPF0118; pfam01594 314282001343 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 314282001344 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 314282001345 S-adenosylmethionine binding site [chemical binding]; other site 314282001346 phosphate acetyltransferase; Reviewed; Region: PRK05632 314282001347 DRTGG domain; Region: DRTGG; pfam07085 314282001348 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 314282001349 propionate/acetate kinase; Provisional; Region: PRK12379 314282001350 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 314282001351 Protein of unknown function, DUF412; Region: DUF412; pfam04217 314282001352 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 314282001353 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 314282001354 S-adenosylmethionine binding site [chemical binding]; other site 314282001355 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 314282001356 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 314282001357 FeS/SAM binding site; other site 314282001358 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 314282001359 Pyruvate formate lyase 1; Region: PFL1; cd01678 314282001360 coenzyme A binding site [chemical binding]; other site 314282001361 active site 314282001362 catalytic residues [active] 314282001363 glycine loop; other site 314282001364 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 314282001365 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 314282001366 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 314282001367 active site 314282001368 Int/Topo IB signature motif; other site 314282001369 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 314282001370 Radical SAM superfamily; Region: Radical_SAM; pfam04055 314282001371 FeS/SAM binding site; other site 314282001372 elongation factor P; Validated; Region: PRK00529 314282001373 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 314282001374 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 314282001375 RNA binding site [nucleotide binding]; other site 314282001376 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 314282001377 RNA binding site [nucleotide binding]; other site 314282001378 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; 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:quinine...; Region: QFR_TypeD_subunitD; cd00547 314282001379 Iron-sulfur protein interface; other site 314282001380 proximal quinone binding site [chemical binding]; other site 314282001381 C-subunit interface; other site 314282001382 distal quinone binding site; other site 314282001383 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; 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:quinine...; Region: QFR_TypeD_subunitC; cd00546 314282001384 D-subunit interface [polypeptide binding]; other site 314282001385 Iron-sulfur protein interface; other site 314282001386 proximal quinone binding site [chemical binding]; other site 314282001387 distal quinone binding site [chemical binding]; other site 314282001388 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 314282001389 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 314282001390 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 314282001391 L-aspartate oxidase; Provisional; Region: PRK06175 314282001392 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 314282001393 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 314282001394 poxB regulator PoxA; Provisional; Region: PRK09350 314282001395 motif 1; other site 314282001396 dimer interface [polypeptide binding]; other site 314282001397 active site 314282001398 motif 2; other site 314282001399 motif 3; other site 314282001400 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 314282001401 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 314282001402 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 314282001403 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 314282001404 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 314282001405 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 314282001406 active site 314282001407 Riboflavin kinase; Region: Flavokinase; smart00904 314282001408 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 314282001409 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314282001410 active site 314282001411 HIGH motif; other site 314282001412 nucleotide binding site [chemical binding]; other site 314282001413 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314282001414 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 314282001415 active site 314282001416 KMSKS motif; other site 314282001417 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 314282001418 tRNA binding surface [nucleotide binding]; other site 314282001419 anticodon binding site; other site 314282001420 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 314282001421 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 314282001422 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314282001423 Dehydratase family; Region: ILVD_EDD; cl00340 314282001424 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 314282001425 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 314282001426 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 314282001427 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 314282001428 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 314282001429 PilX N-terminal; Region: PilX_N; pfam14341 314282001430 von Willebrand factor type A domain; Region: VWA_2; pfam13519 314282001431 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 314282001432 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 314282001433 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 314282001434 Type II transport protein GspH; Region: GspH; pfam12019 314282001435 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 314282001436 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 314282001437 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 314282001438 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 314282001439 Nitrogen regulatory protein P-II; Region: P-II; smart00938 314282001440 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 314282001441 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 314282001442 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 314282001443 RNA binding surface [nucleotide binding]; other site 314282001444 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314282001445 active site 314282001446 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 314282001447 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 314282001448 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 314282001449 Clp amino terminal domain; Region: Clp_N; pfam02861 314282001450 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 314282001451 Walker A motif; other site 314282001452 ATP binding site [chemical binding]; other site 314282001453 Walker B motif; other site 314282001454 arginine finger; other site 314282001455 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 314282001456 Walker A motif; other site 314282001457 ATP binding site [chemical binding]; other site 314282001458 Walker B motif; other site 314282001459 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 314282001460 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 314282001461 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282001462 Walker A/P-loop; other site 314282001463 ATP binding site [chemical binding]; other site 314282001464 Q-loop/lid; other site 314282001465 ABC transporter signature motif; other site 314282001466 Walker B; other site 314282001467 D-loop; other site 314282001468 H-loop/switch region; other site 314282001469 ABC transporter; Region: ABC_tran_2; pfam12848 314282001470 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314282001471 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 314282001472 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314282001473 ATP binding site [chemical binding]; other site 314282001474 Mg++ binding site [ion binding]; other site 314282001475 motif III; other site 314282001476 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 314282001477 nucleotide binding region [chemical binding]; other site 314282001478 ATP-binding site [chemical binding]; other site 314282001479 Uncharacterized conserved protein [Function unknown]; Region: COG1432 314282001480 LabA_like proteins; Region: LabA; cd10911 314282001481 putative metal binding site [ion binding]; other site 314282001482 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 314282001483 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 314282001484 Sugar specificity; other site 314282001485 Pyrimidine base specificity; other site 314282001486 ATP-binding site [chemical binding]; other site 314282001487 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 314282001488 aromatic amino acid transport protein; Region: araaP; TIGR00837 314282001489 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 314282001490 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 314282001491 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314282001492 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 314282001493 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 314282001494 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 314282001495 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 314282001496 epoxyqueuosine reductase; Region: TIGR00276 314282001497 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 314282001498 4Fe-4S binding domain; Region: Fer4; pfam00037 314282001499 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 314282001500 AMIN domain; Region: AMIN; pfam11741 314282001501 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 314282001502 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 314282001503 active site 314282001504 metal binding site [ion binding]; metal-binding site 314282001505 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282001506 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 314282001507 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282001508 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282001509 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 314282001510 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282001511 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282001512 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282001513 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282001514 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 314282001515 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282001516 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282001517 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 314282001518 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 314282001519 ATP binding site [chemical binding]; other site 314282001520 Mg2+ binding site [ion binding]; other site 314282001521 G-X-G motif; other site 314282001522 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 314282001523 ATP binding site [chemical binding]; other site 314282001524 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 314282001525 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 314282001526 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 314282001527 bacterial Hfq-like; Region: Hfq; cd01716 314282001528 hexamer interface [polypeptide binding]; other site 314282001529 Sm1 motif; other site 314282001530 RNA binding site [nucleotide binding]; other site 314282001531 Sm2 motif; other site 314282001532 GTPase HflX; Provisional; Region: PRK11058 314282001533 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 314282001534 HflX GTPase family; Region: HflX; cd01878 314282001535 G1 box; other site 314282001536 GTP/Mg2+ binding site [chemical binding]; other site 314282001537 Switch I region; other site 314282001538 G2 box; other site 314282001539 G3 box; other site 314282001540 Switch II region; other site 314282001541 G4 box; other site 314282001542 G5 box; other site 314282001543 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 314282001544 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 314282001545 HflK protein; Region: hflK; TIGR01933 314282001546 FtsH protease regulator HflC; Provisional; Region: PRK11029 314282001547 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 314282001548 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 314282001549 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 314282001550 GDP-binding site [chemical binding]; other site 314282001551 ACT binding site; other site 314282001552 IMP binding site; other site 314282001553 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 314282001554 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 314282001555 Sulfatase; Region: Sulfatase; cl17466 314282001556 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 314282001557 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 314282001558 substrate binding pocket [chemical binding]; other site 314282001559 chain length determination region; other site 314282001560 substrate-Mg2+ binding site; other site 314282001561 catalytic residues [active] 314282001562 aspartate-rich region 1; other site 314282001563 active site lid residues [active] 314282001564 aspartate-rich region 2; other site 314282001565 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 314282001566 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 314282001567 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 314282001568 GTPase CgtA; Reviewed; Region: obgE; PRK12298 314282001569 GTP1/OBG; Region: GTP1_OBG; pfam01018 314282001570 Obg GTPase; Region: Obg; cd01898 314282001571 G1 box; other site 314282001572 GTP/Mg2+ binding site [chemical binding]; other site 314282001573 Switch I region; other site 314282001574 G2 box; other site 314282001575 G3 box; other site 314282001576 Switch II region; other site 314282001577 G4 box; other site 314282001578 G5 box; other site 314282001579 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314282001580 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314282001581 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 314282001582 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 314282001583 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 314282001584 dimerization interface [polypeptide binding]; other site 314282001585 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 314282001586 dimer interface [polypeptide binding]; other site 314282001587 phosphorylation site [posttranslational modification] 314282001588 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 314282001589 ATP binding site [chemical binding]; other site 314282001590 Mg2+ binding site [ion binding]; other site 314282001591 G-X-G motif; other site 314282001592 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 314282001593 active site 314282001594 phosphorylation site [posttranslational modification] 314282001595 intermolecular recognition site; other site 314282001596 dimerization interface [polypeptide binding]; other site 314282001597 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 314282001598 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 314282001599 TRAM domain; Region: TRAM; pfam01938 314282001600 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 314282001601 S-adenosylmethionine binding site [chemical binding]; other site 314282001602 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 314282001603 HD domain; Region: HD_4; pfam13328 314282001604 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 314282001605 synthetase active site [active] 314282001606 NTP binding site [chemical binding]; other site 314282001607 metal binding site [ion binding]; metal-binding site 314282001608 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 314282001609 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 314282001610 Sporulation related domain; Region: SPOR; pfam05036 314282001611 Predicted transporter component [General function prediction only]; Region: COG2391 314282001612 Sulphur transport; Region: Sulf_transp; pfam04143 314282001613 Predicted transporter component [General function prediction only]; Region: COG2391 314282001614 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 314282001615 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 314282001616 dimerization interface [polypeptide binding]; other site 314282001617 putative DNA binding site [nucleotide binding]; other site 314282001618 putative Zn2+ binding site [ion binding]; other site 314282001619 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 314282001620 dimerization domain [polypeptide binding]; other site 314282001621 dimer interface [polypeptide binding]; other site 314282001622 catalytic residues [active] 314282001623 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 314282001624 DHH family; Region: DHH; pfam01368 314282001625 DHHA1 domain; Region: DHHA1; pfam02272 314282001626 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 314282001627 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 314282001628 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 314282001629 active site 314282001630 phosphorylation site [posttranslational modification] 314282001631 intermolecular recognition site; other site 314282001632 dimerization interface [polypeptide binding]; other site 314282001633 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 314282001634 DNA binding site [nucleotide binding] 314282001635 Cation efflux family; Region: Cation_efflux; cl00316 314282001636 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 314282001637 serine acetyltransferase; Provisional; Region: cysE; PRK11132 314282001638 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 314282001639 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 314282001640 trimer interface [polypeptide binding]; other site 314282001641 active site 314282001642 substrate binding site [chemical binding]; other site 314282001643 CoA binding site [chemical binding]; other site 314282001644 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 314282001645 Protein of unknown function (DUF904); Region: DUF904; pfam06005 314282001646 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 314282001647 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 314282001648 putative hydrolase; Provisional; Region: PRK10976 314282001649 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 314282001650 active site 314282001651 motif I; other site 314282001652 motif II; other site 314282001653 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; cl17915 314282001654 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 314282001655 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314282001656 ssDNA binding protein; Region: Viral_DNA_bp; cl17757 314282001657 prolyl-tRNA synthetase; Provisional; Region: PRK09194 314282001658 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 314282001659 dimer interface [polypeptide binding]; other site 314282001660 motif 1; other site 314282001661 active site 314282001662 motif 2; other site 314282001663 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 314282001664 putative deacylase active site [active] 314282001665 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 314282001666 active site 314282001667 motif 3; other site 314282001668 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 314282001669 anticodon binding site; other site 314282001670 Rhomboid family; Region: Rhomboid; pfam01694 314282001671 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 314282001672 homodimer interaction site [polypeptide binding]; other site 314282001673 cofactor binding site; other site 314282001674 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 314282001675 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 314282001676 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 314282001677 active site 314282001678 motif I; other site 314282001679 motif II; other site 314282001680 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 314282001681 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314282001682 Coenzyme A binding pocket [chemical binding]; other site 314282001683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282001684 dimer interface [polypeptide binding]; other site 314282001685 putative CheW interface [polypeptide binding]; other site 314282001686 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 314282001687 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 314282001688 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 314282001689 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 314282001690 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 314282001691 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 314282001692 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 314282001693 ornithine carbamoyltransferase; Validated; Region: PRK02102 314282001694 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 314282001695 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 314282001696 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 314282001697 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 314282001698 putative substrate binding site [chemical binding]; other site 314282001699 nucleotide binding site [chemical binding]; other site 314282001700 nucleotide binding site [chemical binding]; other site 314282001701 homodimer interface [polypeptide binding]; other site 314282001702 arginine deiminase; Provisional; Region: PRK01388 314282001703 Predicted membrane protein [Function unknown]; Region: COG1288 314282001704 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 314282001705 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 314282001706 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 314282001707 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 314282001708 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 314282001709 prephenate dehydrogenase; Validated; Region: PRK08507 314282001710 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 314282001711 30S subunit binding site; other site 314282001712 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 314282001713 arginine repressor; Provisional; Region: PRK05066 314282001714 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 314282001715 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 314282001716 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 314282001717 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314282001718 substrate binding pocket [chemical binding]; other site 314282001719 membrane-bound complex binding site; other site 314282001720 hinge residues; other site 314282001721 malate dehydrogenase; Provisional; Region: PRK05086 314282001722 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 314282001723 NAD binding site [chemical binding]; other site 314282001724 dimerization interface [polypeptide binding]; other site 314282001725 Substrate binding site [chemical binding]; other site 314282001726 siroheme synthase; Provisional; Region: cysG; PRK10637 314282001727 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 314282001728 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 314282001729 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 314282001730 active site 314282001731 SAM binding site [chemical binding]; other site 314282001732 homodimer interface [polypeptide binding]; other site 314282001733 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 314282001734 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 314282001735 heme-binding site [chemical binding]; other site 314282001736 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 314282001737 FAD binding pocket [chemical binding]; other site 314282001738 FAD binding motif [chemical binding]; other site 314282001739 phosphate binding motif [ion binding]; other site 314282001740 beta-alpha-beta structure motif; other site 314282001741 NAD binding pocket [chemical binding]; other site 314282001742 Heme binding pocket [chemical binding]; other site 314282001743 Transcriptional regulator; Region: Rrf2; cl17282 314282001744 Rrf2 family protein; Region: rrf2_super; TIGR00738 314282001745 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 314282001746 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 314282001747 Part of AAA domain; Region: AAA_19; pfam13245 314282001748 14-3-3 domain; Region: 14-3-3; cl02098 314282001749 peptide binding site [polypeptide binding]; other site 314282001750 Family description; Region: UvrD_C_2; pfam13538 314282001751 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314282001752 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 314282001753 Aspartase; Region: Aspartase; cd01357 314282001754 active sites [active] 314282001755 tetramer interface [polypeptide binding]; other site 314282001756 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314282001757 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 314282001758 active site 314282001759 O-Antigen ligase; Region: Wzy_C; pfam04932 314282001760 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 314282001761 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 314282001762 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 314282001763 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 314282001764 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314282001765 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 314282001766 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 314282001767 DNA binding residues [nucleotide binding] 314282001768 DNA primase; Validated; Region: dnaG; PRK05667 314282001769 CHC2 zinc finger; Region: zf-CHC2; pfam01807 314282001770 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 314282001771 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 314282001772 active site 314282001773 metal binding site [ion binding]; metal-binding site 314282001774 interdomain interaction site; other site 314282001775 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 314282001776 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 314282001777 Yqey-like protein; Region: YqeY; pfam09424 314282001778 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 314282001779 UGMP family protein; Validated; Region: PRK09604 314282001780 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 314282001781 Chain length determinant protein; Region: Wzz; pfam02706 314282001782 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 314282001783 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 314282001784 dimer interface [polypeptide binding]; other site 314282001785 allosteric magnesium binding site [ion binding]; other site 314282001786 active site 314282001787 aspartate-rich active site metal binding site; other site 314282001788 Schiff base residues; other site 314282001789 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 314282001790 active site 314282001791 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 314282001792 sec-independent translocase; Provisional; Region: PRK01770 314282001793 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 314282001794 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 314282001795 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 314282001796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 314282001797 SCP-2 sterol transfer family; Region: SCP2; pfam02036 314282001798 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 314282001799 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 314282001800 S-adenosylmethionine binding site [chemical binding]; other site 314282001801 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 314282001802 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 314282001803 active site 314282001804 dimer interface [polypeptide binding]; other site 314282001805 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 314282001806 dimer interface [polypeptide binding]; other site 314282001807 active site 314282001808 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 314282001809 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314282001810 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 314282001811 putative NAD(P) binding site [chemical binding]; other site 314282001812 active site 314282001813 putative substrate binding site [chemical binding]; other site 314282001814 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 314282001815 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 314282001816 active site 314282001817 ATP binding site [chemical binding]; other site 314282001818 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314282001819 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 314282001820 putative metal binding site; other site 314282001821 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 314282001822 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 314282001823 putative active site [active] 314282001824 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 314282001825 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 314282001826 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 314282001827 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 314282001828 NADP binding site [chemical binding]; other site 314282001829 homopentamer interface [polypeptide binding]; other site 314282001830 substrate binding site [chemical binding]; other site 314282001831 active site 314282001832 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 314282001833 active site residue [active] 314282001834 transketolase; Reviewed; Region: PRK12753 314282001835 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 314282001836 TPP-binding site [chemical binding]; other site 314282001837 dimer interface [polypeptide binding]; other site 314282001838 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 314282001839 PYR/PP interface [polypeptide binding]; other site 314282001840 dimer interface [polypeptide binding]; other site 314282001841 TPP binding site [chemical binding]; other site 314282001842 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314282001843 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 314282001844 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 314282001845 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 314282001846 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 314282001847 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 314282001848 Amino acid permease; Region: AA_permease_2; pfam13520 314282001849 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 314282001850 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 314282001851 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 314282001852 Walker A motif; other site 314282001853 ATP binding site [chemical binding]; other site 314282001854 Walker B motif; other site 314282001855 arginine finger; other site 314282001856 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 314282001857 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314282001858 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282001859 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314282001860 dimerization interface [polypeptide binding]; other site 314282001861 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314282001862 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 314282001863 Predicted membrane protein [Function unknown]; Region: COG1288 314282001864 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 314282001865 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 314282001866 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 314282001867 HIGH motif; other site 314282001868 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314282001869 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 314282001870 active site 314282001871 KMSKS motif; other site 314282001872 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 314282001873 tRNA binding surface [nucleotide binding]; other site 314282001874 anticodon binding site; other site 314282001875 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 314282001876 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 314282001877 multifunctional aminopeptidase A; Provisional; Region: PRK00913 314282001878 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 314282001879 interface (dimer of trimers) [polypeptide binding]; other site 314282001880 Substrate-binding/catalytic site; other site 314282001881 Zn-binding sites [ion binding]; other site 314282001882 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 314282001883 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 314282001884 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 314282001885 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 314282001886 RDD family; Region: RDD; pfam06271 314282001887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314282001888 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 314282001889 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 314282001890 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 314282001891 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 314282001892 Peptidase family M28; Region: Peptidase_M28; pfam04389 314282001893 metal binding site [ion binding]; metal-binding site 314282001894 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 314282001895 homotrimer interaction site [polypeptide binding]; other site 314282001896 putative active site [active] 314282001897 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 314282001898 homotrimer interaction site [polypeptide binding]; other site 314282001899 putative active site [active] 314282001900 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 314282001901 homotrimer interaction site [polypeptide binding]; other site 314282001902 putative active site [active] 314282001903 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 314282001904 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 314282001905 Sulfatase; Region: Sulfatase; pfam00884 314282001906 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 314282001907 putative ABC transporter; Region: ycf24; CHL00085 314282001908 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 314282001909 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 314282001910 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 314282001911 Walker A/P-loop; other site 314282001912 ATP binding site [chemical binding]; other site 314282001913 Q-loop/lid; other site 314282001914 ABC transporter signature motif; other site 314282001915 Walker B; other site 314282001916 D-loop; other site 314282001917 H-loop/switch region; other site 314282001918 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 314282001919 FeS assembly protein SufD; Region: sufD; TIGR01981 314282001920 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 314282001921 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 314282001922 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314282001923 catalytic residue [active] 314282001924 Fe-S metabolism associated domain; Region: SufE; cl00951 314282001925 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314282001926 EamA-like transporter family; Region: EamA; pfam00892 314282001927 Cupin domain; Region: Cupin_2; cl17218 314282001928 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 314282001929 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 314282001930 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 314282001931 S-adenosylmethionine binding site [chemical binding]; other site 314282001932 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 314282001933 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 314282001934 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 314282001935 P loop; other site 314282001936 GTP binding site [chemical binding]; other site 314282001937 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 314282001938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282001939 Walker A/P-loop; other site 314282001940 ATP binding site [chemical binding]; other site 314282001941 Q-loop/lid; other site 314282001942 ABC transporter signature motif; other site 314282001943 Walker B; other site 314282001944 D-loop; other site 314282001945 H-loop/switch region; other site 314282001946 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 314282001947 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 314282001948 ornithine cyclodeaminase; Validated; Region: PRK07589 314282001949 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 314282001950 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 314282001951 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314282001952 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 314282001953 DNA binding residues [nucleotide binding] 314282001954 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 314282001955 Prephenate dehydratase; Region: PDT; pfam00800 314282001956 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 314282001957 putative L-Phe binding site [chemical binding]; other site 314282001958 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 314282001959 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314282001960 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 314282001961 motif II; other site 314282001962 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 314282001963 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 314282001964 putative active site [active] 314282001965 Zn binding site [ion binding]; other site 314282001966 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 314282001967 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 314282001968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282001969 homodimer interface [polypeptide binding]; other site 314282001970 catalytic residue [active] 314282001971 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 314282001972 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 314282001973 S-adenosylmethionine binding site [chemical binding]; other site 314282001974 glutamate racemase; Provisional; Region: PRK00865 314282001975 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 314282001976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314282001977 Zn2+ binding site [ion binding]; other site 314282001978 Mg2+ binding site [ion binding]; other site 314282001979 HD domain; Region: HD_3; pfam13023 314282001980 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 314282001981 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 314282001982 hexamer interface [polypeptide binding]; other site 314282001983 ligand binding site [chemical binding]; other site 314282001984 putative active site [active] 314282001985 NAD(P) binding site [chemical binding]; other site 314282001986 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 314282001987 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314282001988 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 314282001989 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 314282001990 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 314282001991 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 314282001992 GTP-binding protein LepA; Provisional; Region: PRK05433 314282001993 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 314282001994 G1 box; other site 314282001995 putative GEF interaction site [polypeptide binding]; other site 314282001996 GTP/Mg2+ binding site [chemical binding]; other site 314282001997 Switch I region; other site 314282001998 G2 box; other site 314282001999 G3 box; other site 314282002000 Switch II region; other site 314282002001 G4 box; other site 314282002002 G5 box; other site 314282002003 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 314282002004 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 314282002005 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 314282002006 signal peptidase I; Provisional; Region: PRK10861 314282002007 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 314282002008 Catalytic site [active] 314282002009 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 314282002010 ribonuclease III; Reviewed; Region: rnc; PRK00102 314282002011 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 314282002012 dimerization interface [polypeptide binding]; other site 314282002013 active site 314282002014 metal binding site [ion binding]; metal-binding site 314282002015 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 314282002016 dsRNA binding site [nucleotide binding]; other site 314282002017 GTPase Era; Reviewed; Region: era; PRK00089 314282002018 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 314282002019 G1 box; other site 314282002020 GTP/Mg2+ binding site [chemical binding]; other site 314282002021 Switch I region; other site 314282002022 G2 box; other site 314282002023 Switch II region; other site 314282002024 G3 box; other site 314282002025 G4 box; other site 314282002026 G5 box; other site 314282002027 KH domain; Region: KH_2; pfam07650 314282002028 Recombination protein O N terminal; Region: RecO_N; pfam11967 314282002029 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 314282002030 Recombination protein O C terminal; Region: RecO_C; pfam02565 314282002031 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 314282002032 active site 314282002033 hydrophilic channel; other site 314282002034 dimerization interface [polypeptide binding]; other site 314282002035 catalytic residues [active] 314282002036 active site lid [active] 314282002037 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 314282002038 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 314282002039 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314282002040 catalytic residue [active] 314282002041 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 314282002042 Na2 binding site [ion binding]; other site 314282002043 putative substrate binding site 1 [chemical binding]; other site 314282002044 Na binding site 1 [ion binding]; other site 314282002045 putative substrate binding site 2 [chemical binding]; other site 314282002046 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 314282002047 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 314282002048 homodimer interface [polypeptide binding]; other site 314282002049 metal binding site [ion binding]; metal-binding site 314282002050 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 314282002051 homodimer interface [polypeptide binding]; other site 314282002052 active site 314282002053 putative chemical substrate binding site [chemical binding]; other site 314282002054 metal binding site [ion binding]; metal-binding site 314282002055 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 314282002056 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 314282002057 putative ATP binding site [chemical binding]; other site 314282002058 putative substrate interface [chemical binding]; other site 314282002059 radical SAM protein, TIGR01212 family; Region: TIGR01212 314282002060 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 314282002061 FeS/SAM binding site; other site 314282002062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314282002063 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 314282002064 ATP binding site [chemical binding]; other site 314282002065 Mg2+ binding site [ion binding]; other site 314282002066 G-X-G motif; other site 314282002067 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 314282002068 active site 314282002069 phosphorylation site [posttranslational modification] 314282002070 intermolecular recognition site; other site 314282002071 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 314282002072 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314282002073 Zn2+ binding site [ion binding]; other site 314282002074 Mg2+ binding site [ion binding]; other site 314282002075 Membrane fusogenic activity; Region: BMFP; pfam04380 314282002076 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 314282002077 RNase E inhibitor protein; Provisional; Region: PRK11191 314282002078 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 314282002079 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 314282002080 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 314282002081 putative acyl-acceptor binding pocket; other site 314282002082 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 314282002083 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 314282002084 CAP-like domain; other site 314282002085 active site 314282002086 primary dimer interface [polypeptide binding]; other site 314282002087 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 314282002088 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 314282002089 inhibitor-cofactor binding pocket; inhibition site 314282002090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282002091 catalytic residue [active] 314282002092 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 314282002093 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 314282002094 Cl- selectivity filter; other site 314282002095 Cl- binding residues [ion binding]; other site 314282002096 pore gating glutamate residue; other site 314282002097 dimer interface [polypeptide binding]; other site 314282002098 H+/Cl- coupling transport residue; other site 314282002099 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 314282002100 Predicted membrane protein [Function unknown]; Region: COG2860 314282002101 UPF0126 domain; Region: UPF0126; pfam03458 314282002102 UPF0126 domain; Region: UPF0126; pfam03458 314282002103 ferric uptake regulator; Provisional; Region: fur; PRK09462 314282002104 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 314282002105 metal binding site 2 [ion binding]; metal-binding site 314282002106 putative DNA binding helix; other site 314282002107 metal binding site 1 [ion binding]; metal-binding site 314282002108 dimer interface [polypeptide binding]; other site 314282002109 structural Zn2+ binding site [ion binding]; other site 314282002110 flavodoxin FldA; Validated; Region: PRK09267 314282002111 LexA regulated protein; Provisional; Region: PRK11675 314282002112 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 314282002113 acyl-CoA esterase; Provisional; Region: PRK10673 314282002114 PGAP1-like protein; Region: PGAP1; pfam07819 314282002115 SeqA protein; Region: SeqA; pfam03925 314282002116 phosphoglucomutase; Validated; Region: PRK07564 314282002117 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 314282002118 active site 314282002119 substrate binding site [chemical binding]; other site 314282002120 metal binding site [ion binding]; metal-binding site 314282002121 Protein of unknown function (DUF406); Region: DUF406; pfam04175 314282002122 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 314282002123 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314282002124 ATP binding site [chemical binding]; other site 314282002125 putative Mg++ binding site [ion binding]; other site 314282002126 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 314282002127 nucleotide binding region [chemical binding]; other site 314282002128 ATP-binding site [chemical binding]; other site 314282002129 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 314282002130 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 314282002131 Predicted integral membrane protein [Function unknown]; Region: COG5616 314282002132 LPP20 lipoprotein; Region: LPP20; cl15824 314282002133 FlgN protein; Region: FlgN; pfam05130 314282002134 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 314282002135 SAF-like; Region: SAF_2; pfam13144 314282002136 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 314282002137 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 314282002138 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314282002139 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 314282002140 active site 314282002141 phosphorylation site [posttranslational modification] 314282002142 intermolecular recognition site; other site 314282002143 dimerization interface [polypeptide binding]; other site 314282002144 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 314282002145 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 314282002146 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 314282002147 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 314282002148 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 314282002149 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 314282002150 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 314282002151 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314282002152 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 314282002153 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 314282002154 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 314282002155 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 314282002156 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 314282002157 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 314282002158 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314282002159 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 314282002160 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 314282002161 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 314282002162 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 314282002163 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314282002164 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 314282002165 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 314282002166 Predicted permease [General function prediction only]; Region: COG2056 314282002167 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 314282002168 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 314282002169 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 314282002170 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 314282002171 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 314282002172 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314282002173 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 314282002174 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314282002175 flagellin; Validated; Region: PRK08026 314282002176 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314282002177 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 314282002178 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 314282002179 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 314282002180 Sulfatase; Region: Sulfatase; cl17466 314282002181 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 314282002182 DTW domain; Region: DTW; cl01221 314282002183 hypothetical protein; Provisional; Region: PRK09256 314282002184 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 314282002185 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 314282002186 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314282002187 DNA-binding site [nucleotide binding]; DNA binding site 314282002188 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 314282002189 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 314282002190 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 314282002191 dimer interface [polypeptide binding]; other site 314282002192 TPP-binding site [chemical binding]; other site 314282002193 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 314282002194 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 314282002195 E3 interaction surface; other site 314282002196 lipoyl attachment site [posttranslational modification]; other site 314282002197 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 314282002198 E3 interaction surface; other site 314282002199 lipoyl attachment site [posttranslational modification]; other site 314282002200 e3 binding domain; Region: E3_binding; pfam02817 314282002201 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 314282002202 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 314282002203 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314282002204 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314282002205 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314282002206 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 314282002207 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 314282002208 active site 314282002209 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 314282002210 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 314282002211 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 314282002212 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 314282002213 active site 314282002214 dimer interface [polypeptide binding]; other site 314282002215 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 314282002216 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 314282002217 active site 314282002218 FMN binding site [chemical binding]; other site 314282002219 substrate binding site [chemical binding]; other site 314282002220 3Fe-4S cluster binding site [ion binding]; other site 314282002221 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 314282002222 domain interface; other site 314282002223 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 314282002224 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314282002225 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 314282002226 Ligand Binding Site [chemical binding]; other site 314282002227 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 314282002228 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 314282002229 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 314282002230 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 314282002231 ATP binding site [chemical binding]; other site 314282002232 putative Mg++ binding site [ion binding]; other site 314282002233 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 314282002234 nucleotide binding region [chemical binding]; other site 314282002235 ATP-binding site [chemical binding]; other site 314282002236 Helicase associated domain (HA2); Region: HA2; pfam04408 314282002237 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 314282002238 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 314282002239 Response regulator receiver domain; Region: Response_reg; pfam00072 314282002240 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 314282002241 active site 314282002242 phosphorylation site [posttranslational modification] 314282002243 intermolecular recognition site; other site 314282002244 dimerization interface [polypeptide binding]; other site 314282002245 Response regulator receiver domain; Region: Response_reg; pfam00072 314282002246 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 314282002247 active site 314282002248 phosphorylation site [posttranslational modification] 314282002249 intermolecular recognition site; other site 314282002250 dimerization interface [polypeptide binding]; other site 314282002251 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 314282002252 binding surface 314282002253 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 314282002254 TPR motif; other site 314282002255 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 314282002256 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 314282002257 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 314282002258 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 314282002259 putative active site [active] 314282002260 putative substrate binding site [chemical binding]; other site 314282002261 putative cosubstrate binding site; other site 314282002262 catalytic site [active] 314282002263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 314282002264 SEC-C motif; Region: SEC-C; pfam02810 314282002265 asparagine synthetase B; Provisional; Region: asnB; PRK09431 314282002266 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 314282002267 active site 314282002268 dimer interface [polypeptide binding]; other site 314282002269 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 314282002270 Ligand Binding Site [chemical binding]; other site 314282002271 Molecular Tunnel; other site 314282002272 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 314282002273 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 314282002274 TrkA-N domain; Region: TrkA_N; pfam02254 314282002275 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 314282002276 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 314282002277 catalytic loop [active] 314282002278 iron binding site [ion binding]; other site 314282002279 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 314282002280 dimer interface [polypeptide binding]; other site 314282002281 putative radical transfer pathway; other site 314282002282 diiron center [ion binding]; other site 314282002283 tyrosyl radical; other site 314282002284 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 314282002285 ATP cone domain; Region: ATP-cone; pfam03477 314282002286 Class I ribonucleotide reductase; Region: RNR_I; cd01679 314282002287 active site 314282002288 dimer interface [polypeptide binding]; other site 314282002289 catalytic residues [active] 314282002290 effector binding site; other site 314282002291 R2 peptide binding site; other site 314282002292 S-formylglutathione hydrolase; Region: PLN02442 314282002293 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 314282002294 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 314282002295 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 314282002296 substrate binding site [chemical binding]; other site 314282002297 catalytic Zn binding site [ion binding]; other site 314282002298 NAD binding site [chemical binding]; other site 314282002299 structural Zn binding site [ion binding]; other site 314282002300 dimer interface [polypeptide binding]; other site 314282002301 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314282002302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282002303 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314282002304 dimerization interface [polypeptide binding]; other site 314282002305 alkaline phosphatase; Provisional; Region: PRK10518 314282002306 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 314282002307 dimer interface [polypeptide binding]; other site 314282002308 active site 314282002309 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 314282002310 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 314282002311 S-adenosylmethionine binding site [chemical binding]; other site 314282002312 DNA gyrase subunit A; Validated; Region: PRK05560 314282002313 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 314282002314 CAP-like domain; other site 314282002315 active site 314282002316 primary dimer interface [polypeptide binding]; other site 314282002317 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314282002318 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314282002319 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314282002320 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314282002321 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314282002322 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314282002323 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 314282002324 homodimer interface [polypeptide binding]; other site 314282002325 substrate-cofactor binding pocket; other site 314282002326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282002327 catalytic residue [active] 314282002328 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 314282002329 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 314282002330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282002331 homodimer interface [polypeptide binding]; other site 314282002332 catalytic residue [active] 314282002333 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 314282002334 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 314282002335 hinge; other site 314282002336 active site 314282002337 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 314282002338 TrkA-N domain; Region: TrkA_N; pfam02254 314282002339 TrkA-C domain; Region: TrkA_C; pfam02080 314282002340 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 314282002341 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 314282002342 rod shape-determining protein MreB; Provisional; Region: PRK13927 314282002343 MreB and similar proteins; Region: MreB_like; cd10225 314282002344 nucleotide binding site [chemical binding]; other site 314282002345 Mg binding site [ion binding]; other site 314282002346 putative protofilament interaction site [polypeptide binding]; other site 314282002347 RodZ interaction site [polypeptide binding]; other site 314282002348 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 314282002349 rod shape-determining protein MreC; Region: MreC; pfam04085 314282002350 rod shape-determining protein MreD; Region: MreD; cl01087 314282002351 Maf-like protein; Region: Maf; pfam02545 314282002352 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 314282002353 active site 314282002354 dimer interface [polypeptide binding]; other site 314282002355 ribonuclease G; Provisional; Region: PRK11712 314282002356 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 314282002357 homodimer interface [polypeptide binding]; other site 314282002358 oligonucleotide binding site [chemical binding]; other site 314282002359 TIGR02099 family protein; Region: TIGR02099 314282002360 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 314282002361 protease TldD; Provisional; Region: tldD; PRK10735 314282002362 putative transporter; Provisional; Region: PRK11660 314282002363 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 314282002364 Sulfate transporter family; Region: Sulfate_transp; pfam00916 314282002365 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 314282002366 putative transporter; Provisional; Region: PRK11043 314282002367 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 314282002368 putative substrate translocation pore; other site 314282002369 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 314282002370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282002371 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314282002372 dimerization interface [polypeptide binding]; other site 314282002373 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 314282002374 HAMP domain; Region: HAMP; pfam00672 314282002375 dimerization interface [polypeptide binding]; other site 314282002376 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282002377 dimer interface [polypeptide binding]; other site 314282002378 putative CheW interface [polypeptide binding]; other site 314282002379 Protein of unknown function (DUF615); Region: DUF615; pfam04751 314282002380 peptidase PmbA; Provisional; Region: PRK11040 314282002381 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 314282002382 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 314282002383 Sporulation related domain; Region: SPOR; pfam05036 314282002384 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 314282002385 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 314282002386 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 314282002387 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314282002388 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 314282002389 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 314282002390 cell division protein MraZ; Reviewed; Region: PRK00326 314282002391 MraZ protein; Region: MraZ; pfam02381 314282002392 MraZ protein; Region: MraZ; pfam02381 314282002393 MraW methylase family; Region: Methyltransf_5; pfam01795 314282002394 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 314282002395 Cell division protein FtsL; Region: FtsL; pfam04999 314282002396 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 314282002397 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 314282002398 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314282002399 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 314282002400 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314282002401 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314282002402 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314282002403 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 314282002404 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314282002405 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314282002406 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 314282002407 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 314282002408 Mg++ binding site [ion binding]; other site 314282002409 putative catalytic motif [active] 314282002410 putative substrate binding site [chemical binding]; other site 314282002411 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314282002412 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 314282002413 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314282002414 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314282002415 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 314282002416 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 314282002417 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 314282002418 active site 314282002419 homodimer interface [polypeptide binding]; other site 314282002420 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 314282002421 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314282002422 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314282002423 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314282002424 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 314282002425 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 314282002426 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314282002427 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 314282002428 Cell division protein FtsQ; Region: FtsQ; pfam03799 314282002429 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 314282002430 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 314282002431 nucleotide binding site [chemical binding]; other site 314282002432 Cell division protein FtsA; Region: FtsA; pfam14450 314282002433 cell division protein FtsZ; Validated; Region: PRK09330 314282002434 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 314282002435 nucleotide binding site [chemical binding]; other site 314282002436 SulA interaction site; other site 314282002437 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 314282002438 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 314282002439 Protein of unknown function (DUF721); Region: DUF721; cl02324 314282002440 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314282002441 Peptidase family M23; Region: Peptidase_M23; pfam01551 314282002442 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 314282002443 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 314282002444 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 314282002445 SEC-C motif; Region: SEC-C; pfam02810 314282002446 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 314282002447 active site 314282002448 8-oxo-dGMP binding site [chemical binding]; other site 314282002449 nudix motif; other site 314282002450 metal binding site [ion binding]; metal-binding site 314282002451 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 314282002452 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 314282002453 dimerization interface [polypeptide binding]; other site 314282002454 active site 314282002455 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 314282002456 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 314282002457 CoA-binding site [chemical binding]; other site 314282002458 ATP-binding [chemical binding]; other site 314282002459 hypothetical protein; Provisional; Region: PRK05287 314282002460 Domain of unknown function (DUF329); Region: DUF329; pfam03884 314282002461 translation initiation factor Sui1; Validated; Region: PRK06824 314282002462 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 314282002463 putative rRNA binding site [nucleotide binding]; other site 314282002464 FeoA domain; Region: FeoA; pfam04023 314282002465 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 314282002466 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 314282002467 G1 box; other site 314282002468 GTP/Mg2+ binding site [chemical binding]; other site 314282002469 Switch I region; other site 314282002470 G2 box; other site 314282002471 G3 box; other site 314282002472 Switch II region; other site 314282002473 G4 box; other site 314282002474 G5 box; other site 314282002475 Nucleoside recognition; Region: Gate; pfam07670 314282002476 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 314282002477 FeoC like transcriptional regulator; Region: FeoC; pfam09012 314282002478 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 314282002479 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 314282002480 FeS/SAM binding site; other site 314282002481 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 314282002482 binding surface 314282002483 TPR motif; other site 314282002484 TPR repeat; Region: TPR_11; pfam13414 314282002485 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314282002486 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 314282002487 binding surface 314282002488 TPR motif; other site 314282002489 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 314282002490 Helix-turn-helix domain; Region: HTH_25; pfam13413 314282002491 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 314282002492 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 314282002493 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 314282002494 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 314282002495 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 314282002496 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 314282002497 dimer interface [polypeptide binding]; other site 314282002498 motif 1; other site 314282002499 active site 314282002500 motif 2; other site 314282002501 motif 3; other site 314282002502 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 314282002503 anticodon binding site; other site 314282002504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 314282002505 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 314282002506 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 314282002507 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 314282002508 Trp docking motif [polypeptide binding]; other site 314282002509 GTP-binding protein Der; Reviewed; Region: PRK00093 314282002510 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 314282002511 G1 box; other site 314282002512 GTP/Mg2+ binding site [chemical binding]; other site 314282002513 Switch I region; other site 314282002514 G2 box; other site 314282002515 Switch II region; other site 314282002516 G3 box; other site 314282002517 G4 box; other site 314282002518 G5 box; other site 314282002519 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 314282002520 G1 box; other site 314282002521 GTP/Mg2+ binding site [chemical binding]; other site 314282002522 Switch I region; other site 314282002523 G2 box; other site 314282002524 G3 box; other site 314282002525 Switch II region; other site 314282002526 G4 box; other site 314282002527 G5 box; other site 314282002528 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 314282002529 outer membrane lipoprotein; Provisional; Region: PRK11023 314282002530 BON domain; Region: BON; pfam04972 314282002531 BON domain; Region: BON; pfam04972 314282002532 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 314282002533 dimer interface [polypeptide binding]; other site 314282002534 active site 314282002535 hypothetical protein; Reviewed; Region: PRK12497 314282002536 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 314282002537 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 314282002538 putative ligand binding site [chemical binding]; other site 314282002539 Predicted methyltransferases [General function prediction only]; Region: COG0313 314282002540 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 314282002541 putative SAM binding site [chemical binding]; other site 314282002542 putative homodimer interface [polypeptide binding]; other site 314282002543 lytic murein transglycosylase; Provisional; Region: PRK11619 314282002544 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 314282002545 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314282002546 catalytic residue [active] 314282002547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 314282002548 Protein of unknown function (DUF805); Region: DUF805; pfam05656 314282002549 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 314282002550 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 314282002551 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 314282002552 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 314282002553 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 314282002554 ATP binding site [chemical binding]; other site 314282002555 Mg++ binding site [ion binding]; other site 314282002556 motif III; other site 314282002557 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 314282002558 nucleotide binding region [chemical binding]; other site 314282002559 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282002560 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282002561 dimer interface [polypeptide binding]; other site 314282002562 putative CheW interface [polypeptide binding]; other site 314282002563 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 314282002564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282002565 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282002566 dimer interface [polypeptide binding]; other site 314282002567 putative CheW interface [polypeptide binding]; other site 314282002568 Cache domain; Region: Cache_1; pfam02743 314282002569 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 314282002570 dimerization interface [polypeptide binding]; other site 314282002571 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282002572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282002573 dimer interface [polypeptide binding]; other site 314282002574 putative CheW interface [polypeptide binding]; other site 314282002575 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 314282002576 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 314282002577 NADP binding site [chemical binding]; other site 314282002578 dimer interface [polypeptide binding]; other site 314282002579 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 314282002580 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 314282002581 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 314282002582 Predicted membrane protein [Function unknown]; Region: COG2855 314282002583 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 314282002584 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 314282002585 active site 314282002586 (T/H)XGH motif; other site 314282002587 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 314282002588 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 314282002589 Lipopolysaccharide-assembly; Region: LptE; cl01125 314282002590 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 314282002591 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 314282002592 HIGH motif; other site 314282002593 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314282002594 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314282002595 active site 314282002596 KMSKS motif; other site 314282002597 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 314282002598 tRNA binding surface [nucleotide binding]; other site 314282002599 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 314282002600 dimerization interface [polypeptide binding]; other site 314282002601 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282002602 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282002603 dimer interface [polypeptide binding]; other site 314282002604 putative CheW interface [polypeptide binding]; other site 314282002605 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 314282002606 amphipathic channel; other site 314282002607 Asn-Pro-Ala signature motifs; other site 314282002608 response regulator; Provisional; Region: PRK09483 314282002609 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 314282002610 active site 314282002611 phosphorylation site [posttranslational modification] 314282002612 intermolecular recognition site; other site 314282002613 dimerization interface [polypeptide binding]; other site 314282002614 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 314282002615 DNA binding residues [nucleotide binding] 314282002616 dimerization interface [polypeptide binding]; other site 314282002617 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 314282002618 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 314282002619 GIY-YIG motif/motif A; other site 314282002620 active site 314282002621 catalytic site [active] 314282002622 putative DNA binding site [nucleotide binding]; other site 314282002623 metal binding site [ion binding]; metal-binding site 314282002624 UvrB/uvrC motif; Region: UVR; pfam02151 314282002625 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 314282002626 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 314282002627 alpha-glucosidase; Provisional; Region: PRK10137 314282002628 Trehalase; Region: Trehalase; cl17346 314282002629 two-component response regulator; Provisional; Region: PRK11173 314282002630 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 314282002631 active site 314282002632 phosphorylation site [posttranslational modification] 314282002633 intermolecular recognition site; other site 314282002634 dimerization interface [polypeptide binding]; other site 314282002635 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 314282002636 DNA binding site [nucleotide binding] 314282002637 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 314282002638 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 314282002639 putative catalytic residues [active] 314282002640 putative nucleotide binding site [chemical binding]; other site 314282002641 putative aspartate binding site [chemical binding]; other site 314282002642 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 314282002643 dimer interface [polypeptide binding]; other site 314282002644 putative threonine allosteric regulatory site; other site 314282002645 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 314282002646 putative threonine allosteric regulatory site; other site 314282002647 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 314282002648 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 314282002649 homoserine kinase; Provisional; Region: PRK01212 314282002650 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 314282002651 threonine synthase; Validated; Region: PRK09225 314282002652 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 314282002653 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314282002654 catalytic residue [active] 314282002655 acyl-CoA thioesterase II; Provisional; Region: PRK10526 314282002656 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 314282002657 active site 314282002658 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 314282002659 catalytic triad [active] 314282002660 dimer interface [polypeptide binding]; other site 314282002661 autonomous glycyl radical cofactor GrcA; Region: spare_glycyl; TIGR04365 314282002662 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 314282002663 ligand binding site [chemical binding]; other site 314282002664 active site 314282002665 UGI interface [polypeptide binding]; other site 314282002666 catalytic site [active] 314282002667 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 314282002668 hypothetical protein; Validated; Region: PRK00228 314282002669 glutathione synthetase; Provisional; Region: PRK05246 314282002670 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 314282002671 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 314282002672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 314282002673 RNA methyltransferase, RsmE family; Region: TIGR00046 314282002674 Uncharacterized conserved protein [Function unknown]; Region: COG2966 314282002675 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 314282002676 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 314282002677 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 314282002678 SEC-C motif; Region: SEC-C; pfam02810 314282002679 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 314282002680 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 314282002681 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 314282002682 folate binding site [chemical binding]; other site 314282002683 NADP+ binding site [chemical binding]; other site 314282002684 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 314282002685 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 314282002686 active site 314282002687 metal binding site [ion binding]; metal-binding site 314282002688 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 314282002689 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 314282002690 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 314282002691 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 314282002692 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 314282002693 SurA N-terminal domain; Region: SurA_N; pfam09312 314282002694 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 314282002695 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 314282002696 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 314282002697 OstA-like protein; Region: OstA; cl00844 314282002698 Organic solvent tolerance protein; Region: OstA_C; pfam04453 314282002699 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 314282002700 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 314282002701 putative metal binding site [ion binding]; other site 314282002702 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 314282002703 HSP70 interaction site [polypeptide binding]; other site 314282002704 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 314282002705 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 314282002706 putative trimer interface [polypeptide binding]; other site 314282002707 putative CoA binding site [chemical binding]; other site 314282002708 putative inner membrane protein; Provisional; Region: PRK11099 314282002709 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 314282002710 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314282002711 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314282002712 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314282002713 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 314282002714 active site residue [active] 314282002715 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 314282002716 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 314282002717 YciI-like protein; Reviewed; Region: PRK11370 314282002718 intracellular septation protein A; Reviewed; Region: PRK00259 314282002719 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 314282002720 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 314282002721 substrate binding site [chemical binding]; other site 314282002722 active site 314282002723 catalytic residues [active] 314282002724 heterodimer interface [polypeptide binding]; other site 314282002725 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 314282002726 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 314282002727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282002728 catalytic residue [active] 314282002729 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 314282002730 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 314282002731 active site 314282002732 ribulose/triose binding site [chemical binding]; other site 314282002733 phosphate binding site [ion binding]; other site 314282002734 substrate (anthranilate) binding pocket [chemical binding]; other site 314282002735 product (indole) binding pocket [chemical binding]; other site 314282002736 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 314282002737 active site 314282002738 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 314282002739 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 314282002740 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 314282002741 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 314282002742 Glutamine amidotransferase class-I; Region: GATase; pfam00117 314282002743 glutamine binding [chemical binding]; other site 314282002744 catalytic triad [active] 314282002745 anthranilate synthase component I; Provisional; Region: PRK13564 314282002746 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 314282002747 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 314282002748 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 314282002749 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 314282002750 active site 314282002751 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 314282002752 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 314282002753 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 314282002754 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 314282002755 RNA binding surface [nucleotide binding]; other site 314282002756 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 314282002757 probable active site [active] 314282002758 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 314282002759 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 314282002760 active site 314282002761 tetramer interface; other site 314282002762 LrgA family; Region: LrgA; cl00608 314282002763 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 314282002764 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 314282002765 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 314282002766 active site 314282002767 substrate binding site [chemical binding]; other site 314282002768 cosubstrate binding site; other site 314282002769 catalytic site [active] 314282002770 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 314282002771 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 314282002772 dimerization interface [polypeptide binding]; other site 314282002773 putative ATP binding site [chemical binding]; other site 314282002774 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 314282002775 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 314282002776 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 314282002777 Walker A motif; other site 314282002778 ATP binding site [chemical binding]; other site 314282002779 Walker B motif; other site 314282002780 arginine finger; other site 314282002781 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 314282002782 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 314282002783 ArsC family; Region: ArsC; pfam03960 314282002784 catalytic residues [active] 314282002785 hypothetical protein; Provisional; Region: PRK05170 314282002786 Transglycosylase SLT domain; Region: SLT_2; pfam13406 314282002787 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 314282002788 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314282002789 catalytic residue [active] 314282002790 YcgL domain; Region: YcgL; pfam05166 314282002791 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 314282002792 septum formation inhibitor; Reviewed; Region: minC; PRK04804 314282002793 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 314282002794 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 314282002795 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 314282002796 Switch I; other site 314282002797 Switch II; other site 314282002798 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 314282002799 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 314282002800 active site 314282002801 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 314282002802 excinuclease ABC subunit B; Provisional; Region: PRK05298 314282002803 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 314282002804 ATP binding site [chemical binding]; other site 314282002805 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 314282002806 nucleotide binding region [chemical binding]; other site 314282002807 ATP-binding site [chemical binding]; other site 314282002808 Ultra-violet resistance protein B; Region: UvrB; pfam12344 314282002809 UvrB/uvrC motif; Region: UVR; pfam02151 314282002810 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 314282002811 active site 314282002812 dimer interface [polypeptide binding]; other site 314282002813 hypothetical protein; Provisional; Region: PRK11193 314282002814 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 314282002815 putative phosphate acyltransferase; Provisional; Region: PRK05331 314282002816 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 314282002817 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 314282002818 dimer interface [polypeptide binding]; other site 314282002819 active site 314282002820 CoA binding pocket [chemical binding]; other site 314282002821 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 314282002822 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 314282002823 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 314282002824 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 314282002825 NAD(P) binding site [chemical binding]; other site 314282002826 homotetramer interface [polypeptide binding]; other site 314282002827 homodimer interface [polypeptide binding]; other site 314282002828 active site 314282002829 acyl carrier protein; Provisional; Region: acpP; PRK00982 314282002830 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 314282002831 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 314282002832 dimer interface [polypeptide binding]; other site 314282002833 active site 314282002834 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 314282002835 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 314282002836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282002837 catalytic residue [active] 314282002838 YceG-like family; Region: YceG; pfam02618 314282002839 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 314282002840 dimerization interface [polypeptide binding]; other site 314282002841 thymidylate kinase; Validated; Region: tmk; PRK00698 314282002842 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 314282002843 TMP-binding site; other site 314282002844 ATP-binding site [chemical binding]; other site 314282002845 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 314282002846 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 314282002847 active site 314282002848 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 314282002849 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 314282002850 metal binding site [ion binding]; metal-binding site 314282002851 dimer interface [polypeptide binding]; other site 314282002852 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 314282002853 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 314282002854 metal binding site [ion binding]; metal-binding site 314282002855 dimer interface [polypeptide binding]; other site 314282002856 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 314282002857 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 314282002858 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 314282002859 catalytic site [active] 314282002860 subunit interface [polypeptide binding]; other site 314282002861 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 314282002862 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314282002863 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 314282002864 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 314282002865 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314282002866 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314282002867 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 314282002868 IMP binding site; other site 314282002869 dimer interface [polypeptide binding]; other site 314282002870 interdomain contacts; other site 314282002871 partial ornithine binding site; other site 314282002872 LysE type translocator; Region: LysE; cl00565 314282002873 putative alcohol dehydrogenase; Provisional; Region: PRK09860 314282002874 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 314282002875 dimer interface [polypeptide binding]; other site 314282002876 active site 314282002877 metal binding site [ion binding]; metal-binding site 314282002878 Predicted metal-binding protein [General function prediction only]; Region: COG3019 314282002879 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 314282002880 ComEC family competence protein; Provisional; Region: PRK11539 314282002881 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 314282002882 Competence protein; Region: Competence; pfam03772 314282002883 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314282002884 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 314282002885 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314282002886 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282002887 Walker A/P-loop; other site 314282002888 ATP binding site [chemical binding]; other site 314282002889 Q-loop/lid; other site 314282002890 ABC transporter signature motif; other site 314282002891 Walker B; other site 314282002892 D-loop; other site 314282002893 H-loop/switch region; other site 314282002894 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 314282002895 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 314282002896 Trm112p-like protein; Region: Trm112p; cl01066 314282002897 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 314282002898 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 314282002899 Ligand binding site; other site 314282002900 oligomer interface; other site 314282002901 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 314282002902 spermidine synthase; Provisional; Region: PRK03612 314282002903 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 314282002904 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 314282002905 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 314282002906 Sulfate transporter family; Region: Sulfate_transp; pfam00916 314282002907 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 314282002908 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 314282002909 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 314282002910 active site 314282002911 ADP/pyrophosphate binding site [chemical binding]; other site 314282002912 dimerization interface [polypeptide binding]; other site 314282002913 allosteric effector site; other site 314282002914 fructose-1,6-bisphosphate binding site; other site 314282002915 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 314282002916 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314282002917 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314282002918 active site 314282002919 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 314282002920 putative catalytic site [active] 314282002921 putative phosphate binding site [ion binding]; other site 314282002922 active site 314282002923 metal binding site A [ion binding]; metal-binding site 314282002924 DNA binding site [nucleotide binding] 314282002925 putative AP binding site [nucleotide binding]; other site 314282002926 putative metal binding site B [ion binding]; other site 314282002927 Phosphate-starvation-inducible E; Region: PsiE; cl01264 314282002928 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 314282002929 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 314282002930 active site 314282002931 dimerization interface [polypeptide binding]; other site 314282002932 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 314282002933 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314282002934 Transcriptional regulator; Region: Rrf2; cl17282 314282002935 Rrf2 family protein; Region: rrf2_super; TIGR00738 314282002936 cysteine desulfurase; Provisional; Region: PRK14012 314282002937 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 314282002938 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314282002939 catalytic residue [active] 314282002940 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 314282002941 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 314282002942 trimerization site [polypeptide binding]; other site 314282002943 active site 314282002944 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 314282002945 co-chaperone HscB; Provisional; Region: hscB; PRK05014 314282002946 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 314282002947 HSP70 interaction site [polypeptide binding]; other site 314282002948 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 314282002949 chaperone protein HscA; Provisional; Region: hscA; PRK05183 314282002950 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 314282002951 nucleotide binding site [chemical binding]; other site 314282002952 putative NEF/HSP70 interaction site [polypeptide binding]; other site 314282002953 SBD interface [polypeptide binding]; other site 314282002954 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 314282002955 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 314282002956 catalytic loop [active] 314282002957 iron binding site [ion binding]; other site 314282002958 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 314282002959 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 314282002960 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 314282002961 peptide binding site [polypeptide binding]; other site 314282002962 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 314282002963 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 314282002964 dimer interface [polypeptide binding]; other site 314282002965 conserved gate region; other site 314282002966 putative PBP binding loops; other site 314282002967 ABC-ATPase subunit interface; other site 314282002968 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 314282002969 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 314282002970 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 314282002971 dimer interface [polypeptide binding]; other site 314282002972 conserved gate region; other site 314282002973 putative PBP binding loops; other site 314282002974 ABC-ATPase subunit interface; other site 314282002975 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 314282002976 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314282002977 Walker A/P-loop; other site 314282002978 ATP binding site [chemical binding]; other site 314282002979 Q-loop/lid; other site 314282002980 ABC transporter signature motif; other site 314282002981 Walker B; other site 314282002982 D-loop; other site 314282002983 H-loop/switch region; other site 314282002984 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 314282002985 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 314282002986 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314282002987 Walker A/P-loop; other site 314282002988 ATP binding site [chemical binding]; other site 314282002989 Q-loop/lid; other site 314282002990 ABC transporter signature motif; other site 314282002991 Walker B; other site 314282002992 D-loop; other site 314282002993 H-loop/switch region; other site 314282002994 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 314282002995 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 314282002996 dimer interface [polypeptide binding]; other site 314282002997 active site 314282002998 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 314282002999 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 314282003000 putative active site [active] 314282003001 putative dimer interface [polypeptide binding]; other site 314282003002 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 314282003003 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 314282003004 DNA binding residues [nucleotide binding] 314282003005 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 314282003006 metal-binding site [ion binding] 314282003007 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 314282003008 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314282003009 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314282003010 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 314282003011 active site 314282003012 DNA polymerase IV; Validated; Region: PRK02406 314282003013 DNA binding site [nucleotide binding] 314282003014 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 314282003015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314282003016 NAD(P) binding site [chemical binding]; other site 314282003017 active site 314282003018 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 314282003019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 314282003020 Nucleoside recognition; Region: Gate; pfam07670 314282003021 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282003022 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282003023 metal binding site [ion binding]; metal-binding site 314282003024 active site 314282003025 I-site; other site 314282003026 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 314282003027 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 314282003028 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 314282003029 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 314282003030 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 314282003031 dimer interface [polypeptide binding]; other site 314282003032 motif 1; other site 314282003033 active site 314282003034 motif 2; other site 314282003035 motif 3; other site 314282003036 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 314282003037 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 314282003038 putative tRNA-binding site [nucleotide binding]; other site 314282003039 B3/4 domain; Region: B3_4; pfam03483 314282003040 tRNA synthetase B5 domain; Region: B5; smart00874 314282003041 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 314282003042 dimer interface [polypeptide binding]; other site 314282003043 motif 1; other site 314282003044 motif 3; other site 314282003045 motif 2; other site 314282003046 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 314282003047 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 314282003048 IHF dimer interface [polypeptide binding]; other site 314282003049 IHF - DNA interface [nucleotide binding]; other site 314282003050 NAD-dependent deacetylase; Provisional; Region: PRK00481 314282003051 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 314282003052 NAD+ binding site [chemical binding]; other site 314282003053 substrate binding site [chemical binding]; other site 314282003054 Zn binding site [ion binding]; other site 314282003055 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 314282003056 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 314282003057 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 314282003058 Phosphotransferase enzyme family; Region: APH; pfam01636 314282003059 active site 314282003060 substrate binding site [chemical binding]; other site 314282003061 ATP binding site [chemical binding]; other site 314282003062 phosphoglycolate phosphatase; Provisional; Region: PRK13222 314282003063 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 314282003064 active site 314282003065 motif I; other site 314282003066 motif II; other site 314282003067 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 314282003068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314282003069 Zn2+ binding site [ion binding]; other site 314282003070 Mg2+ binding site [ion binding]; other site 314282003071 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 314282003072 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 314282003073 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 314282003074 dimer interface [polypeptide binding]; other site 314282003075 active site 314282003076 glycine-pyridoxal phosphate binding site [chemical binding]; other site 314282003077 folate binding site [chemical binding]; other site 314282003078 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 314282003079 ATP cone domain; Region: ATP-cone; pfam03477 314282003080 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 314282003081 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 314282003082 catalytic motif [active] 314282003083 Zn binding site [ion binding]; other site 314282003084 RibD C-terminal domain; Region: RibD_C; cl17279 314282003085 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 314282003086 Lumazine binding domain; Region: Lum_binding; pfam00677 314282003087 Lumazine binding domain; Region: Lum_binding; pfam00677 314282003088 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 314282003089 homopentamer interface [polypeptide binding]; other site 314282003090 active site 314282003091 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 314282003092 methionine sulfoxide reductase A; Provisional; Region: PRK14054 314282003093 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 314282003094 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 314282003095 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 314282003096 metal ion-dependent adhesion site (MIDAS); other site 314282003097 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 314282003098 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_C39_likeD; cd02421 314282003099 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 314282003100 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314282003101 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 314282003102 Walker A/P-loop; other site 314282003103 ATP binding site [chemical binding]; other site 314282003104 Q-loop/lid; other site 314282003105 ABC transporter signature motif; other site 314282003106 Walker B; other site 314282003107 D-loop; other site 314282003108 H-loop/switch region; other site 314282003109 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 314282003110 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314282003111 HlyD family secretion protein; Region: HlyD_3; pfam13437 314282003112 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 314282003113 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314282003114 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282003115 ligand binding site [chemical binding]; other site 314282003116 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 314282003117 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 314282003118 dimerization interface [polypeptide binding]; other site 314282003119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282003120 active site 314282003121 I-site; other site 314282003122 metal binding site [ion binding]; metal-binding site 314282003123 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 314282003124 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 314282003125 glycine dehydrogenase; Provisional; Region: PRK05367 314282003126 Flagellar L-ring protein; Region: FlgH; pfam02107 314282003127 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 314282003128 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 314282003129 active site 314282003130 HIGH motif; other site 314282003131 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 314282003132 active site 314282003133 KMSKS motif; other site 314282003134 T5orf172 domain; Region: T5orf172; pfam10544 314282003135 Transposase domain (DUF772); Region: DUF772; pfam05598 314282003136 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 314282003137 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 314282003138 Methyltransferase domain; Region: Methyltransf_31; pfam13847 314282003139 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 314282003140 S-adenosylmethionine binding site [chemical binding]; other site 314282003141 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314282003142 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314282003143 Coenzyme A binding pocket [chemical binding]; other site 314282003144 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 314282003145 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 314282003146 aromatic amino acid transport protein; Region: araaP; TIGR00837 314282003147 Trp repressor protein; Region: Trp_repressor; cl17266 314282003148 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 314282003149 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314282003150 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 314282003151 active site 314282003152 metal binding site [ion binding]; metal-binding site 314282003153 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 314282003154 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314282003155 LysE type translocator; Region: LysE; cl00565 314282003156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 314282003157 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 314282003158 hypothetical protein; Provisional; Region: PRK00967 314282003159 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 314282003160 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 314282003161 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 314282003162 Acyltransferase family; Region: Acyl_transf_3; pfam01757 314282003163 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 314282003164 RibD C-terminal domain; Region: RibD_C; cl17279 314282003165 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 314282003166 hypothetical protein; Provisional; Region: PRK00967 314282003167 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 314282003168 Protein of unknown function (DUF3781); Region: DUF3781; pfam12636 314282003169 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 314282003170 Uncharacterized conserved protein [Function unknown]; Region: COG0397 314282003171 hypothetical protein; Validated; Region: PRK00029 314282003172 Predicted membrane protein [Function unknown]; Region: COG4270 314282003173 Domain of unknown function (DU1801); Region: DUF1801; cl17490 314282003174 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 314282003175 aspartate racemase; Region: asp_race; TIGR00035 314282003176 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 314282003177 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 314282003178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282003179 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 314282003180 putative dimerization interface [polypeptide binding]; other site 314282003181 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 314282003182 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 314282003183 gating phenylalanine in ion channel; other site 314282003184 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 314282003185 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cl01268 314282003186 putative substrate binding pocket [chemical binding]; other site 314282003187 trimer interface [polypeptide binding]; other site 314282003188 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 314282003189 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 314282003190 putative catalytic site [active] 314282003191 putative metal binding site [ion binding]; other site 314282003192 putative phosphate binding site [ion binding]; other site 314282003193 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 314282003194 putative catalytic site [active] 314282003195 putative metal binding site [ion binding]; other site 314282003196 putative phosphate binding site [ion binding]; other site 314282003197 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314282003198 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314282003199 Coenzyme A binding pocket [chemical binding]; other site 314282003200 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 314282003201 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 314282003202 TAP-like protein; Region: Abhydrolase_4; pfam08386 314282003203 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 314282003204 MOSC domain; Region: MOSC; pfam03473 314282003205 3-alpha domain; Region: 3-alpha; pfam03475 314282003206 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 314282003207 DNA-binding site [nucleotide binding]; DNA binding site 314282003208 RNA-binding motif; other site 314282003209 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 314282003210 putative acetyltransferase YhhY; Provisional; Region: PRK10140 314282003211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314282003212 Coenzyme A binding pocket [chemical binding]; other site 314282003213 hypothetical protein; Provisional; Region: PRK02237 314282003214 Flagellin N-methylase; Region: FliB; pfam03692 314282003215 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 314282003216 inner membrane transporter YjeM; Provisional; Region: PRK15238 314282003217 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 314282003218 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 314282003219 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314282003220 DNA binding site [nucleotide binding] 314282003221 domain linker motif; other site 314282003222 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 314282003223 putative ligand binding site [chemical binding]; other site 314282003224 putative dimerization interface [polypeptide binding]; other site 314282003225 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 314282003226 dimer interface [polypeptide binding]; other site 314282003227 putative tRNA-binding site [nucleotide binding]; other site 314282003228 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314282003229 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282003230 ligand binding site [chemical binding]; other site 314282003231 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282003232 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314282003233 ligand binding site [chemical binding]; other site 314282003234 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 314282003235 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 314282003236 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 314282003237 active site 314282003238 phosphorylation site [posttranslational modification] 314282003239 intermolecular recognition site; other site 314282003240 dimerization interface [polypeptide binding]; other site 314282003241 LytTr DNA-binding domain; Region: LytTR; smart00850 314282003242 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 314282003243 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 314282003244 Histidine kinase; Region: His_kinase; pfam06580 314282003245 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 314282003246 ATP binding site [chemical binding]; other site 314282003247 Mg2+ binding site [ion binding]; other site 314282003248 G-X-G motif; other site 314282003249 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 314282003250 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 314282003251 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 314282003252 putative ligand binding site [chemical binding]; other site 314282003253 putative NAD binding site [chemical binding]; other site 314282003254 catalytic site [active] 314282003255 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314282003256 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 314282003257 substrate binding site [chemical binding]; other site 314282003258 ATP binding site [chemical binding]; other site 314282003259 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 314282003260 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 314282003261 active site 314282003262 HIGH motif; other site 314282003263 KMSKS motif; other site 314282003264 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 314282003265 tRNA binding surface [nucleotide binding]; other site 314282003266 anticodon binding site; other site 314282003267 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 314282003268 dimer interface [polypeptide binding]; other site 314282003269 putative tRNA-binding site [nucleotide binding]; other site 314282003270 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 314282003271 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 314282003272 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 314282003273 Nucleoside recognition; Region: Gate; pfam07670 314282003274 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 314282003275 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 314282003276 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 314282003277 putative active site [active] 314282003278 putative NTP binding site [chemical binding]; other site 314282003279 putative nucleic acid binding site [nucleotide binding]; other site 314282003280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 314282003281 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 314282003282 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 314282003283 active site 314282003284 HIGH motif; other site 314282003285 dimer interface [polypeptide binding]; other site 314282003286 KMSKS motif; other site 314282003287 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 314282003288 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 314282003289 dimer interface [polypeptide binding]; other site 314282003290 active site 314282003291 metal binding site [ion binding]; metal-binding site 314282003292 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314282003293 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 314282003294 putative C-terminal domain interface [polypeptide binding]; other site 314282003295 putative GSH binding site (G-site) [chemical binding]; other site 314282003296 putative dimer interface [polypeptide binding]; other site 314282003297 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 314282003298 N-terminal domain interface [polypeptide binding]; other site 314282003299 dimer interface [polypeptide binding]; other site 314282003300 substrate binding pocket (H-site) [chemical binding]; other site 314282003301 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 314282003302 Prostaglandin dehydrogenases; Region: PGDH; cd05288 314282003303 NAD(P) binding site [chemical binding]; other site 314282003304 substrate binding site [chemical binding]; other site 314282003305 dimer interface [polypeptide binding]; other site 314282003306 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314282003307 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314282003308 regulatory protein UhpC; Provisional; Region: PRK11663 314282003309 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 314282003310 putative substrate translocation pore; other site 314282003311 sensory histidine kinase UhpB; Provisional; Region: PRK11644 314282003312 MASE1; Region: MASE1; pfam05231 314282003313 Histidine kinase; Region: HisKA_3; pfam07730 314282003314 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 314282003315 ATP binding site [chemical binding]; other site 314282003316 Mg2+ binding site [ion binding]; other site 314282003317 G-X-G motif; other site 314282003318 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 314282003319 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 314282003320 active site 314282003321 phosphorylation site [posttranslational modification] 314282003322 intermolecular recognition site; other site 314282003323 dimerization interface [polypeptide binding]; other site 314282003324 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 314282003325 DNA binding residues [nucleotide binding] 314282003326 dimerization interface [polypeptide binding]; other site 314282003327 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 314282003328 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 314282003329 G1 box; other site 314282003330 GTP/Mg2+ binding site [chemical binding]; other site 314282003331 Switch I region; other site 314282003332 G2 box; other site 314282003333 G3 box; other site 314282003334 Switch II region; other site 314282003335 G4 box; other site 314282003336 G5 box; other site 314282003337 Nucleoside recognition; Region: Gate; pfam07670 314282003338 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 314282003339 FeoA domain; Region: FeoA; cl00838 314282003340 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282003341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282003342 dimer interface [polypeptide binding]; other site 314282003343 putative CheW interface [polypeptide binding]; other site 314282003344 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 314282003345 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 314282003346 FeS/SAM binding site; other site 314282003347 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 314282003348 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 314282003349 Sulfatase; Region: Sulfatase; pfam00884 314282003350 propionate/acetate kinase; Provisional; Region: PRK12379 314282003351 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 314282003352 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 314282003353 FOG: CBS domain [General function prediction only]; Region: COG0517 314282003354 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_16; cd04629 314282003355 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 314282003356 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 314282003357 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 314282003358 dimer interface [polypeptide binding]; other site 314282003359 active site 314282003360 citrylCoA binding site [chemical binding]; other site 314282003361 NADH binding [chemical binding]; other site 314282003362 cationic pore residues; other site 314282003363 oxalacetate/citrate binding site [chemical binding]; other site 314282003364 coenzyme A binding site [chemical binding]; other site 314282003365 catalytic triad [active] 314282003366 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 314282003367 Iron-sulfur protein interface; other site 314282003368 proximal quinone binding site [chemical binding]; other site 314282003369 SdhD (CybS) interface [polypeptide binding]; other site 314282003370 proximal heme binding site [chemical binding]; other site 314282003371 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 314282003372 SdhC subunit interface [polypeptide binding]; other site 314282003373 proximal heme binding site [chemical binding]; other site 314282003374 cardiolipin binding site; other site 314282003375 Iron-sulfur protein interface; other site 314282003376 proximal quinone binding site [chemical binding]; other site 314282003377 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 314282003378 L-aspartate oxidase; Provisional; Region: PRK06175 314282003379 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 314282003380 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 314282003381 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 314282003382 catalytic loop [active] 314282003383 iron binding site [ion binding]; other site 314282003384 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 314282003385 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 314282003386 TPP-binding site [chemical binding]; other site 314282003387 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 314282003388 dimer interface [polypeptide binding]; other site 314282003389 PYR/PP interface [polypeptide binding]; other site 314282003390 TPP binding site [chemical binding]; other site 314282003391 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 314282003392 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 314282003393 E3 interaction surface; other site 314282003394 lipoyl attachment site [posttranslational modification]; other site 314282003395 e3 binding domain; Region: E3_binding; pfam02817 314282003396 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 314282003397 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 314282003398 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 314282003399 CoA-ligase; Region: Ligase_CoA; pfam00549 314282003400 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 314282003401 CoA binding domain; Region: CoA_binding; pfam02629 314282003402 CoA-ligase; Region: Ligase_CoA; pfam00549 314282003403 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 314282003404 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 314282003405 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 314282003406 dimerization interface [polypeptide binding]; other site 314282003407 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282003408 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282003409 dimer interface [polypeptide binding]; other site 314282003410 putative CheW interface [polypeptide binding]; other site 314282003411 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314282003412 DDE domain; Region: DDE_Tnp_IS240; pfam13610 314282003413 Integrase core domain; Region: rve; pfam00665 314282003414 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 314282003415 DDE domain; Region: DDE_Tnp_IS240; pfam13610 314282003416 Integrase core domain; Region: rve; pfam00665 314282003417 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 314282003418 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 314282003419 YaeQ protein; Region: YaeQ; pfam07152 314282003420 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 314282003421 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 314282003422 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 314282003423 Ligand Binding Site [chemical binding]; other site 314282003424 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 314282003425 active site residue [active] 314282003426 Uncharacterized conserved protein [Function unknown]; Region: COG1434 314282003427 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 314282003428 putative active site [active] 314282003429 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314282003430 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 314282003431 S-adenosylmethionine binding site [chemical binding]; other site 314282003432 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 314282003433 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 314282003434 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 314282003435 S-adenosylmethionine binding site [chemical binding]; other site 314282003436 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 314282003437 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 314282003438 mce related protein; Region: MCE; pfam02470 314282003439 mce related protein; Region: MCE; pfam02470 314282003440 mce related protein; Region: MCE; pfam02470 314282003441 mce related protein; Region: MCE; pfam02470 314282003442 mce related protein; Region: MCE; pfam02470 314282003443 mce related protein; Region: MCE; pfam02470 314282003444 Paraquat-inducible protein A; Region: PqiA; pfam04403 314282003445 Paraquat-inducible protein A; Region: PqiA; pfam04403 314282003446 YebG protein; Region: YebG; pfam07130 314282003447 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 314282003448 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 314282003449 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 314282003450 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 314282003451 active site 314282003452 dimer interface [polypeptide binding]; other site 314282003453 motif 1; other site 314282003454 motif 2; other site 314282003455 motif 3; other site 314282003456 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 314282003457 anticodon binding site; other site 314282003458 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 314282003459 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 314282003460 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 314282003461 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 314282003462 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 314282003463 23S rRNA binding site [nucleotide binding]; other site 314282003464 L21 binding site [polypeptide binding]; other site 314282003465 L13 binding site [polypeptide binding]; other site 314282003466 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 314282003467 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 314282003468 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 314282003469 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 314282003470 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 314282003471 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 314282003472 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 314282003473 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 314282003474 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 314282003475 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 314282003476 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 314282003477 Protein export membrane protein; Region: SecD_SecF; pfam02355 314282003478 lipoprotein NlpI; Provisional; Region: PRK11189 314282003479 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 314282003480 binding surface 314282003481 TPR motif; other site 314282003482 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 314282003483 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 314282003484 NAD(P) binding site [chemical binding]; other site 314282003485 homodimer interface [polypeptide binding]; other site 314282003486 substrate binding site [chemical binding]; other site 314282003487 active site 314282003488 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 314282003489 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 314282003490 inhibitor-cofactor binding pocket; inhibition site 314282003491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282003492 catalytic residue [active] 314282003493 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 314282003494 ligand binding site; other site 314282003495 tetramer interface; other site 314282003496 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 314282003497 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 314282003498 pseudaminic acid synthase; Region: PseI; TIGR03586 314282003499 NeuB family; Region: NeuB; pfam03102 314282003500 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 314282003501 NeuB binding interface [polypeptide binding]; other site 314282003502 putative substrate binding site [chemical binding]; other site 314282003503 thioredoxin reductase; Provisional; Region: PRK10262 314282003504 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314282003505 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314282003506 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 314282003507 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 314282003508 homodimer interface [polypeptide binding]; other site 314282003509 oligonucleotide binding site [chemical binding]; other site 314282003510 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314282003511 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 314282003512 RNA binding surface [nucleotide binding]; other site 314282003513 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314282003514 active site 314282003515 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 314282003516 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 314282003517 motif II; other site 314282003518 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 314282003519 hypothetical protein; Validated; Region: PRK09071 314282003520 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 314282003521 DNA-specific endonuclease I; Provisional; Region: PRK15137 314282003522 Endonuclease I; Region: Endonuclease_1; pfam04231 314282003523 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 314282003524 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 314282003525 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 314282003526 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 314282003527 active site 314282003528 phosphate binding residues; other site 314282003529 catalytic residues [active] 314282003530 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 314282003531 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 314282003532 pyruvate kinase; Provisional; Region: PRK05826 314282003533 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 314282003534 domain interfaces; other site 314282003535 active site 314282003536 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 314282003537 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 314282003538 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 314282003539 putative active site [active] 314282003540 glucokinase; Provisional; Region: glk; PRK00292 314282003541 glucokinase, proteobacterial type; Region: glk; TIGR00749 314282003542 Endonuclease I; Region: Endonuclease_1; cl01003 314282003543 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 314282003544 PAS fold; Region: PAS_3; pfam08447 314282003545 putative active site [active] 314282003546 heme pocket [chemical binding]; other site 314282003547 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282003548 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282003549 dimer interface [polypeptide binding]; other site 314282003550 putative CheW interface [polypeptide binding]; other site 314282003551 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 314282003552 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282003553 ligand binding site [chemical binding]; other site 314282003554 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282003555 MAPEG family; Region: MAPEG; pfam01124 314282003556 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 314282003557 Scramblase; Region: Scramblase; pfam03803 314282003558 hypothetical protein; Provisional; Region: PRK14851 314282003559 hypothetical protein; Provisional; Region: PRK07877 314282003560 Transcriptional regulators [Transcription]; Region: MarR; COG1846 314282003561 MarR family; Region: MarR_2; pfam12802 314282003562 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314282003563 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 314282003564 putative substrate translocation pore; other site 314282003565 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 314282003566 Sulfatase; Region: Sulfatase; cl17466 314282003567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314282003568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282003569 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314282003570 dimerization interface [polypeptide binding]; other site 314282003571 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 314282003572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 314282003573 YheO-like PAS domain; Region: PAS_6; pfam08348 314282003574 HTH domain; Region: HTH_22; pfam13309 314282003575 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 314282003576 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 314282003577 homotrimer interaction site [polypeptide binding]; other site 314282003578 putative active site [active] 314282003579 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 314282003580 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 314282003581 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 314282003582 ABC-2 type transporter; Region: ABC2_membrane; cl17235 314282003583 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 314282003584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282003585 Walker A/P-loop; other site 314282003586 ATP binding site [chemical binding]; other site 314282003587 Q-loop/lid; other site 314282003588 ABC transporter signature motif; other site 314282003589 Walker B; other site 314282003590 D-loop; other site 314282003591 H-loop/switch region; other site 314282003592 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 314282003593 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 314282003594 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 314282003595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 314282003596 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 314282003597 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 314282003598 active site 314282003599 homodimer interface [polypeptide binding]; other site 314282003600 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 314282003601 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 314282003602 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 314282003603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 314282003604 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 314282003605 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314282003606 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 314282003607 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 314282003608 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 314282003609 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 314282003610 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 314282003611 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 314282003612 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 314282003613 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 314282003614 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 314282003615 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 314282003616 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 314282003617 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 314282003618 active site 314282003619 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 314282003620 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 314282003621 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 314282003622 Uncharacterized conserved protein [Function unknown]; Region: COG2128 314282003623 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314282003624 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282003625 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 314282003626 putative effector binding pocket; other site 314282003627 dimerization interface [polypeptide binding]; other site 314282003628 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314282003629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314282003630 NAD(P) binding site [chemical binding]; other site 314282003631 active site 314282003632 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 314282003633 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 314282003634 active site 314282003635 metal-binding site 314282003636 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 314282003637 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 314282003638 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314282003639 catalytic residue [active] 314282003640 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314282003641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282003642 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 314282003643 dimerization interface [polypeptide binding]; other site 314282003644 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 314282003645 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 314282003646 active site 314282003647 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314282003648 dimer interface [polypeptide binding]; other site 314282003649 substrate binding site [chemical binding]; other site 314282003650 catalytic residue [active] 314282003651 Predicted membrane protein [Function unknown]; Region: COG1288 314282003652 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 314282003653 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 314282003654 hypothetical protein; Provisional; Region: PRK14013 314282003655 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 314282003656 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 314282003657 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 314282003658 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 314282003659 dimer interface [polypeptide binding]; other site 314282003660 substrate binding site [chemical binding]; other site 314282003661 ATP binding site [chemical binding]; other site 314282003662 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 314282003663 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282003664 Walker A/P-loop; other site 314282003665 ATP binding site [chemical binding]; other site 314282003666 Q-loop/lid; other site 314282003667 ABC transporter signature motif; other site 314282003668 Walker B; other site 314282003669 D-loop; other site 314282003670 H-loop/switch region; other site 314282003671 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 314282003672 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 314282003673 dimer interface [polypeptide binding]; other site 314282003674 conserved gate region; other site 314282003675 putative PBP binding loops; other site 314282003676 ABC-ATPase subunit interface; other site 314282003677 NMT1/THI5 like; Region: NMT1; pfam09084 314282003678 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 314282003679 substrate binding pocket [chemical binding]; other site 314282003680 membrane-bound complex binding site; other site 314282003681 Putative transcription activator [Transcription]; Region: TenA; COG0819 314282003682 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 314282003683 substrate binding site [chemical binding]; other site 314282003684 multimerization interface [polypeptide binding]; other site 314282003685 ATP binding site [chemical binding]; other site 314282003686 disulfide bond formation protein B; Provisional; Region: PRK01749 314282003687 fatty acid metabolism regulator; Provisional; Region: PRK04984 314282003688 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314282003689 DNA-binding site [nucleotide binding]; DNA binding site 314282003690 FadR C-terminal domain; Region: FadR_C; pfam07840 314282003691 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 314282003692 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 314282003693 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 314282003694 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 314282003695 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 314282003696 recombination factor protein RarA; Reviewed; Region: PRK13342 314282003697 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 314282003698 Walker A motif; other site 314282003699 ATP binding site [chemical binding]; other site 314282003700 Walker B motif; other site 314282003701 arginine finger; other site 314282003702 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 314282003703 CrcB-like protein; Region: CRCB; cl09114 314282003704 seryl-tRNA synthetase; Provisional; Region: PRK05431 314282003705 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 314282003706 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 314282003707 dimer interface [polypeptide binding]; other site 314282003708 active site 314282003709 motif 1; other site 314282003710 motif 2; other site 314282003711 motif 3; other site 314282003712 Uncharacterized protein family (UPF0253); Region: UPF0253; pfam06786 314282003713 Cell division inhibitor SulA; Region: SulA; cl01880 314282003714 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 314282003715 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 314282003716 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 314282003717 AAA domain; Region: AAA_11; pfam13086 314282003718 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 314282003719 ATP binding site [chemical binding]; other site 314282003720 putative Mg++ binding site [ion binding]; other site 314282003721 AAA domain; Region: AAA_12; pfam13087 314282003722 Ycf46; Provisional; Region: ycf46; CHL00195 314282003723 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 314282003724 Walker A motif; other site 314282003725 ATP binding site [chemical binding]; other site 314282003726 Walker B motif; other site 314282003727 arginine finger; other site 314282003728 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 314282003729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314282003730 ATP-grasp domain; Region: ATP-grasp; pfam02222 314282003731 Putative exonuclease, RdgC; Region: RdgC; pfam04381 314282003732 Uncharacterized conserved protein [Function unknown]; Region: COG0327 314282003733 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 314282003734 inosine/guanosine kinase; Provisional; Region: PRK15074 314282003735 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314282003736 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 314282003737 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 314282003738 NAD binding site [chemical binding]; other site 314282003739 homodimer interface [polypeptide binding]; other site 314282003740 active site 314282003741 substrate binding site [chemical binding]; other site 314282003742 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 314282003743 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 314282003744 dimer interface [polypeptide binding]; other site 314282003745 active site 314282003746 galactokinase; Provisional; Region: PRK05101 314282003747 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 314282003748 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 314282003749 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 314282003750 active site 314282003751 catalytic residues [active] 314282003752 D-ribose pyranase; Provisional; Region: PRK11797 314282003753 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 314282003754 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 314282003755 Walker A/P-loop; other site 314282003756 ATP binding site [chemical binding]; other site 314282003757 Q-loop/lid; other site 314282003758 ABC transporter signature motif; other site 314282003759 Walker B; other site 314282003760 D-loop; other site 314282003761 H-loop/switch region; other site 314282003762 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 314282003763 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 314282003764 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 314282003765 TM-ABC transporter signature motif; other site 314282003766 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 314282003767 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 314282003768 ligand binding site [chemical binding]; other site 314282003769 dimerization interface [polypeptide binding]; other site 314282003770 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314282003771 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 314282003772 substrate binding site [chemical binding]; other site 314282003773 dimer interface [polypeptide binding]; other site 314282003774 ATP binding site [chemical binding]; other site 314282003775 transcriptional repressor RbsR; Provisional; Region: PRK10423 314282003776 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314282003777 DNA binding site [nucleotide binding] 314282003778 domain linker motif; other site 314282003779 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 314282003780 dimerization interface [polypeptide binding]; other site 314282003781 ligand binding site [chemical binding]; other site 314282003782 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 314282003783 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 314282003784 putative substrate translocation pore; other site 314282003785 putative chaperone; Provisional; Region: PRK11678 314282003786 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 314282003787 nucleotide binding site [chemical binding]; other site 314282003788 putative NEF/HSP70 interaction site [polypeptide binding]; other site 314282003789 SBD interface [polypeptide binding]; other site 314282003790 DNA repair protein RadA; Provisional; Region: PRK11823 314282003791 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 314282003792 Walker A motif; other site 314282003793 ATP binding site [chemical binding]; other site 314282003794 Walker B motif; other site 314282003795 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 314282003796 RecX family; Region: RecX; pfam02631 314282003797 RecX family; Region: RecX; pfam02631 314282003798 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 314282003799 hypothetical protein; Provisional; Region: PRK11212 314282003800 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 314282003801 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 314282003802 active site 314282003803 metal binding site [ion binding]; metal-binding site 314282003804 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282003805 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282003806 metal binding site [ion binding]; metal-binding site 314282003807 active site 314282003808 I-site; other site 314282003809 chaperone protein DnaJ; Provisional; Region: PRK14299 314282003810 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 314282003811 HSP70 interaction site [polypeptide binding]; other site 314282003812 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 314282003813 substrate binding site [polypeptide binding]; other site 314282003814 dimer interface [polypeptide binding]; other site 314282003815 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314282003816 EamA-like transporter family; Region: EamA; pfam00892 314282003817 EamA-like transporter family; Region: EamA; pfam00892 314282003818 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314282003819 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 314282003820 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 314282003821 putative active site [active] 314282003822 Zn binding site [ion binding]; other site 314282003823 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 314282003824 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 314282003825 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 314282003826 hypothetical protein; Provisional; Region: PRK12378 314282003827 Protein of unknown function (DUF342); Region: DUF342; pfam03961 314282003828 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 314282003829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314282003830 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 314282003831 NAD(P) binding site [chemical binding]; other site 314282003832 active site 314282003833 peptide synthase; Provisional; Region: PRK09274 314282003834 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 314282003835 acyl-activating enzyme (AAE) consensus motif; other site 314282003836 putative AMP binding site [chemical binding]; other site 314282003837 putative active site [active] 314282003838 putative CoA binding site [chemical binding]; other site 314282003839 haloalkane dehalogenase; Provisional; Region: PRK03592 314282003840 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 314282003841 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 314282003842 dimer interface [polypeptide binding]; other site 314282003843 active site 314282003844 CoA binding pocket [chemical binding]; other site 314282003845 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 314282003846 Uncharacterized conserved protein [Function unknown]; Region: COG4121 314282003847 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 314282003848 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 314282003849 dimer interface [polypeptide binding]; other site 314282003850 active site 314282003851 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 314282003852 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 314282003853 ligand binding site [chemical binding]; other site 314282003854 NAD binding site [chemical binding]; other site 314282003855 catalytic site [active] 314282003856 homodimer interface [polypeptide binding]; other site 314282003857 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 314282003858 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 314282003859 FimV N-terminal domain; Region: FimV_core; TIGR03505 314282003860 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 314282003861 beta-hexosaminidase; Provisional; Region: PRK05337 314282003862 hypothetical protein; Provisional; Region: PRK04940 314282003863 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 314282003864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314282003865 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 314282003866 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 314282003867 transmembrane helices; other site 314282003868 protease 4; Provisional; Region: PRK10949 314282003869 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 314282003870 tandem repeat interface [polypeptide binding]; other site 314282003871 oligomer interface [polypeptide binding]; other site 314282003872 active site residues [active] 314282003873 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 314282003874 tandem repeat interface [polypeptide binding]; other site 314282003875 oligomer interface [polypeptide binding]; other site 314282003876 active site residues [active] 314282003877 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 314282003878 dimer interface [polypeptide binding]; other site 314282003879 active site 1 [active] 314282003880 active site 2 [active] 314282003881 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 314282003882 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 314282003883 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314282003884 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 314282003885 ATP binding site [chemical binding]; other site 314282003886 Mg2+ binding site [ion binding]; other site 314282003887 G-X-G motif; other site 314282003888 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 314282003889 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 314282003890 chorismate binding enzyme; Region: Chorismate_bind; cl10555 314282003891 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 314282003892 Fumarase C-terminus; Region: Fumerase_C; pfam05683 314282003893 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 314282003894 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 314282003895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282003896 homodimer interface [polypeptide binding]; other site 314282003897 catalytic residue [active] 314282003898 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 314282003899 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 314282003900 domain interface [polypeptide binding]; other site 314282003901 putative active site [active] 314282003902 catalytic site [active] 314282003903 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 314282003904 putative active site [active] 314282003905 catalytic site [active] 314282003906 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314282003907 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 314282003908 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 314282003909 putative acyl-acceptor binding pocket; other site 314282003910 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 314282003911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314282003912 NAD(P) binding site [chemical binding]; other site 314282003913 active site 314282003914 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 314282003915 putative inner membrane peptidase; Provisional; Region: PRK11778 314282003916 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 314282003917 tandem repeat interface [polypeptide binding]; other site 314282003918 oligomer interface [polypeptide binding]; other site 314282003919 active site residues [active] 314282003920 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 314282003921 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 314282003922 active site 314282003923 interdomain interaction site; other site 314282003924 putative metal-binding site [ion binding]; other site 314282003925 nucleotide binding site [chemical binding]; other site 314282003926 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 314282003927 domain I; other site 314282003928 DNA binding groove [nucleotide binding] 314282003929 phosphate binding site [ion binding]; other site 314282003930 domain II; other site 314282003931 domain III; other site 314282003932 nucleotide binding site [chemical binding]; other site 314282003933 catalytic site [active] 314282003934 domain IV; other site 314282003935 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314282003936 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 314282003937 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 314282003938 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 314282003939 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 314282003940 dimerization interface 3.5A [polypeptide binding]; other site 314282003941 active site 314282003942 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 314282003943 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314282003944 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314282003945 Sporulation related domain; Region: SPOR; pfam05036 314282003946 Colicin V production protein; Region: Colicin_V; cl00567 314282003947 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 314282003948 amidophosphoribosyltransferase; Provisional; Region: PRK09246 314282003949 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 314282003950 active site 314282003951 tetramer interface [polypeptide binding]; other site 314282003952 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314282003953 active site 314282003954 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 314282003955 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 314282003956 putative dimer interface [polypeptide binding]; other site 314282003957 putative anticodon binding site; other site 314282003958 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 314282003959 homodimer interface [polypeptide binding]; other site 314282003960 motif 1; other site 314282003961 motif 2; other site 314282003962 active site 314282003963 motif 3; other site 314282003964 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 314282003965 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 314282003966 inhibitor-cofactor binding pocket; inhibition site 314282003967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282003968 catalytic residue [active] 314282003969 biotin synthase; Provisional; Region: PRK15108 314282003970 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 314282003971 FeS/SAM binding site; other site 314282003972 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 314282003973 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 314282003974 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 314282003975 substrate-cofactor binding pocket; other site 314282003976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282003977 catalytic residue [active] 314282003978 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 314282003979 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 314282003980 S-adenosylmethionine binding site [chemical binding]; other site 314282003981 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 314282003982 AAA domain; Region: AAA_26; pfam13500 314282003983 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 314282003984 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 314282003985 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 314282003986 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 314282003987 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 314282003988 dimer interface [polypeptide binding]; other site 314282003989 conserved gate region; other site 314282003990 putative PBP binding loops; other site 314282003991 ABC-ATPase subunit interface; other site 314282003992 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 314282003993 dimer interface [polypeptide binding]; other site 314282003994 conserved gate region; other site 314282003995 putative PBP binding loops; other site 314282003996 ABC-ATPase subunit interface; other site 314282003997 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 314282003998 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282003999 Walker A/P-loop; other site 314282004000 ATP binding site [chemical binding]; other site 314282004001 Q-loop/lid; other site 314282004002 ABC transporter signature motif; other site 314282004003 Walker B; other site 314282004004 D-loop; other site 314282004005 H-loop/switch region; other site 314282004006 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 314282004007 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 314282004008 putative substrate translocation pore; other site 314282004009 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 314282004010 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314282004011 putative NAD(P) binding site [chemical binding]; other site 314282004012 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 314282004013 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 314282004014 metal binding site [ion binding]; metal-binding site 314282004015 putative dimer interface [polypeptide binding]; other site 314282004016 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 314282004017 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 314282004018 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 314282004019 active site residue [active] 314282004020 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 314282004021 active site residue [active] 314282004022 Lysine efflux permease [General function prediction only]; Region: COG1279 314282004023 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 314282004024 Cache domain; Region: Cache_2; cl07034 314282004025 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 314282004026 HAMP domain; Region: HAMP; pfam00672 314282004027 dimerization interface [polypeptide binding]; other site 314282004028 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282004029 dimer interface [polypeptide binding]; other site 314282004030 putative CheW interface [polypeptide binding]; other site 314282004031 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 314282004032 Cache domain; Region: Cache_2; cl07034 314282004033 Cache domain; Region: Cache_2; cl07034 314282004034 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 314282004035 HAMP domain; Region: HAMP; pfam00672 314282004036 dimerization interface [polypeptide binding]; other site 314282004037 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282004038 dimer interface [polypeptide binding]; other site 314282004039 putative CheW interface [polypeptide binding]; other site 314282004040 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 314282004041 putative tRNA-binding site [nucleotide binding]; other site 314282004042 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 314282004043 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314282004044 NAD(P) binding site [chemical binding]; other site 314282004045 putative active site [active] 314282004046 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 314282004047 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 314282004048 active site 314282004049 putative substrate binding pocket [chemical binding]; other site 314282004050 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 314282004051 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 314282004052 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 314282004053 active site residue [active] 314282004054 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 314282004055 S-adenosylmethionine binding site [chemical binding]; other site 314282004056 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 314282004057 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 314282004058 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 314282004059 Coenzyme A binding pocket [chemical binding]; other site 314282004060 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 314282004061 Predicted membrane protein [Function unknown]; Region: COG2311 314282004062 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 314282004063 Protein of unknown function (DUF418); Region: DUF418; pfam04235 314282004064 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 314282004065 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 314282004066 Predicted transcriptional regulator [Transcription]; Region: COG2944 314282004067 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 314282004068 non-specific DNA binding site [nucleotide binding]; other site 314282004069 salt bridge; other site 314282004070 sequence-specific DNA binding site [nucleotide binding]; other site 314282004071 potential frameshift: common BLAST hit: gi|77359628|ref|YP_339203.1| transposase (IS492) 314282004072 Integrase core domain; Region: rve; pfam00665 314282004073 Integrase core domain; Region: rve_3; pfam13683 314282004074 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314282004075 Transposase; Region: HTH_Tnp_1; pfam01527 314282004076 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282004077 Walker A/P-loop; other site 314282004078 ATP binding site [chemical binding]; other site 314282004079 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 314282004080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 314282004081 Bor protein; Region: Lambda_Bor; pfam06291 314282004082 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 314282004083 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 314282004084 metal binding site [ion binding]; metal-binding site 314282004085 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 314282004086 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 314282004087 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 314282004088 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 314282004089 ABC-ATPase subunit interface; other site 314282004090 dimer interface [polypeptide binding]; other site 314282004091 putative PBP binding regions; other site 314282004092 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 314282004093 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 314282004094 ABC-ATPase subunit interface; other site 314282004095 dimer interface [polypeptide binding]; other site 314282004096 putative PBP binding regions; other site 314282004097 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 314282004098 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 314282004099 ATP binding site [chemical binding]; other site 314282004100 active site 314282004101 substrate binding site [chemical binding]; other site 314282004102 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 314282004103 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 314282004104 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 314282004105 dihydrodipicolinate synthase; Region: dapA; TIGR00674 314282004106 dimer interface [polypeptide binding]; other site 314282004107 active site 314282004108 catalytic residue [active] 314282004109 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 314282004110 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 314282004111 Family of unknown function (DUF633); Region: DUF633; pfam04816 314282004112 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 314282004113 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 314282004114 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 314282004115 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 314282004116 RNA binding site [nucleotide binding]; other site 314282004117 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 314282004118 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 314282004119 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 314282004120 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 314282004121 formate transporter FocA; Region: formate_focA; TIGR04060 314282004122 FOG: CBS domain [General function prediction only]; Region: COG0517 314282004123 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 314282004124 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 314282004125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282004126 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 314282004127 putative dimerization interface [polypeptide binding]; other site 314282004128 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 314282004129 Carbon starvation protein CstA; Region: CstA; pfam02554 314282004130 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 314282004131 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 314282004132 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 314282004133 active site 314282004134 phosphorylation site [posttranslational modification] 314282004135 intermolecular recognition site; other site 314282004136 dimerization interface [polypeptide binding]; other site 314282004137 LytTr DNA-binding domain; Region: LytTR; smart00850 314282004138 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 314282004139 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 314282004140 Histidine kinase; Region: His_kinase; pfam06580 314282004141 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 314282004142 ATP binding site [chemical binding]; other site 314282004143 Mg2+ binding site [ion binding]; other site 314282004144 G-X-G motif; other site 314282004145 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 314282004146 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 314282004147 ATP binding site [chemical binding]; other site 314282004148 Mg++ binding site [ion binding]; other site 314282004149 motif III; other site 314282004150 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 314282004151 nucleotide binding region [chemical binding]; other site 314282004152 ATP-binding site [chemical binding]; other site 314282004153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 314282004154 Family of unknown function (DUF490); Region: DUF490; pfam04357 314282004155 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 314282004156 Surface antigen; Region: Bac_surface_Ag; pfam01103 314282004157 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314282004158 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 314282004159 ligand binding site [chemical binding]; other site 314282004160 flexible hinge region; other site 314282004161 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 314282004162 heat shock protein HtpX; Provisional; Region: PRK05457 314282004163 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 314282004164 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 314282004165 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 314282004166 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 314282004167 Peptidase family U32; Region: Peptidase_U32; pfam01136 314282004168 putative protease; Provisional; Region: PRK15447 314282004169 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 314282004170 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 314282004171 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 314282004172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282004173 Walker A/P-loop; other site 314282004174 ATP binding site [chemical binding]; other site 314282004175 Q-loop/lid; other site 314282004176 ABC transporter signature motif; other site 314282004177 Walker B; other site 314282004178 D-loop; other site 314282004179 H-loop/switch region; other site 314282004180 TOBE domain; Region: TOBE; cl01440 314282004181 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 314282004182 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 314282004183 dimer interface [polypeptide binding]; other site 314282004184 conserved gate region; other site 314282004185 putative PBP binding loops; other site 314282004186 ABC-ATPase subunit interface; other site 314282004187 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 314282004188 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 314282004189 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 314282004190 MoaE homodimer interface [polypeptide binding]; other site 314282004191 MoaD interaction [polypeptide binding]; other site 314282004192 active site residues [active] 314282004193 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 314282004194 MoaE interaction surface [polypeptide binding]; other site 314282004195 MoeB interaction surface [polypeptide binding]; other site 314282004196 thiocarboxylated glycine; other site 314282004197 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 314282004198 trimer interface [polypeptide binding]; other site 314282004199 dimer interface [polypeptide binding]; other site 314282004200 putative active site [active] 314282004201 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 314282004202 MPT binding site; other site 314282004203 trimer interface [polypeptide binding]; other site 314282004204 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 314282004205 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 314282004206 GTP binding site; other site 314282004207 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 314282004208 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 314282004209 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 314282004210 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 314282004211 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_Nitrate-R-NapA-like; cd02754 314282004212 [4Fe-4S] binding site [ion binding]; other site 314282004213 molybdopterin cofactor binding site; other site 314282004214 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 314282004215 molybdopterin cofactor binding site; other site 314282004216 NapD protein; Region: NapD; pfam03927 314282004217 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 314282004218 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 314282004219 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 314282004220 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 314282004221 FeS/SAM binding site; other site 314282004222 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 314282004223 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 314282004224 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 314282004225 Histidine kinase; Region: HisKA_3; pfam07730 314282004226 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 314282004227 ATP binding site [chemical binding]; other site 314282004228 Mg2+ binding site [ion binding]; other site 314282004229 G-X-G motif; other site 314282004230 transcriptional regulator NarL; Provisional; Region: PRK10651 314282004231 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 314282004232 active site 314282004233 phosphorylation site [posttranslational modification] 314282004234 intermolecular recognition site; other site 314282004235 dimerization interface [polypeptide binding]; other site 314282004236 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 314282004237 DNA binding residues [nucleotide binding] 314282004238 dimerization interface [polypeptide binding]; other site 314282004239 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 314282004240 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 314282004241 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 314282004242 hypothetical protein; Provisional; Region: PRK10621 314282004243 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314282004244 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 314282004245 Protein of unknown function (DUF2496); Region: DUF2496; pfam10689 314282004246 Acylphosphatase; Region: Acylphosphatase; cl00551 314282004247 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 314282004248 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 314282004249 active site 314282004250 HIGH motif; other site 314282004251 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 314282004252 KMSKS motif; other site 314282004253 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 314282004254 tRNA binding surface [nucleotide binding]; other site 314282004255 anticodon binding site; other site 314282004256 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 314282004257 substrate binding site [chemical binding]; other site 314282004258 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314282004259 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 314282004260 putative active site [active] 314282004261 putative metal binding site [ion binding]; other site 314282004262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314282004263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282004264 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 314282004265 putative effector binding pocket; other site 314282004266 dimerization interface [polypeptide binding]; other site 314282004267 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 314282004268 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 314282004269 HlyD family secretion protein; Region: HlyD_3; pfam13437 314282004270 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 314282004271 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 314282004272 putative substrate translocation pore; other site 314282004273 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 314282004274 carboxy-terminal protease; Provisional; Region: PRK11186 314282004275 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 314282004276 protein binding site [polypeptide binding]; other site 314282004277 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 314282004278 Catalytic dyad [active] 314282004279 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 314282004280 ProP expression regulator; Provisional; Region: PRK04950 314282004281 ProQ/FINO family; Region: ProQ; pfam04352 314282004282 putative protease; Provisional; Region: PRK15452 314282004283 Peptidase family U32; Region: Peptidase_U32; pfam01136 314282004284 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 314282004285 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 314282004286 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 314282004287 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 314282004288 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 314282004289 peptide binding site [polypeptide binding]; other site 314282004290 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 314282004291 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 314282004292 putative PBP binding loops; other site 314282004293 ABC-ATPase subunit interface; other site 314282004294 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 314282004295 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 314282004296 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 314282004297 ABC-ATPase subunit interface; other site 314282004298 putative PBP binding loops; other site 314282004299 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 314282004300 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314282004301 Walker A/P-loop; other site 314282004302 ATP binding site [chemical binding]; other site 314282004303 Q-loop/lid; other site 314282004304 ABC transporter signature motif; other site 314282004305 Walker B; other site 314282004306 D-loop; other site 314282004307 H-loop/switch region; other site 314282004308 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 314282004309 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 314282004310 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314282004311 Walker A/P-loop; other site 314282004312 ATP binding site [chemical binding]; other site 314282004313 Q-loop/lid; other site 314282004314 ABC transporter signature motif; other site 314282004315 Walker B; other site 314282004316 D-loop; other site 314282004317 H-loop/switch region; other site 314282004318 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 314282004319 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 314282004320 Ligand Binding Site [chemical binding]; other site 314282004321 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 314282004322 triosephosphate isomerase; Provisional; Region: PRK14567 314282004323 substrate binding site [chemical binding]; other site 314282004324 dimer interface [polypeptide binding]; other site 314282004325 catalytic triad [active] 314282004326 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 314282004327 YccA-like proteins; Region: YccA_like; cd10433 314282004328 Predicted transcriptional regulators [Transcription]; Region: COG1733 314282004329 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 314282004330 dimerization interface [polypeptide binding]; other site 314282004331 putative DNA binding site [nucleotide binding]; other site 314282004332 putative Zn2+ binding site [ion binding]; other site 314282004333 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 314282004334 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 314282004335 NAD(P) binding site [chemical binding]; other site 314282004336 catalytic residues [active] 314282004337 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 314282004338 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282004339 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 314282004340 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 314282004341 potential frameshift: common BLAST hit: gi|77359628|ref|YP_339203.1| transposase (IS492) 314282004342 Protein of unknown function (DUF2026); Region: DUF2026; pfam09641 314282004343 Predicted transcriptional regulator [Transcription]; Region: COG2944 314282004344 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 314282004345 salt bridge; other site 314282004346 non-specific DNA binding site [nucleotide binding]; other site 314282004347 sequence-specific DNA binding site [nucleotide binding]; other site 314282004348 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 314282004349 pseudouridine synthase; Region: TIGR00093 314282004350 active site 314282004351 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 314282004352 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314282004353 FtsX-like permease family; Region: FtsX; pfam02687 314282004354 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 314282004355 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314282004356 Walker A/P-loop; other site 314282004357 ATP binding site [chemical binding]; other site 314282004358 Q-loop/lid; other site 314282004359 ABC transporter signature motif; other site 314282004360 Walker B; other site 314282004361 D-loop; other site 314282004362 H-loop/switch region; other site 314282004363 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 314282004364 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314282004365 FtsX-like permease family; Region: FtsX; pfam02687 314282004366 PilZ domain; Region: PilZ; pfam07238 314282004367 transcription-repair coupling factor; Provisional; Region: PRK10689 314282004368 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 314282004369 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 314282004370 ATP binding site [chemical binding]; other site 314282004371 putative Mg++ binding site [ion binding]; other site 314282004372 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 314282004373 nucleotide binding region [chemical binding]; other site 314282004374 ATP-binding site [chemical binding]; other site 314282004375 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 314282004376 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 314282004377 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 314282004378 Peptidase family U32; Region: Peptidase_U32; pfam01136 314282004379 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 314282004380 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 314282004381 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 314282004382 FMN binding site [chemical binding]; other site 314282004383 substrate binding site [chemical binding]; other site 314282004384 putative catalytic residue [active] 314282004385 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 314282004386 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 314282004387 active site 314282004388 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 314282004389 active site 314282004390 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 314282004391 active site 2 [active] 314282004392 dimer interface [polypeptide binding]; other site 314282004393 active site 1 [active] 314282004394 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 314282004395 active site 1 [active] 314282004396 dimer interface [polypeptide binding]; other site 314282004397 active site 2 [active] 314282004398 Acyl transferase domain; Region: Acyl_transf_1; cl08282 314282004399 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 314282004400 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 314282004401 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 314282004402 active site 314282004403 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 314282004404 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 314282004405 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 314282004406 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 314282004407 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 314282004408 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 314282004409 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 314282004410 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 314282004411 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 314282004412 putative NADP binding site [chemical binding]; other site 314282004413 active site 314282004414 Winged helix-turn helix; Region: HTH_29; pfam13551 314282004415 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 314282004416 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 314282004417 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 314282004418 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 314282004419 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314282004420 AMP-binding enzyme; Region: AMP-binding; pfam00501 314282004421 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 314282004422 acyl-activating enzyme (AAE) consensus motif; other site 314282004423 acyl-activating enzyme (AAE) consensus motif; other site 314282004424 putative AMP binding site [chemical binding]; other site 314282004425 putative active site [active] 314282004426 putative CoA binding site [chemical binding]; other site 314282004427 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 314282004428 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 314282004429 nucleotide binding pocket [chemical binding]; other site 314282004430 K-X-D-G motif; other site 314282004431 catalytic site [active] 314282004432 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 314282004433 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 314282004434 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 314282004435 Dimer interface [polypeptide binding]; other site 314282004436 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 314282004437 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 314282004438 FtsZ protein binding site [polypeptide binding]; other site 314282004439 putative sulfate transport protein CysZ; Validated; Region: PRK04949 314282004440 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314282004441 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 314282004442 active site 314282004443 phosphorylation site [posttranslational modification] 314282004444 intermolecular recognition site; other site 314282004445 dimerization interface [polypeptide binding]; other site 314282004446 aminopeptidase N; Provisional; Region: pepN; PRK14015 314282004447 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 314282004448 active site 314282004449 Zn binding site [ion binding]; other site 314282004450 multidrug efflux protein; Reviewed; Region: PRK01766 314282004451 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 314282004452 cation binding site [ion binding]; other site 314282004453 DNA polymerase II; Reviewed; Region: PRK05762 314282004454 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 314282004455 active site 314282004456 catalytic site [active] 314282004457 substrate binding site [chemical binding]; other site 314282004458 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 314282004459 active site 314282004460 metal-binding site 314282004461 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 314282004462 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 314282004463 acyl-activating enzyme (AAE) consensus motif; other site 314282004464 putative AMP binding site [chemical binding]; other site 314282004465 putative active site [active] 314282004466 putative CoA binding site [chemical binding]; other site 314282004467 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 314282004468 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 314282004469 dimer interface [polypeptide binding]; other site 314282004470 active site 314282004471 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 314282004472 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 314282004473 substrate binding site [chemical binding]; other site 314282004474 oxyanion hole (OAH) forming residues; other site 314282004475 trimer interface [polypeptide binding]; other site 314282004476 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 314282004477 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 314282004478 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314282004479 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 314282004480 active site 314282004481 MarC family integral membrane protein; Region: MarC; cl00919 314282004482 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 314282004483 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314282004484 NAD(P) binding site [chemical binding]; other site 314282004485 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 314282004486 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 314282004487 substrate-cofactor binding pocket; other site 314282004488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282004489 catalytic residue [active] 314282004490 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 314282004491 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314282004492 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 314282004493 ATP binding site [chemical binding]; other site 314282004494 putative Mg++ binding site [ion binding]; other site 314282004495 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 314282004496 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 314282004497 nucleotide binding region [chemical binding]; other site 314282004498 ATP-binding site [chemical binding]; other site 314282004499 Glucuronate isomerase; Region: UxaC; pfam02614 314282004500 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 314282004501 D-mannonate oxidoreductase; Provisional; Region: PRK15037 314282004502 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 314282004503 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 314282004504 DctM-like transporters; Region: DctM; pfam06808 314282004505 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 314282004506 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 314282004507 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 314282004508 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 314282004509 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 314282004510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314282004511 DNA-binding site [nucleotide binding]; DNA binding site 314282004512 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 314282004513 mannonate dehydratase; Provisional; Region: PRK03906 314282004514 mannonate dehydratase; Region: uxuA; TIGR00695 314282004515 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 314282004516 fructokinase; Reviewed; Region: PRK09557 314282004517 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 314282004518 nucleotide binding site [chemical binding]; other site 314282004519 putative hydrolase; Validated; Region: PRK09248 314282004520 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 314282004521 active site 314282004522 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 314282004523 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 314282004524 DNA binding residues [nucleotide binding] 314282004525 dimer interface [polypeptide binding]; other site 314282004526 metal binding site [ion binding]; metal-binding site 314282004527 Predicted permease; Region: DUF318; cl17795 314282004528 Predicted permeases [General function prediction only]; Region: COG0701 314282004529 Peptidase family C69; Region: Peptidase_C69; cl17793 314282004530 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 314282004531 DNA-binding site [nucleotide binding]; DNA binding site 314282004532 RNA-binding motif; other site 314282004533 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 314282004534 Sulfatase; Region: Sulfatase; pfam00884 314282004535 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 314282004536 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 314282004537 FeS/SAM binding site; other site 314282004538 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 314282004539 MoxR-like ATPases [General function prediction only]; Region: COG0714 314282004540 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 314282004541 Walker A motif; other site 314282004542 ATP binding site [chemical binding]; other site 314282004543 Walker B motif; other site 314282004544 arginine finger; other site 314282004545 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 314282004546 Protein of unknown function DUF58; Region: DUF58; pfam01882 314282004547 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 314282004548 metal ion-dependent adhesion site (MIDAS); other site 314282004549 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 314282004550 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 314282004551 metal ion-dependent adhesion site (MIDAS); other site 314282004552 von Willebrand factor type A domain; Region: VWA_2; pfam13519 314282004553 Oxygen tolerance; Region: BatD; pfam13584 314282004554 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 314282004555 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 314282004556 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 314282004557 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282004558 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 314282004559 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282004560 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 314282004561 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 314282004562 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 314282004563 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 314282004564 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 314282004565 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282004566 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 314282004567 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282004568 ligand binding site [chemical binding]; other site 314282004569 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 314282004570 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 314282004571 active site 314282004572 Int/Topo IB signature motif; other site 314282004573 exonuclease I; Provisional; Region: sbcB; PRK11779 314282004574 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 314282004575 active site 314282004576 catalytic site [active] 314282004577 substrate binding site [chemical binding]; other site 314282004578 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 314282004579 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 314282004580 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 314282004581 dimer interface [polypeptide binding]; other site 314282004582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282004583 catalytic residue [active] 314282004584 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 314282004585 dimerization domain swap beta strand [polypeptide binding]; other site 314282004586 regulatory protein interface [polypeptide binding]; other site 314282004587 active site 314282004588 regulatory phosphorylation site [posttranslational modification]; other site 314282004589 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 314282004590 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 314282004591 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 314282004592 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 314282004593 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 314282004594 HPr interaction site; other site 314282004595 glycerol kinase (GK) interaction site [polypeptide binding]; other site 314282004596 active site 314282004597 phosphorylation site [posttranslational modification] 314282004598 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 314282004599 ArsC family; Region: ArsC; pfam03960 314282004600 putative catalytic residues [active] 314282004601 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 314282004602 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 314282004603 metal binding site [ion binding]; metal-binding site 314282004604 dimer interface [polypeptide binding]; other site 314282004605 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 314282004606 PilZ domain; Region: PilZ; pfam07238 314282004607 PilZ domain; Region: PilZ; pfam07238 314282004608 PilZ domain; Region: PilZ; pfam07238 314282004609 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 314282004610 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 314282004611 motif II; other site 314282004612 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 314282004613 superoxide dismutase; Provisional; Region: PRK10543 314282004614 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 314282004615 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 314282004616 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 314282004617 putative GSH binding site [chemical binding]; other site 314282004618 catalytic residues [active] 314282004619 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 314282004620 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 314282004621 dimer interface [polypeptide binding]; other site 314282004622 catalytic site [active] 314282004623 putative active site [active] 314282004624 putative substrate binding site [chemical binding]; other site 314282004625 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282004626 ligand binding site [chemical binding]; other site 314282004627 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314282004628 hypothetical protein; Provisional; Region: PRK11295 314282004629 active site 314282004630 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 314282004631 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 314282004632 GTP/Mg2+ binding site [chemical binding]; other site 314282004633 G4 box; other site 314282004634 G5 box; other site 314282004635 G1 box; other site 314282004636 Switch I region; other site 314282004637 G2 box; other site 314282004638 G3 box; other site 314282004639 Switch II region; other site 314282004640 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314282004641 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 314282004642 DNA topoisomerase III; Provisional; Region: PRK07726 314282004643 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 314282004644 active site 314282004645 putative interdomain interaction site [polypeptide binding]; other site 314282004646 putative metal-binding site [ion binding]; other site 314282004647 putative nucleotide binding site [chemical binding]; other site 314282004648 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 314282004649 domain I; other site 314282004650 DNA binding groove [nucleotide binding] 314282004651 phosphate binding site [ion binding]; other site 314282004652 domain II; other site 314282004653 domain III; other site 314282004654 nucleotide binding site [chemical binding]; other site 314282004655 catalytic site [active] 314282004656 domain IV; other site 314282004657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 314282004658 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 314282004659 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 314282004660 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 314282004661 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 314282004662 LPP20 lipoprotein; Region: LPP20; pfam02169 314282004663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 314282004664 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 314282004665 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 314282004666 nucleotide binding site/active site [active] 314282004667 HIT family signature motif; other site 314282004668 catalytic residue [active] 314282004669 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 314282004670 Nucleoid-associated protein [General function prediction only]; Region: COG3081 314282004671 nucleoid-associated protein NdpA; Validated; Region: PRK00378 314282004672 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 314282004673 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 314282004674 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 314282004675 Sulfatase; Region: Sulfatase; cl17466 314282004676 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 314282004677 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 314282004678 putative ligand binding residues [chemical binding]; other site 314282004679 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 314282004680 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 314282004681 ABC-ATPase subunit interface; other site 314282004682 dimer interface [polypeptide binding]; other site 314282004683 putative PBP binding regions; other site 314282004684 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 314282004685 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 314282004686 Walker A/P-loop; other site 314282004687 ATP binding site [chemical binding]; other site 314282004688 Q-loop/lid; other site 314282004689 ABC transporter signature motif; other site 314282004690 Walker B; other site 314282004691 D-loop; other site 314282004692 H-loop/switch region; other site 314282004693 exoribonuclease II; Provisional; Region: PRK05054 314282004694 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 314282004695 RNB domain; Region: RNB; pfam00773 314282004696 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 314282004697 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 314282004698 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314282004699 Walker A/P-loop; other site 314282004700 ATP binding site [chemical binding]; other site 314282004701 Q-loop/lid; other site 314282004702 ABC transporter signature motif; other site 314282004703 Walker B; other site 314282004704 D-loop; other site 314282004705 H-loop/switch region; other site 314282004706 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 314282004707 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314282004708 Walker A/P-loop; other site 314282004709 ATP binding site [chemical binding]; other site 314282004710 Q-loop/lid; other site 314282004711 ABC transporter signature motif; other site 314282004712 Walker B; other site 314282004713 D-loop; other site 314282004714 H-loop/switch region; other site 314282004715 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 314282004716 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 314282004717 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_2; cd08498 314282004718 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 314282004719 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 314282004720 dimer interface [polypeptide binding]; other site 314282004721 conserved gate region; other site 314282004722 putative PBP binding loops; other site 314282004723 ABC-ATPase subunit interface; other site 314282004724 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 314282004725 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 314282004726 dimer interface [polypeptide binding]; other site 314282004727 conserved gate region; other site 314282004728 putative PBP binding loops; other site 314282004729 ABC-ATPase subunit interface; other site 314282004730 hypothetical protein; Provisional; Region: PRK01254 314282004731 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 314282004732 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 314282004733 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 314282004734 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 314282004735 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 314282004736 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 314282004737 dimer interface [polypeptide binding]; other site 314282004738 FMN binding site [chemical binding]; other site 314282004739 recombination protein RecR; Reviewed; Region: recR; PRK00076 314282004740 RecR protein; Region: RecR; pfam02132 314282004741 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 314282004742 putative active site [active] 314282004743 putative metal-binding site [ion binding]; other site 314282004744 tetramer interface [polypeptide binding]; other site 314282004745 hypothetical protein; Validated; Region: PRK00153 314282004746 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 314282004747 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 314282004748 Walker A motif; other site 314282004749 ATP binding site [chemical binding]; other site 314282004750 Walker B motif; other site 314282004751 arginine finger; other site 314282004752 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 314282004753 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 314282004754 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314282004755 active site 314282004756 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 314282004757 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 314282004758 FMN binding site [chemical binding]; other site 314282004759 active site 314282004760 catalytic residues [active] 314282004761 substrate binding site [chemical binding]; other site 314282004762 Response regulator receiver domain; Region: Response_reg; pfam00072 314282004763 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 314282004764 active site 314282004765 phosphorylation site [posttranslational modification] 314282004766 intermolecular recognition site; other site 314282004767 dimerization interface [polypeptide binding]; other site 314282004768 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 314282004769 PAS fold; Region: PAS; pfam00989 314282004770 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282004771 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282004772 metal binding site [ion binding]; metal-binding site 314282004773 active site 314282004774 I-site; other site 314282004775 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 314282004776 ABC transporter ATPase component; Reviewed; Region: PRK11147 314282004777 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314282004778 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314282004779 ABC transporter; Region: ABC_tran_2; pfam12848 314282004780 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314282004781 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 314282004782 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 314282004783 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 314282004784 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 314282004785 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 314282004786 S-adenosylmethionine binding site [chemical binding]; other site 314282004787 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 314282004788 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 314282004789 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 314282004790 histidinol dehydrogenase; Region: hisD; TIGR00069 314282004791 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 314282004792 NAD binding site [chemical binding]; other site 314282004793 dimerization interface [polypeptide binding]; other site 314282004794 product binding site; other site 314282004795 substrate binding site [chemical binding]; other site 314282004796 zinc binding site [ion binding]; other site 314282004797 catalytic residues [active] 314282004798 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 314282004799 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 314282004800 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282004801 homodimer interface [polypeptide binding]; other site 314282004802 catalytic residue [active] 314282004803 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 314282004804 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 314282004805 active site 314282004806 motif I; other site 314282004807 motif II; other site 314282004808 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 314282004809 putative active site pocket [active] 314282004810 4-fold oligomerization interface [polypeptide binding]; other site 314282004811 metal binding residues [ion binding]; metal-binding site 314282004812 3-fold/trimer interface [polypeptide binding]; other site 314282004813 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 314282004814 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 314282004815 putative active site [active] 314282004816 oxyanion strand; other site 314282004817 catalytic triad [active] 314282004818 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 314282004819 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 314282004820 catalytic residues [active] 314282004821 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 314282004822 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 314282004823 substrate binding site [chemical binding]; other site 314282004824 glutamase interaction surface [polypeptide binding]; other site 314282004825 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 314282004826 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 314282004827 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 314282004828 metal binding site [ion binding]; metal-binding site 314282004829 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 314282004830 heme-binding site [chemical binding]; other site 314282004831 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 314282004832 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314282004833 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314282004834 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314282004835 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 314282004836 active site residue [active] 314282004837 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 314282004838 active site 314282004839 substrate binding pocket [chemical binding]; other site 314282004840 dimer interface [polypeptide binding]; other site 314282004841 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 314282004842 Sm and related proteins; Region: Sm_like; cl00259 314282004843 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 314282004844 heptamer interface [polypeptide binding]; other site 314282004845 Sm1 motif; other site 314282004846 hexamer interface [polypeptide binding]; other site 314282004847 RNA binding site [nucleotide binding]; other site 314282004848 PhnA protein; Region: PhnA; pfam03831 314282004849 Sm2 motif; other site 314282004850 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 314282004851 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 314282004852 S-adenosylmethionine binding site [chemical binding]; other site 314282004853 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 314282004854 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 314282004855 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 314282004856 quinone interaction residues [chemical binding]; other site 314282004857 active site 314282004858 catalytic residues [active] 314282004859 FMN binding site [chemical binding]; other site 314282004860 substrate binding site [chemical binding]; other site 314282004861 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 314282004862 Glycoprotease family; Region: Peptidase_M22; pfam00814 314282004863 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 314282004864 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 314282004865 ATP binding site [chemical binding]; other site 314282004866 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 314282004867 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 314282004868 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 314282004869 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 314282004870 Walker A/P-loop; other site 314282004871 ATP binding site [chemical binding]; other site 314282004872 Q-loop/lid; other site 314282004873 ABC transporter signature motif; other site 314282004874 Walker B; other site 314282004875 D-loop; other site 314282004876 H-loop/switch region; other site 314282004877 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 314282004878 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 314282004879 dimer interface [polypeptide binding]; other site 314282004880 conserved gate region; other site 314282004881 ABC-ATPase subunit interface; other site 314282004882 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 314282004883 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 314282004884 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 314282004885 FtsJ-like methyltransferase; Region: FtsJ; cl17430 314282004886 Protein of unknown function (DUF423); Region: DUF423; pfam04241 314282004887 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 314282004888 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 314282004889 Uncharacterized conserved protein [Function unknown]; Region: COG2912 314282004890 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 314282004891 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 314282004892 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 314282004893 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 314282004894 S-adenosylmethionine binding site [chemical binding]; other site 314282004895 peptide chain release factor 1; Validated; Region: prfA; PRK00591 314282004896 This domain is found in peptide chain release factors; Region: PCRF; smart00937 314282004897 RF-1 domain; Region: RF-1; pfam00472 314282004898 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 314282004899 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 314282004900 tRNA; other site 314282004901 putative tRNA binding site [nucleotide binding]; other site 314282004902 putative NADP binding site [chemical binding]; other site 314282004903 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 314282004904 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 314282004905 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 314282004906 hypothetical protein; Validated; Region: PRK01777 314282004907 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 314282004908 putative coenzyme Q binding site [chemical binding]; other site 314282004909 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 314282004910 SmpB-tmRNA interface; other site 314282004911 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 314282004912 Sulfatase; Region: Sulfatase; cl17466 314282004913 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 314282004914 active site 314282004915 catalytic site [active] 314282004916 substrate binding site [chemical binding]; other site 314282004917 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 314282004918 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 314282004919 PAS domain; Region: PAS_9; pfam13426 314282004920 putative active site [active] 314282004921 heme pocket [chemical binding]; other site 314282004922 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282004923 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282004924 metal binding site [ion binding]; metal-binding site 314282004925 active site 314282004926 I-site; other site 314282004927 RDD family; Region: RDD; pfam06271 314282004928 Nuclease-related domain; Region: NERD; pfam08378 314282004929 PA14 domain; Region: PA14; cl08459 314282004930 PA14 domain; Region: PA14; cl08459 314282004931 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314282004932 Virus-capping methyltransferase; Region: Methyltrans_Mon; pfam14314 314282004933 EamA-like transporter family; Region: EamA; pfam00892 314282004934 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 314282004935 PA14 domain; Region: PA14; cl08459 314282004936 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 314282004937 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 314282004938 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 314282004939 DNA binding site [nucleotide binding] 314282004940 active site 314282004941 threonine dehydratase; Reviewed; Region: PRK09224 314282004942 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 314282004943 tetramer interface [polypeptide binding]; other site 314282004944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282004945 catalytic residue [active] 314282004946 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 314282004947 putative Ile/Val binding site [chemical binding]; other site 314282004948 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 314282004949 putative Ile/Val binding site [chemical binding]; other site 314282004950 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 314282004951 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 314282004952 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 314282004953 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 314282004954 PYR/PP interface [polypeptide binding]; other site 314282004955 dimer interface [polypeptide binding]; other site 314282004956 TPP binding site [chemical binding]; other site 314282004957 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 314282004958 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 314282004959 TPP-binding site [chemical binding]; other site 314282004960 dimer interface [polypeptide binding]; other site 314282004961 ketol-acid reductoisomerase; Validated; Region: PRK05225 314282004962 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 314282004963 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 314282004964 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 314282004965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282004966 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 314282004967 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 314282004968 putative dimerization interface [polypeptide binding]; other site 314282004969 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 314282004970 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 314282004971 substrate binding site [chemical binding]; other site 314282004972 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 314282004973 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 314282004974 substrate binding site [chemical binding]; other site 314282004975 ligand binding site [chemical binding]; other site 314282004976 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 314282004977 tartrate dehydrogenase; Region: TTC; TIGR02089 314282004978 2-isopropylmalate synthase; Validated; Region: PRK00915 314282004979 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 314282004980 active site 314282004981 catalytic residues [active] 314282004982 metal binding site [ion binding]; metal-binding site 314282004983 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 314282004984 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 314282004985 hypothetical protein; Provisional; Region: PRK11770 314282004986 Domain of unknown function (DUF307); Region: DUF307; pfam03733 314282004987 Domain of unknown function (DUF307); Region: DUF307; pfam03733 314282004988 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 314282004989 putative DNA binding site [nucleotide binding]; other site 314282004990 dimerization interface [polypeptide binding]; other site 314282004991 putative Zn2+ binding site [ion binding]; other site 314282004992 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 314282004993 arsenical-resistance protein; Region: acr3; TIGR00832 314282004994 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 314282004995 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 314282004996 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 314282004997 P loop; other site 314282004998 Nucleotide binding site [chemical binding]; other site 314282004999 DTAP/Switch II; other site 314282005000 Switch I; other site 314282005001 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 314282005002 P loop; other site 314282005003 Nucleotide binding site [chemical binding]; other site 314282005004 DTAP/Switch II; other site 314282005005 Switch I; other site 314282005006 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 314282005007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282005008 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314282005009 dimerization interface [polypeptide binding]; other site 314282005010 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314282005011 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 314282005012 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 314282005013 putative NAD(P) binding site [chemical binding]; other site 314282005014 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314282005015 putative active site [active] 314282005016 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 314282005017 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314282005018 Coenzyme A binding pocket [chemical binding]; other site 314282005019 PEP synthetase regulatory protein; Provisional; Region: PRK05339 314282005020 phosphoenolpyruvate synthase; Validated; Region: PRK06464 314282005021 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 314282005022 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 314282005023 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 314282005024 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 314282005025 amino acid carrier protein; Region: agcS; TIGR00835 314282005026 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314282005027 EamA-like transporter family; Region: EamA; pfam00892 314282005028 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 314282005029 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 314282005030 putative DNA binding site [nucleotide binding]; other site 314282005031 putative Zn2+ binding site [ion binding]; other site 314282005032 AsnC family; Region: AsnC_trans_reg; pfam01037 314282005033 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 314282005034 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 314282005035 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 314282005036 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314282005037 catalytic residue [active] 314282005038 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 314282005039 catalytic residue [active] 314282005040 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 314282005041 catalytic core [active] 314282005042 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 314282005043 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 314282005044 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 314282005045 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 314282005046 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 314282005047 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 314282005048 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 314282005049 active site turn [active] 314282005050 phosphorylation site [posttranslational modification] 314282005051 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 314282005052 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 314282005053 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 314282005054 putative active site [active] 314282005055 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 314282005056 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 314282005057 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 314282005058 putative active site [active] 314282005059 sugar phosphate phosphatase; Provisional; Region: PRK10513 314282005060 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 314282005061 active site 314282005062 motif I; other site 314282005063 motif II; other site 314282005064 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 314282005065 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 314282005066 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 314282005067 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 314282005068 active site 314282005069 metal binding site [ion binding]; metal-binding site 314282005070 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 314282005071 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 314282005072 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 314282005073 putative substrate translocation pore; other site 314282005074 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 314282005075 dimerization interface [polypeptide binding]; other site 314282005076 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282005077 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282005078 dimer interface [polypeptide binding]; other site 314282005079 putative CheW interface [polypeptide binding]; other site 314282005080 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 314282005081 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 314282005082 intersubunit interface [polypeptide binding]; other site 314282005083 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 314282005084 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 314282005085 ABC-ATPase subunit interface; other site 314282005086 dimer interface [polypeptide binding]; other site 314282005087 putative PBP binding regions; other site 314282005088 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 314282005089 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 314282005090 Walker A/P-loop; other site 314282005091 ATP binding site [chemical binding]; other site 314282005092 Q-loop/lid; other site 314282005093 ABC transporter signature motif; other site 314282005094 Walker B; other site 314282005095 D-loop; other site 314282005096 H-loop/switch region; other site 314282005097 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 314282005098 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314282005099 DNA binding site [nucleotide binding] 314282005100 domain linker motif; other site 314282005101 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 314282005102 dimerization interface (closed form) [polypeptide binding]; other site 314282005103 ligand binding site [chemical binding]; other site 314282005104 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 314282005105 substrate binding site [chemical binding]; other site 314282005106 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 314282005107 Na binding site [ion binding]; other site 314282005108 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 314282005109 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 314282005110 active site 314282005111 catalytic site [active] 314282005112 substrate binding site [chemical binding]; other site 314282005113 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 314282005114 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 314282005115 ligand binding site [chemical binding]; other site 314282005116 flexible hinge region; other site 314282005117 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc; cd04587 314282005118 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314282005119 metal binding triad; other site 314282005120 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 314282005121 Kelch motif; Region: Kelch_1; pfam01344 314282005122 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 314282005123 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 314282005124 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 314282005125 putative active site [active] 314282005126 AAA domain; Region: AAA_30; pfam13604 314282005127 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 314282005128 AAA domain; Region: AAA_12; pfam13087 314282005129 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 314282005130 PLD-like domain; Region: PLDc_2; pfam13091 314282005131 putative active site [active] 314282005132 catalytic site [active] 314282005133 WYL domain; Region: WYL; pfam13280 314282005134 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 314282005135 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314282005136 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314282005137 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 314282005138 AAA domain; Region: AAA_30; pfam13604 314282005139 Family description; Region: UvrD_C_2; pfam13538 314282005140 PglZ domain; Region: PglZ; pfam08665 314282005141 WYL domain; Region: WYL; pfam13280 314282005142 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 314282005143 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 314282005144 MPN+ (JAMM) motif; other site 314282005145 Zinc-binding site [ion binding]; other site 314282005146 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 314282005147 Predicted membrane protein [Function unknown]; Region: COG2860 314282005148 UPF0126 domain; Region: UPF0126; pfam03458 314282005149 UPF0126 domain; Region: UPF0126; pfam03458 314282005150 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 314282005151 OsmC-like protein; Region: OsmC; pfam02566 314282005152 ribonuclease D; Provisional; Region: PRK10829 314282005153 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 314282005154 catalytic site [active] 314282005155 putative active site [active] 314282005156 putative substrate binding site [chemical binding]; other site 314282005157 HRDC domain; Region: HRDC; pfam00570 314282005158 muropeptide transporter; Reviewed; Region: ampG; PRK11902 314282005159 muropeptide transporter; Validated; Region: ampG; cl17669 314282005160 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 314282005161 ATP binding site [chemical binding]; other site 314282005162 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 314282005163 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 314282005164 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 314282005165 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282005166 ligand binding site [chemical binding]; other site 314282005167 flagellar motor protein PomA; Reviewed; Region: PRK08990 314282005168 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 314282005169 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 314282005170 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 314282005171 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 314282005172 substrate binding pocket [chemical binding]; other site 314282005173 chain length determination region; other site 314282005174 substrate-Mg2+ binding site; other site 314282005175 catalytic residues [active] 314282005176 aspartate-rich region 1; other site 314282005177 active site lid residues [active] 314282005178 aspartate-rich region 2; other site 314282005179 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 314282005180 homotrimer interaction site [polypeptide binding]; other site 314282005181 putative active site [active] 314282005182 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 314282005183 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 314282005184 TPP-binding site; other site 314282005185 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 314282005186 PYR/PP interface [polypeptide binding]; other site 314282005187 dimer interface [polypeptide binding]; other site 314282005188 TPP binding site [chemical binding]; other site 314282005189 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314282005190 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 314282005191 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 314282005192 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 314282005193 tetramer interfaces [polypeptide binding]; other site 314282005194 binuclear metal-binding site [ion binding]; other site 314282005195 thiamine monophosphate kinase; Provisional; Region: PRK05731 314282005196 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 314282005197 ATP binding site [chemical binding]; other site 314282005198 dimerization interface [polypeptide binding]; other site 314282005199 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 314282005200 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 314282005201 RNA binding surface [nucleotide binding]; other site 314282005202 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 314282005203 probable active site [active] 314282005204 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 314282005205 Protein of unknown function (DUF496); Region: DUF496; pfam04363 314282005206 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 314282005207 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 314282005208 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314282005209 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 314282005210 C-terminal domain interface [polypeptide binding]; other site 314282005211 GSH binding site (G-site) [chemical binding]; other site 314282005212 dimer interface [polypeptide binding]; other site 314282005213 PilZ domain; Region: PilZ; pfam07238 314282005214 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 314282005215 active site 314282005216 Protein of unknown function, DUF462; Region: DUF462; pfam04315 314282005217 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 314282005218 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 314282005219 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 314282005220 cobyric acid synthase; Provisional; Region: PRK00784 314282005221 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 314282005222 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 314282005223 catalytic triad [active] 314282005224 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 314282005225 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 314282005226 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 314282005227 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 314282005228 dimer interface [polypeptide binding]; other site 314282005229 putative functional site; other site 314282005230 putative MPT binding site; other site 314282005231 aminotransferase AlaT; Validated; Region: PRK09265 314282005232 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 314282005233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282005234 homodimer interface [polypeptide binding]; other site 314282005235 catalytic residue [active] 314282005236 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 314282005237 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 314282005238 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 314282005239 homodimer interface [polypeptide binding]; other site 314282005240 NADP binding site [chemical binding]; other site 314282005241 substrate binding site [chemical binding]; other site 314282005242 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 314282005243 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 314282005244 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 314282005245 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 314282005246 elongation factor P; Provisional; Region: PRK04542 314282005247 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 314282005248 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 314282005249 RNA binding site [nucleotide binding]; other site 314282005250 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 314282005251 RNA binding site [nucleotide binding]; other site 314282005252 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 314282005253 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 314282005254 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 314282005255 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 314282005256 cleavage site 314282005257 active site 314282005258 substrate binding sites [chemical binding]; other site 314282005259 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 314282005260 cleavage site 314282005261 active site 314282005262 substrate binding sites [chemical binding]; other site 314282005263 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 314282005264 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 314282005265 ATP binding site [chemical binding]; other site 314282005266 Mg++ binding site [ion binding]; other site 314282005267 motif III; other site 314282005268 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 314282005269 nucleotide binding region [chemical binding]; other site 314282005270 ATP-binding site [chemical binding]; other site 314282005271 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 314282005272 putative RNA binding site [nucleotide binding]; other site 314282005273 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 314282005274 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 314282005275 phosphotransferase system, EIIB; Region: PTS_EIIB; pfam00367 314282005276 active site turn [active] 314282005277 phosphorylation site [posttranslational modification] 314282005278 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 314282005279 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 314282005280 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 314282005281 dimerization interface [polypeptide binding]; other site 314282005282 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 314282005283 dimer interface [polypeptide binding]; other site 314282005284 phosphorylation site [posttranslational modification] 314282005285 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 314282005286 ATP binding site [chemical binding]; other site 314282005287 Mg2+ binding site [ion binding]; other site 314282005288 G-X-G motif; other site 314282005289 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314282005290 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 314282005291 active site 314282005292 phosphorylation site [posttranslational modification] 314282005293 intermolecular recognition site; other site 314282005294 dimerization interface [polypeptide binding]; other site 314282005295 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 314282005296 DNA binding site [nucleotide binding] 314282005297 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 314282005298 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 314282005299 inhibitor-cofactor binding pocket; inhibition site 314282005300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282005301 catalytic residue [active] 314282005302 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 314282005303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282005304 catalytic residue [active] 314282005305 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 314282005306 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 314282005307 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 314282005308 dimer interface [polypeptide binding]; other site 314282005309 active site 314282005310 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314282005311 catalytic residues [active] 314282005312 substrate binding site [chemical binding]; other site 314282005313 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 314282005314 active site 314282005315 Int/Topo IB signature motif; other site 314282005316 catalytic residues [active] 314282005317 DNA binding site [nucleotide binding] 314282005318 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 314282005319 generic binding surface I; other site 314282005320 generic binding surface II; other site 314282005321 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314282005322 Zn2+ binding site [ion binding]; other site 314282005323 Mg2+ binding site [ion binding]; other site 314282005324 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 314282005325 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 314282005326 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 314282005327 active site 314282005328 DNA binding site [nucleotide binding] 314282005329 Int/Topo IB signature motif; other site 314282005330 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 314282005331 non-specific DNA binding site [nucleotide binding]; other site 314282005332 salt bridge; other site 314282005333 sequence-specific DNA binding site [nucleotide binding]; other site 314282005334 DEAD/DEAH box helicase; Region: DEAD; pfam00270 314282005335 ATP binding site [chemical binding]; other site 314282005336 putative Mg++ binding site [ion binding]; other site 314282005337 helicase superfamily c-terminal domain; Region: HELICc; smart00490 314282005338 nucleotide binding region [chemical binding]; other site 314282005339 ATP-binding site [chemical binding]; other site 314282005340 transposase; Validated; Region: PRK08181 314282005341 PGAP1-like protein; Region: PGAP1; pfam07819 314282005342 PAAR motif; Region: PAAR_motif; pfam05488 314282005343 PGAP1-like protein; Region: PGAP1; pfam07819 314282005344 Lecithin:cholesterol acyltransferase; Region: LACT; pfam02450 314282005345 PGAP1-like protein; Region: PGAP1; pfam07819 314282005346 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 314282005347 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 314282005348 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 314282005349 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 314282005350 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 314282005351 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 314282005352 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 314282005353 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 314282005354 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 314282005355 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 314282005356 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 314282005357 Protein of unknown function (DUF3121); Region: DUF3121; pfam11319 314282005358 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 314282005359 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 314282005360 Walker A motif; other site 314282005361 ATP binding site [chemical binding]; other site 314282005362 Walker B motif; other site 314282005363 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 314282005364 Clp amino terminal domain; Region: Clp_N; pfam02861 314282005365 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 314282005366 Walker A motif; other site 314282005367 ATP binding site [chemical binding]; other site 314282005368 Walker B motif; other site 314282005369 arginine finger; other site 314282005370 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 314282005371 Walker A motif; other site 314282005372 ATP binding site [chemical binding]; other site 314282005373 Walker B motif; other site 314282005374 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 314282005375 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 314282005376 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 314282005377 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 314282005378 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 314282005379 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 314282005380 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 314282005381 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 314282005382 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 314282005383 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 314282005384 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 314282005385 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 314282005386 Protein of unknown function (DUF877); Region: DUF877; pfam05943 314282005387 Protein of unknown function (DUF770); Region: DUF770; pfam05591 314282005388 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 314282005389 putative transposase OrfB; Reviewed; Region: PHA02517 314282005390 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 314282005391 dimerization interface [polypeptide binding]; other site 314282005392 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282005393 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282005394 dimer interface [polypeptide binding]; other site 314282005395 putative CheW interface [polypeptide binding]; other site 314282005396 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 314282005397 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 314282005398 ATP binding site [chemical binding]; other site 314282005399 putative Mg++ binding site [ion binding]; other site 314282005400 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 314282005401 nucleotide binding region [chemical binding]; other site 314282005402 ATP-binding site [chemical binding]; other site 314282005403 PEP-CTERM motif; Region: VPEP; pfam07589 314282005404 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 314282005405 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 314282005406 Walker A/P-loop; other site 314282005407 ATP binding site [chemical binding]; other site 314282005408 Q-loop/lid; other site 314282005409 ABC transporter signature motif; other site 314282005410 Walker B; other site 314282005411 D-loop; other site 314282005412 H-loop/switch region; other site 314282005413 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 314282005414 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 314282005415 ABC-ATPase subunit interface; other site 314282005416 dimer interface [polypeptide binding]; other site 314282005417 putative PBP binding regions; other site 314282005418 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 314282005419 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 314282005420 ABC-ATPase subunit interface; other site 314282005421 dimer interface [polypeptide binding]; other site 314282005422 putative PBP binding regions; other site 314282005423 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 314282005424 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 314282005425 intersubunit interface [polypeptide binding]; other site 314282005426 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 314282005427 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 314282005428 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 314282005429 nudix motif; other site 314282005430 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 314282005431 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 314282005432 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 314282005433 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 314282005434 AAA domain; Region: AAA_33; pfam13671 314282005435 AAA domain; Region: AAA_17; pfam13207 314282005436 Cache domain; Region: Cache_1; pfam02743 314282005437 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 314282005438 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 314282005439 dimerization interface [polypeptide binding]; other site 314282005440 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282005441 dimer interface [polypeptide binding]; other site 314282005442 putative CheW interface [polypeptide binding]; other site 314282005443 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 314282005444 AzlC protein; Region: AzlC; pfam03591 314282005445 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 314282005446 homotrimer interaction site [polypeptide binding]; other site 314282005447 putative active site [active] 314282005448 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 314282005449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 314282005450 YheO-like PAS domain; Region: PAS_6; pfam08348 314282005451 HTH domain; Region: HTH_22; pfam13309 314282005452 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 314282005453 dimerization interface [polypeptide binding]; other site 314282005454 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282005455 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282005456 dimer interface [polypeptide binding]; other site 314282005457 putative CheW interface [polypeptide binding]; other site 314282005458 PAS domain; Region: PAS_9; pfam13426 314282005459 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 314282005460 putative active site [active] 314282005461 heme pocket [chemical binding]; other site 314282005462 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 314282005463 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 314282005464 Walker A motif; other site 314282005465 ATP binding site [chemical binding]; other site 314282005466 Walker B motif; other site 314282005467 arginine finger; other site 314282005468 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314282005469 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 314282005470 Amidinotransferase; Region: Amidinotransf; cl12043 314282005471 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 314282005472 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 314282005473 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 314282005474 Walker A/P-loop; other site 314282005475 ATP binding site [chemical binding]; other site 314282005476 Q-loop/lid; other site 314282005477 ABC transporter signature motif; other site 314282005478 Walker B; other site 314282005479 D-loop; other site 314282005480 H-loop/switch region; other site 314282005481 Predicted transcriptional regulators [Transcription]; Region: COG1725 314282005482 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314282005483 DNA-binding site [nucleotide binding]; DNA binding site 314282005484 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314282005485 EamA-like transporter family; Region: EamA; pfam00892 314282005486 EamA-like transporter family; Region: EamA; pfam00892 314282005487 thymidine kinase; Provisional; Region: PRK04296 314282005488 periplasmic folding chaperone; Provisional; Region: PRK10788 314282005489 SurA N-terminal domain; Region: SurA_N_3; cl07813 314282005490 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 314282005491 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 314282005492 IHF dimer interface [polypeptide binding]; other site 314282005493 IHF - DNA interface [nucleotide binding]; other site 314282005494 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 314282005495 Found in ATP-dependent protease La (LON); Region: LON; smart00464 314282005496 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 314282005497 Walker A motif; other site 314282005498 ATP binding site [chemical binding]; other site 314282005499 Walker B motif; other site 314282005500 arginine finger; other site 314282005501 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 314282005502 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 314282005503 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 314282005504 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 314282005505 Walker A motif; other site 314282005506 ATP binding site [chemical binding]; other site 314282005507 Walker B motif; other site 314282005508 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 314282005509 Clp protease; Region: CLP_protease; pfam00574 314282005510 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 314282005511 oligomer interface [polypeptide binding]; other site 314282005512 active site residues [active] 314282005513 trigger factor; Provisional; Region: tig; PRK01490 314282005514 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314282005515 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 314282005516 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 314282005517 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 314282005518 putative deacylase active site [active] 314282005519 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 314282005520 AAA domain; Region: AAA_30; pfam13604 314282005521 Family description; Region: UvrD_C_2; pfam13538 314282005522 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 314282005523 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 314282005524 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 314282005525 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 314282005526 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 314282005527 S1 domain; Region: S1_2; pfam13509 314282005528 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 314282005529 CoenzymeA binding site [chemical binding]; other site 314282005530 subunit interaction site [polypeptide binding]; other site 314282005531 PHB binding site; other site 314282005532 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 314282005533 FAD binding domain; Region: FAD_binding_4; pfam01565 314282005534 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 314282005535 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 314282005536 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314282005537 active site 314282005538 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 314282005539 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 314282005540 Low-spin heme binding site [chemical binding]; other site 314282005541 Putative water exit pathway; other site 314282005542 Binuclear center (active site) [active] 314282005543 Putative proton exit pathway; other site 314282005544 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 314282005545 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 314282005546 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 314282005547 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 314282005548 Cytochrome c; Region: Cytochrom_C; pfam00034 314282005549 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 314282005550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 314282005551 FixH; Region: FixH; pfam05751 314282005552 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 314282005553 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 314282005554 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 314282005555 metal-binding site [ion binding] 314282005556 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314282005557 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 314282005558 Family description; Region: DsbD_2; pfam13386 314282005559 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 314282005560 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 314282005561 ligand binding site [chemical binding]; other site 314282005562 flexible hinge region; other site 314282005563 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 314282005564 putative switch regulator; other site 314282005565 non-specific DNA interactions [nucleotide binding]; other site 314282005566 DNA binding site [nucleotide binding] 314282005567 sequence specific DNA binding site [nucleotide binding]; other site 314282005568 putative cAMP binding site [chemical binding]; other site 314282005569 universal stress protein UspE; Provisional; Region: PRK11175 314282005570 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 314282005571 Ligand Binding Site [chemical binding]; other site 314282005572 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 314282005573 Ligand Binding Site [chemical binding]; other site 314282005574 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 314282005575 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 314282005576 catalytic triad [active] 314282005577 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 314282005578 Domain of unknown function DUF20; Region: UPF0118; pfam01594 314282005579 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 314282005580 Peptidase family M48; Region: Peptidase_M48; pfam01435 314282005581 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 314282005582 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 314282005583 putative active site [active] 314282005584 heme pocket [chemical binding]; other site 314282005585 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 314282005586 dimer interface [polypeptide binding]; other site 314282005587 phosphorylation site [posttranslational modification] 314282005588 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 314282005589 ATP binding site [chemical binding]; other site 314282005590 Mg2+ binding site [ion binding]; other site 314282005591 G-X-G motif; other site 314282005592 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 314282005593 active site 314282005594 phosphorylation site [posttranslational modification] 314282005595 intermolecular recognition site; other site 314282005596 dimerization interface [polypeptide binding]; other site 314282005597 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 314282005598 putative binding surface; other site 314282005599 active site 314282005600 putative GTP cyclohydrolase; Provisional; Region: PRK13674 314282005601 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 314282005602 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 314282005603 active site 314282005604 HIGH motif; other site 314282005605 dimer interface [polypeptide binding]; other site 314282005606 KMSKS motif; other site 314282005607 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 314282005608 RNA binding surface [nucleotide binding]; other site 314282005609 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 314282005610 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 314282005611 CobD/Cbib protein; Region: CobD_Cbib; cl00561 314282005612 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 314282005613 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 314282005614 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314282005615 chaperone protein DnaJ; Provisional; Region: PRK10767 314282005616 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 314282005617 HSP70 interaction site [polypeptide binding]; other site 314282005618 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 314282005619 substrate binding site [polypeptide binding]; other site 314282005620 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 314282005621 Zn binding sites [ion binding]; other site 314282005622 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 314282005623 dimer interface [polypeptide binding]; other site 314282005624 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 314282005625 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 314282005626 nucleotide binding site [chemical binding]; other site 314282005627 GrpE; Region: GrpE; pfam01025 314282005628 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 314282005629 dimer interface [polypeptide binding]; other site 314282005630 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 314282005631 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 314282005632 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 314282005633 recombination and repair protein; Provisional; Region: PRK10869 314282005634 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 314282005635 Walker A/P-loop; other site 314282005636 ATP binding site [chemical binding]; other site 314282005637 Q-loop/lid; other site 314282005638 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 314282005639 Q-loop/lid; other site 314282005640 ABC transporter signature motif; other site 314282005641 Walker B; other site 314282005642 D-loop; other site 314282005643 H-loop/switch region; other site 314282005644 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 314282005645 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 314282005646 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 314282005647 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 314282005648 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 314282005649 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 314282005650 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314282005651 active site 314282005652 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 314282005653 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 314282005654 5S rRNA interface [nucleotide binding]; other site 314282005655 CTC domain interface [polypeptide binding]; other site 314282005656 L16 interface [polypeptide binding]; other site 314282005657 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 314282005658 putative active site [active] 314282005659 catalytic residue [active] 314282005660 GTP-binding protein YchF; Reviewed; Region: PRK09601 314282005661 YchF GTPase; Region: YchF; cd01900 314282005662 G1 box; other site 314282005663 GTP/Mg2+ binding site [chemical binding]; other site 314282005664 Switch I region; other site 314282005665 G2 box; other site 314282005666 Switch II region; other site 314282005667 G3 box; other site 314282005668 G4 box; other site 314282005669 G5 box; other site 314282005670 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 314282005671 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314282005672 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314282005673 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 314282005674 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 314282005675 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 314282005676 maltose O-acetyltransferase; Provisional; Region: PRK10092 314282005677 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 314282005678 active site 314282005679 substrate binding site [chemical binding]; other site 314282005680 trimer interface [polypeptide binding]; other site 314282005681 CoA binding site [chemical binding]; other site 314282005682 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282005683 AAA domain; Region: AAA_23; pfam13476 314282005684 Walker A/P-loop; other site 314282005685 ATP binding site [chemical binding]; other site 314282005686 Q-loop/lid; other site 314282005687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282005688 ABC transporter signature motif; other site 314282005689 Walker B; other site 314282005690 D-loop; other site 314282005691 H-loop/switch region; other site 314282005692 exonuclease subunit SbcD; Provisional; Region: PRK10966 314282005693 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 314282005694 active site 314282005695 metal binding site [ion binding]; metal-binding site 314282005696 DNA binding site [nucleotide binding] 314282005697 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 314282005698 Domain of unknown function (DUF2431); Region: DUF2431; pfam10354 314282005699 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 314282005700 Response regulator receiver domain; Region: Response_reg; pfam00072 314282005701 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 314282005702 active site 314282005703 phosphorylation site [posttranslational modification] 314282005704 intermolecular recognition site; other site 314282005705 dimerization interface [polypeptide binding]; other site 314282005706 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 314282005707 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 314282005708 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314282005709 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 314282005710 putative GSH binding site (G-site) [chemical binding]; other site 314282005711 active site cysteine [active] 314282005712 putative C-terminal domain interface [polypeptide binding]; other site 314282005713 putative dimer interface [polypeptide binding]; other site 314282005714 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 314282005715 putative N-terminal domain interface [polypeptide binding]; other site 314282005716 putative dimer interface [polypeptide binding]; other site 314282005717 putative substrate binding pocket (H-site) [chemical binding]; other site 314282005718 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 314282005719 hypothetical protein; Provisional; Region: PRK03757 314282005720 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 314282005721 putative catalytic site [active] 314282005722 putative metal binding site [ion binding]; other site 314282005723 putative phosphate binding site [ion binding]; other site 314282005724 AsmA family; Region: AsmA; pfam05170 314282005725 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 314282005726 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 314282005727 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 314282005728 Tetramer interface [polypeptide binding]; other site 314282005729 active site 314282005730 FMN-binding site [chemical binding]; other site 314282005731 HemK family putative methylases; Region: hemK_fam; TIGR00536 314282005732 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 314282005733 S-adenosylmethionine binding site [chemical binding]; other site 314282005734 hypothetical protein; Provisional; Region: PRK04946 314282005735 Smr domain; Region: Smr; pfam01713 314282005736 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 314282005737 catalytic core [active] 314282005738 Protein of unknown function (Duf2374); Region: DUF2374; pfam09574 314282005739 MoxR-like ATPases [General function prediction only]; Region: COG0714 314282005740 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 314282005741 Walker A motif; other site 314282005742 ATP binding site [chemical binding]; other site 314282005743 Walker B motif; other site 314282005744 arginine finger; other site 314282005745 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 314282005746 Protein of unknown function DUF58; Region: DUF58; pfam01882 314282005747 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 314282005748 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 314282005749 metal ion-dependent adhesion site (MIDAS); other site 314282005750 von Willebrand factor type A domain; Region: VWA_2; pfam13519 314282005751 metal ion-dependent adhesion site (MIDAS); other site 314282005752 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 314282005753 TPR motif; other site 314282005754 TPR repeat; Region: TPR_11; pfam13414 314282005755 binding surface 314282005756 Oxygen tolerance; Region: BatD; pfam13584 314282005757 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 314282005758 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 314282005759 substrate binding pocket [chemical binding]; other site 314282005760 membrane-bound complex binding site; other site 314282005761 hinge residues; other site 314282005762 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 314282005763 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 314282005764 conserved gate region; other site 314282005765 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 314282005766 putative PBP binding loops; other site 314282005767 dimer interface [polypeptide binding]; other site 314282005768 ABC-ATPase subunit interface; other site 314282005769 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 314282005770 dimer interface [polypeptide binding]; other site 314282005771 conserved gate region; other site 314282005772 putative PBP binding loops; other site 314282005773 ABC-ATPase subunit interface; other site 314282005774 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 314282005775 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 314282005776 Walker A/P-loop; other site 314282005777 ATP binding site [chemical binding]; other site 314282005778 Q-loop/lid; other site 314282005779 ABC transporter signature motif; other site 314282005780 Walker B; other site 314282005781 D-loop; other site 314282005782 H-loop/switch region; other site 314282005783 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 314282005784 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 314282005785 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 314282005786 dimer interface [polypeptide binding]; other site 314282005787 conserved gate region; other site 314282005788 putative PBP binding loops; other site 314282005789 ABC-ATPase subunit interface; other site 314282005790 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 314282005791 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 314282005792 dimer interface [polypeptide binding]; other site 314282005793 conserved gate region; other site 314282005794 putative PBP binding loops; other site 314282005795 ABC-ATPase subunit interface; other site 314282005796 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 314282005797 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 314282005798 substrate binding pocket [chemical binding]; other site 314282005799 membrane-bound complex binding site; other site 314282005800 hinge residues; other site 314282005801 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 314282005802 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 314282005803 Walker A/P-loop; other site 314282005804 ATP binding site [chemical binding]; other site 314282005805 Q-loop/lid; other site 314282005806 ABC transporter signature motif; other site 314282005807 Walker B; other site 314282005808 D-loop; other site 314282005809 H-loop/switch region; other site 314282005810 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 314282005811 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 314282005812 RNase E interface [polypeptide binding]; other site 314282005813 trimer interface [polypeptide binding]; other site 314282005814 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 314282005815 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 314282005816 RNase E interface [polypeptide binding]; other site 314282005817 trimer interface [polypeptide binding]; other site 314282005818 active site 314282005819 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 314282005820 putative nucleic acid binding region [nucleotide binding]; other site 314282005821 G-X-X-G motif; other site 314282005822 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 314282005823 RNA binding site [nucleotide binding]; other site 314282005824 domain interface; other site 314282005825 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 314282005826 16S/18S rRNA binding site [nucleotide binding]; other site 314282005827 S13e-L30e interaction site [polypeptide binding]; other site 314282005828 25S rRNA binding site [nucleotide binding]; other site 314282005829 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 314282005830 serine transporter; Region: stp; TIGR00814 314282005831 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 314282005832 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 314282005833 RNA binding site [nucleotide binding]; other site 314282005834 active site 314282005835 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 314282005836 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 314282005837 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 314282005838 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 314282005839 translation initiation factor IF-2; Region: IF-2; TIGR00487 314282005840 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 314282005841 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 314282005842 G1 box; other site 314282005843 putative GEF interaction site [polypeptide binding]; other site 314282005844 GTP/Mg2+ binding site [chemical binding]; other site 314282005845 Switch I region; other site 314282005846 G2 box; other site 314282005847 G3 box; other site 314282005848 Switch II region; other site 314282005849 G4 box; other site 314282005850 G5 box; other site 314282005851 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 314282005852 Translation-initiation factor 2; Region: IF-2; pfam11987 314282005853 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 314282005854 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 314282005855 NusA N-terminal domain; Region: NusA_N; pfam08529 314282005856 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 314282005857 RNA binding site [nucleotide binding]; other site 314282005858 homodimer interface [polypeptide binding]; other site 314282005859 NusA-like KH domain; Region: KH_5; pfam13184 314282005860 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 314282005861 G-X-X-G motif; other site 314282005862 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 314282005863 ribosome maturation protein RimP; Reviewed; Region: PRK00092 314282005864 Sm and related proteins; Region: Sm_like; cl00259 314282005865 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 314282005866 putative oligomer interface [polypeptide binding]; other site 314282005867 putative RNA binding site [nucleotide binding]; other site 314282005868 Preprotein translocase SecG subunit; Region: SecG; pfam03840 314282005869 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 314282005870 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 314282005871 active site 314282005872 substrate binding site [chemical binding]; other site 314282005873 metal binding site [ion binding]; metal-binding site 314282005874 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 314282005875 dihydropteroate synthase; Region: DHPS; TIGR01496 314282005876 substrate binding pocket [chemical binding]; other site 314282005877 dimer interface [polypeptide binding]; other site 314282005878 inhibitor binding site; inhibition site 314282005879 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 314282005880 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 314282005881 Walker A motif; other site 314282005882 ATP binding site [chemical binding]; other site 314282005883 Walker B motif; other site 314282005884 arginine finger; other site 314282005885 Peptidase family M41; Region: Peptidase_M41; pfam01434 314282005886 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 314282005887 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 314282005888 S-adenosylmethionine binding site [chemical binding]; other site 314282005889 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 314282005890 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 314282005891 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 314282005892 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 314282005893 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 314282005894 active site 314282005895 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 314282005896 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 314282005897 G1 box; other site 314282005898 putative GEF interaction site [polypeptide binding]; other site 314282005899 GTP/Mg2+ binding site [chemical binding]; other site 314282005900 Switch I region; other site 314282005901 G2 box; other site 314282005902 G3 box; other site 314282005903 Switch II region; other site 314282005904 G4 box; other site 314282005905 G5 box; other site 314282005906 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 314282005907 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 314282005908 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 314282005909 trimer interface [polypeptide binding]; other site 314282005910 active site 314282005911 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 314282005912 DNA-binding site [nucleotide binding]; DNA binding site 314282005913 RNA-binding motif; other site 314282005914 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 314282005915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 314282005916 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 314282005917 ApbE family; Region: ApbE; pfam02424 314282005918 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 314282005919 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 314282005920 catalytic loop [active] 314282005921 iron binding site [ion binding]; other site 314282005922 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 314282005923 FAD binding pocket [chemical binding]; other site 314282005924 FAD binding motif [chemical binding]; other site 314282005925 phosphate binding motif [ion binding]; other site 314282005926 beta-alpha-beta structure motif; other site 314282005927 NAD binding pocket [chemical binding]; other site 314282005928 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 314282005929 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 314282005930 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 314282005931 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 314282005932 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 314282005933 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 314282005934 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 314282005935 E3 interaction surface; other site 314282005936 lipoyl attachment site [posttranslational modification]; other site 314282005937 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 314282005938 BolA-like protein; Region: BolA; cl00386 314282005939 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 314282005940 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 314282005941 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 314282005942 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 314282005943 rRNA binding site [nucleotide binding]; other site 314282005944 predicted 30S ribosome binding site; other site 314282005945 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 314282005946 Clp amino terminal domain; Region: Clp_N; pfam02861 314282005947 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 314282005948 Walker A motif; other site 314282005949 ATP binding site [chemical binding]; other site 314282005950 Walker B motif; other site 314282005951 arginine finger; other site 314282005952 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 314282005953 Walker A motif; other site 314282005954 ATP binding site [chemical binding]; other site 314282005955 Walker B motif; other site 314282005956 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 314282005957 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 314282005958 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 314282005959 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314282005960 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 314282005961 active site 314282005962 phosphorylation site [posttranslational modification] 314282005963 intermolecular recognition site; other site 314282005964 dimerization interface [polypeptide binding]; other site 314282005965 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; PRK11121 314282005966 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 314282005967 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 314282005968 ATP cone domain; Region: ATP-cone; pfam03477 314282005969 Class III ribonucleotide reductase; Region: RNR_III; cd01675 314282005970 effector binding site; other site 314282005971 active site 314282005972 Zn binding site [ion binding]; other site 314282005973 glycine loop; other site 314282005974 electron transport complex protein RsxA; Provisional; Region: PRK05151 314282005975 electron transport complex protein RnfB; Provisional; Region: PRK05113 314282005976 Putative Fe-S cluster; Region: FeS; pfam04060 314282005977 4Fe-4S binding domain; Region: Fer4; pfam00037 314282005978 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 314282005979 SLBB domain; Region: SLBB; pfam10531 314282005980 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 314282005981 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 314282005982 FMN-binding domain; Region: FMN_bind; cl01081 314282005983 electron transport complex RsxE subunit; Provisional; Region: PRK12405 314282005984 endonuclease III; Provisional; Region: PRK10702 314282005985 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 314282005986 minor groove reading motif; other site 314282005987 helix-hairpin-helix signature motif; other site 314282005988 substrate binding pocket [chemical binding]; other site 314282005989 active site 314282005990 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 314282005991 Family description; Region: UvrD_C_2; pfam13538 314282005992 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 314282005993 Part of AAA domain; Region: AAA_19; pfam13245 314282005994 Family description; Region: UvrD_C_2; pfam13538 314282005995 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 314282005996 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282005997 Walker A/P-loop; other site 314282005998 ATP binding site [chemical binding]; other site 314282005999 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 314282006000 putative active site [active] 314282006001 putative metal-binding site [ion binding]; other site 314282006002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 314282006003 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 314282006004 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 314282006005 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 314282006006 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 314282006007 cofactor binding site; other site 314282006008 DNA binding site [nucleotide binding] 314282006009 substrate interaction site [chemical binding]; other site 314282006010 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 314282006011 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 314282006012 quinolinate synthetase; Provisional; Region: PRK09375 314282006013 tol-pal system protein YbgF; Provisional; Region: PRK10803 314282006014 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 314282006015 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282006016 ligand binding site [chemical binding]; other site 314282006017 translocation protein TolB; Provisional; Region: tolB; PRK04792 314282006018 TolB amino-terminal domain; Region: TolB_N; pfam04052 314282006019 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314282006020 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314282006021 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314282006022 TolA protein; Region: tolA_full; TIGR02794 314282006023 TolA C-terminal; Region: TolA; pfam06519 314282006024 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 314282006025 TolR protein; Region: tolR; TIGR02801 314282006026 TolQ protein; Region: tolQ; TIGR02796 314282006027 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 314282006028 active site 314282006029 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; pfam09600 314282006030 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 314282006031 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 314282006032 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 314282006033 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 314282006034 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 314282006035 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 314282006036 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 314282006037 Walker A motif; other site 314282006038 ATP binding site [chemical binding]; other site 314282006039 Walker B motif; other site 314282006040 arginine finger; other site 314282006041 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 314282006042 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 314282006043 RuvA N terminal domain; Region: RuvA_N; pfam01330 314282006044 Pleckstrin homology-like domain; Region: PH-like; cl17171 314282006045 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 314282006046 Predicted permeases [General function prediction only]; Region: RarD; COG2962 314282006047 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 314282006048 active site 314282006049 putative DNA-binding cleft [nucleotide binding]; other site 314282006050 dimer interface [polypeptide binding]; other site 314282006051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282006052 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 314282006053 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 314282006054 putative dimerization interface [polypeptide binding]; other site 314282006055 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 314282006056 active site clefts [active] 314282006057 zinc binding site [ion binding]; other site 314282006058 dimer interface [polypeptide binding]; other site 314282006059 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 314282006060 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 314282006061 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314282006062 Zn2+ binding site [ion binding]; other site 314282006063 Mg2+ binding site [ion binding]; other site 314282006064 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 314282006065 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 314282006066 dimer interface [polypeptide binding]; other site 314282006067 anticodon binding site; other site 314282006068 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 314282006069 homodimer interface [polypeptide binding]; other site 314282006070 motif 1; other site 314282006071 active site 314282006072 motif 2; other site 314282006073 GAD domain; Region: GAD; pfam02938 314282006074 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 314282006075 active site 314282006076 motif 3; other site 314282006077 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 314282006078 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 314282006079 S-adenosylmethionine binding site [chemical binding]; other site 314282006080 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314282006081 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 314282006082 S-adenosylmethionine binding site [chemical binding]; other site 314282006083 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 314282006084 putative active site [active] 314282006085 putative CoA binding site [chemical binding]; other site 314282006086 nudix motif; other site 314282006087 metal binding site [ion binding]; metal-binding site 314282006088 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 314282006089 Acyltransferase family; Region: Acyl_transf_3; pfam01757 314282006090 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 314282006091 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 314282006092 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314282006093 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314282006094 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 314282006095 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314282006096 Walker A/P-loop; other site 314282006097 ATP binding site [chemical binding]; other site 314282006098 Q-loop/lid; other site 314282006099 ABC transporter signature motif; other site 314282006100 Walker B; other site 314282006101 D-loop; other site 314282006102 H-loop/switch region; other site 314282006103 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 314282006104 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314282006105 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314282006106 HlyD family secretion protein; Region: HlyD_3; pfam13437 314282006107 Outer membrane efflux protein; Region: OEP; pfam02321 314282006108 Outer membrane efflux protein; Region: OEP; pfam02321 314282006109 YcxB-like protein; Region: YcxB; pfam14317 314282006110 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314282006111 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 314282006112 probable active site [active] 314282006113 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 314282006114 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 314282006115 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 314282006116 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 314282006117 CreA protein; Region: CreA; pfam05981 314282006118 adenosine deaminase; Provisional; Region: PRK09358 314282006119 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 314282006120 active site 314282006121 Syd protein (SUKH-2); Region: Syd; pfam07348 314282006122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 314282006123 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 314282006124 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 314282006125 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282006126 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282006127 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282006128 metal binding site [ion binding]; metal-binding site 314282006129 active site 314282006130 I-site; other site 314282006131 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 314282006132 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 314282006133 flap endonuclease-like protein; Provisional; Region: PRK09482 314282006134 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 314282006135 active site 314282006136 metal binding site 1 [ion binding]; metal-binding site 314282006137 putative 5' ssDNA interaction site; other site 314282006138 metal binding site 3; metal-binding site 314282006139 metal binding site 2 [ion binding]; metal-binding site 314282006140 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 314282006141 putative DNA binding site [nucleotide binding]; other site 314282006142 putative metal binding site [ion binding]; other site 314282006143 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 314282006144 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 314282006145 Sulfate transporter family; Region: Sulfate_transp; pfam00916 314282006146 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 314282006147 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314282006148 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 314282006149 Protein of unknown function (DUF3461); Region: DUF3461; pfam11944 314282006150 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 314282006151 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 314282006152 putative substrate translocation pore; other site 314282006153 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 314282006154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282006155 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 314282006156 substrate binding pocket [chemical binding]; other site 314282006157 dimerization interface [polypeptide binding]; other site 314282006158 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 314282006159 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 314282006160 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 314282006161 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 314282006162 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 314282006163 FeS/SAM binding site; other site 314282006164 TRAM domain; Region: TRAM; pfam01938 314282006165 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 314282006166 PhoH-like protein; Region: PhoH; pfam02562 314282006167 metal-binding heat shock protein; Provisional; Region: PRK00016 314282006168 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 314282006169 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 314282006170 Transporter associated domain; Region: CorC_HlyC; smart01091 314282006171 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 314282006172 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 314282006173 putative active site [active] 314282006174 catalytic triad [active] 314282006175 putative dimer interface [polypeptide binding]; other site 314282006176 Retropepsins; pepsin-like aspartate proteases; Region: retropepsin_like; cd00303 314282006177 inhibitor binding site; inhibition site 314282006178 catalytic motif [active] 314282006179 Catalytic residue [active] 314282006180 Active site flap [active] 314282006181 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 314282006182 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 314282006183 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 314282006184 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 314282006185 dimer interface [polypeptide binding]; other site 314282006186 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 314282006187 stringent starvation protein A; Provisional; Region: sspA; PRK09481 314282006188 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 314282006189 C-terminal domain interface [polypeptide binding]; other site 314282006190 putative GSH binding site (G-site) [chemical binding]; other site 314282006191 dimer interface [polypeptide binding]; other site 314282006192 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 314282006193 dimer interface [polypeptide binding]; other site 314282006194 N-terminal domain interface [polypeptide binding]; other site 314282006195 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 314282006196 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 314282006197 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 314282006198 Qi binding site; other site 314282006199 intrachain domain interface; other site 314282006200 interchain domain interface [polypeptide binding]; other site 314282006201 heme bH binding site [chemical binding]; other site 314282006202 heme bL binding site [chemical binding]; other site 314282006203 Qo binding site; other site 314282006204 interchain domain interface [polypeptide binding]; other site 314282006205 intrachain domain interface; other site 314282006206 Qi binding site; other site 314282006207 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 314282006208 Qo binding site; other site 314282006209 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 314282006210 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 314282006211 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 314282006212 [2Fe-2S] cluster binding site [ion binding]; other site 314282006213 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 314282006214 Ferritin-like domain; Region: Ferritin; pfam00210 314282006215 ferroxidase diiron center [ion binding]; other site 314282006216 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 314282006217 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 314282006218 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 314282006219 23S rRNA interface [nucleotide binding]; other site 314282006220 L3 interface [polypeptide binding]; other site 314282006221 Predicted ATPase [General function prediction only]; Region: COG1485 314282006222 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 314282006223 pyruvate kinase; Provisional; Region: PRK09206 314282006224 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 314282006225 domain interfaces; other site 314282006226 active site 314282006227 serine endoprotease; Provisional; Region: PRK10898 314282006228 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 314282006229 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 314282006230 protein binding site [polypeptide binding]; other site 314282006231 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 314282006232 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 314282006233 hinge; other site 314282006234 active site 314282006235 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 314282006236 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 314282006237 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 314282006238 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 314282006239 mce related protein; Region: MCE; pfam02470 314282006240 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 314282006241 Permease; Region: Permease; cl00510 314282006242 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 314282006243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282006244 Walker A/P-loop; other site 314282006245 ATP binding site [chemical binding]; other site 314282006246 Q-loop/lid; other site 314282006247 ABC transporter signature motif; other site 314282006248 Walker B; other site 314282006249 D-loop; other site 314282006250 H-loop/switch region; other site 314282006251 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 314282006252 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 314282006253 active site 314282006254 motif I; other site 314282006255 motif II; other site 314282006256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 314282006257 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 314282006258 OstA-like protein; Region: OstA; cl00844 314282006259 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 314282006260 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 314282006261 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 314282006262 Walker A/P-loop; other site 314282006263 ATP binding site [chemical binding]; other site 314282006264 Q-loop/lid; other site 314282006265 ABC transporter signature motif; other site 314282006266 Walker B; other site 314282006267 D-loop; other site 314282006268 H-loop/switch region; other site 314282006269 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 314282006270 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 314282006271 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 314282006272 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 314282006273 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 314282006274 active site 314282006275 phosphorylation site [posttranslational modification] 314282006276 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 314282006277 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 314282006278 MgtE intracellular N domain; Region: MgtE_N; smart00924 314282006279 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 314282006280 Divalent cation transporter; Region: MgtE; pfam01769 314282006281 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 314282006282 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314282006283 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 314282006284 DNA binding site [nucleotide binding] 314282006285 Response regulator receiver domain; Region: Response_reg; pfam00072 314282006286 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 314282006287 active site 314282006288 phosphorylation site [posttranslational modification] 314282006289 intermolecular recognition site; other site 314282006290 dimerization interface [polypeptide binding]; other site 314282006291 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 314282006292 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 314282006293 substrate binding site [chemical binding]; other site 314282006294 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 314282006295 substrate binding site [chemical binding]; other site 314282006296 ligand binding site [chemical binding]; other site 314282006297 asparagine synthetase AsnA; Provisional; Region: PRK05425 314282006298 motif 1; other site 314282006299 dimer interface [polypeptide binding]; other site 314282006300 active site 314282006301 motif 2; other site 314282006302 motif 3; other site 314282006303 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 314282006304 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 314282006305 putative DNA binding site [nucleotide binding]; other site 314282006306 putative Zn2+ binding site [ion binding]; other site 314282006307 AsnC family; Region: AsnC_trans_reg; pfam01037 314282006308 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 314282006309 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 314282006310 Protein of unknown function (DUF489); Region: DUF489; pfam04356 314282006311 adenylosuccinate lyase; Provisional; Region: PRK09285 314282006312 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 314282006313 tetramer interface [polypeptide binding]; other site 314282006314 active site 314282006315 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 314282006316 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 314282006317 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314282006318 DNA-binding site [nucleotide binding]; DNA binding site 314282006319 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 314282006320 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 314282006321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314282006322 homodimer interface [polypeptide binding]; other site 314282006323 catalytic residue [active] 314282006324 Uncharacterized conserved protein [Function unknown]; Region: COG2850 314282006325 ferrochelatase; Reviewed; Region: hemH; PRK00035 314282006326 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 314282006327 C-terminal domain interface [polypeptide binding]; other site 314282006328 active site 314282006329 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 314282006330 active site 314282006331 N-terminal domain interface [polypeptide binding]; other site 314282006332 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 314282006333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282006334 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314282006335 dimerization interface [polypeptide binding]; other site 314282006336 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 314282006337 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 314282006338 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 314282006339 EamA-like transporter family; Region: EamA; cl17759 314282006340 transcriptional regulator protein; Region: phnR; TIGR03337 314282006341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 314282006342 DNA-binding site [nucleotide binding]; DNA binding site 314282006343 UTRA domain; Region: UTRA; pfam07702 314282006344 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 314282006345 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 314282006346 dimer interface [polypeptide binding]; other site 314282006347 conserved gate region; other site 314282006348 putative PBP binding loops; other site 314282006349 ABC-ATPase subunit interface; other site 314282006350 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 314282006351 dimer interface [polypeptide binding]; other site 314282006352 conserved gate region; other site 314282006353 putative PBP binding loops; other site 314282006354 ABC-ATPase subunit interface; other site 314282006355 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 314282006356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282006357 Walker A/P-loop; other site 314282006358 ATP binding site [chemical binding]; other site 314282006359 Q-loop/lid; other site 314282006360 ABC transporter signature motif; other site 314282006361 Walker B; other site 314282006362 D-loop; other site 314282006363 H-loop/switch region; other site 314282006364 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 314282006365 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 314282006366 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 314282006367 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 314282006368 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314282006369 catalytic residue [active] 314282006370 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 314282006371 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; cl17915 314282006372 motif II; other site 314282006373 adenylate kinase; Reviewed; Region: adk; PRK00279 314282006374 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 314282006375 AMP-binding site [chemical binding]; other site 314282006376 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 314282006377 heat shock protein 90; Provisional; Region: PRK05218 314282006378 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 314282006379 ATP binding site [chemical binding]; other site 314282006380 Mg2+ binding site [ion binding]; other site 314282006381 G-X-G motif; other site 314282006382 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 314282006383 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 314282006384 ATP-dependent helicase HepA; Validated; Region: PRK04914 314282006385 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 314282006386 ATP binding site [chemical binding]; other site 314282006387 putative Mg++ binding site [ion binding]; other site 314282006388 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 314282006389 nucleotide binding region [chemical binding]; other site 314282006390 ATP-binding site [chemical binding]; other site 314282006391 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314282006392 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314282006393 active site 314282006394 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 314282006395 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 314282006396 ligand binding site [chemical binding]; other site 314282006397 homodimer interface [polypeptide binding]; other site 314282006398 NAD(P) binding site [chemical binding]; other site 314282006399 trimer interface B [polypeptide binding]; other site 314282006400 trimer interface A [polypeptide binding]; other site 314282006401 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 314282006402 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 314282006403 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 314282006404 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 314282006405 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 314282006406 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 314282006407 active site 314282006408 metal binding site [ion binding]; metal-binding site 314282006409 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 314282006410 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 314282006411 ring oligomerisation interface [polypeptide binding]; other site 314282006412 ATP/Mg binding site [chemical binding]; other site 314282006413 stacking interactions; other site 314282006414 hinge regions; other site 314282006415 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 314282006416 oligomerisation interface [polypeptide binding]; other site 314282006417 mobile loop; other site 314282006418 roof hairpin; other site 314282006419 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 314282006420 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 314282006421 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 314282006422 putative metal dependent hydrolase; Provisional; Region: PRK11598 314282006423 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 314282006424 Sulfatase; Region: Sulfatase; pfam00884 314282006425 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314282006426 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 314282006427 active site 314282006428 phosphorylation site [posttranslational modification] 314282006429 intermolecular recognition site; other site 314282006430 dimerization interface [polypeptide binding]; other site 314282006431 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 314282006432 DNA binding site [nucleotide binding] 314282006433 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314282006434 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 314282006435 dimer interface [polypeptide binding]; other site 314282006436 phosphorylation site [posttranslational modification] 314282006437 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 314282006438 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 314282006439 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 314282006440 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 314282006441 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314282006442 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 314282006443 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 314282006444 DNA binding residues [nucleotide binding] 314282006445 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 314282006446 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282006447 Peptidase family M23; Region: Peptidase_M23; pfam01551 314282006448 Predicted membrane protein [Function unknown]; Region: COG1238 314282006449 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 314282006450 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 314282006451 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 314282006452 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 314282006453 Permutation of conserved domain; other site 314282006454 active site 314282006455 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 314282006456 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 314282006457 homotrimer interaction site [polypeptide binding]; other site 314282006458 zinc binding site [ion binding]; other site 314282006459 CDP-binding sites; other site 314282006460 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 314282006461 substrate binding site; other site 314282006462 dimer interface; other site 314282006463 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 314282006464 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 314282006465 Uncharacterized conserved protein [Function unknown]; Region: COG3391 314282006466 Uncharacterized conserved protein [Function unknown]; Region: COG3391 314282006467 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 314282006468 hypothetical protein; Provisional; Region: PRK07208 314282006469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314282006470 UDP-galactopyranose mutase; Region: GLF; pfam03275 314282006471 Iron permease FTR1 family; Region: FTR1; cl00475 314282006472 enolase; Provisional; Region: eno; PRK00077 314282006473 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 314282006474 dimer interface [polypeptide binding]; other site 314282006475 metal binding site [ion binding]; metal-binding site 314282006476 substrate binding pocket [chemical binding]; other site 314282006477 CTP synthetase; Validated; Region: pyrG; PRK05380 314282006478 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 314282006479 Catalytic site [active] 314282006480 active site 314282006481 UTP binding site [chemical binding]; other site 314282006482 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 314282006483 active site 314282006484 putative oxyanion hole; other site 314282006485 catalytic triad [active] 314282006486 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 314282006487 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 314282006488 substrate binding site [chemical binding]; other site 314282006489 amidase catalytic site [active] 314282006490 Zn binding residues [ion binding]; other site 314282006491 GMP synthase; Reviewed; Region: guaA; PRK00074 314282006492 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 314282006493 AMP/PPi binding site [chemical binding]; other site 314282006494 candidate oxyanion hole; other site 314282006495 catalytic triad [active] 314282006496 potential glutamine specificity residues [chemical binding]; other site 314282006497 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 314282006498 ATP Binding subdomain [chemical binding]; other site 314282006499 Ligand Binding sites [chemical binding]; other site 314282006500 Dimerization subdomain; other site 314282006501 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 314282006502 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 314282006503 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 314282006504 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 314282006505 active site 314282006506 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 314282006507 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 314282006508 generic binding surface II; other site 314282006509 generic binding surface I; other site 314282006510 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 314282006511 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 314282006512 putative catalytic cysteine [active] 314282006513 gamma-glutamyl kinase; Provisional; Region: PRK05429 314282006514 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 314282006515 nucleotide binding site [chemical binding]; other site 314282006516 homotetrameric interface [polypeptide binding]; other site 314282006517 putative phosphate binding site [ion binding]; other site 314282006518 putative allosteric binding site; other site 314282006519 PUA domain; Region: PUA; cl00607 314282006520 Transcriptional regulator Crl; Region: Crl; pfam07417 314282006521 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 314282006522 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 314282006523 NnrS protein; Region: NnrS; pfam05940 314282006524 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 314282006525 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 314282006526 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 314282006527 TrkA-N domain; Region: TrkA_N; pfam02254 314282006528 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282006529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282006530 metal binding site [ion binding]; metal-binding site 314282006531 active site 314282006532 I-site; other site 314282006533 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 314282006534 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 314282006535 Ligand Binding Site [chemical binding]; other site 314282006536 TilS substrate binding domain; Region: TilS; pfam09179 314282006537 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 314282006538 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 314282006539 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 314282006540 putative active site [active] 314282006541 putative PHP Thumb interface [polypeptide binding]; other site 314282006542 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 314282006543 generic binding surface II; other site 314282006544 generic binding surface I; other site 314282006545 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 314282006546 RNA/DNA hybrid binding site [nucleotide binding]; other site 314282006547 active site 314282006548 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 314282006549 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 314282006550 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 314282006551 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 314282006552 active site 314282006553 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 314282006554 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 314282006555 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 314282006556 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 314282006557 trimer interface [polypeptide binding]; other site 314282006558 active site 314282006559 UDP-GlcNAc binding site [chemical binding]; other site 314282006560 lipid binding site [chemical binding]; lipid-binding site 314282006561 periplasmic chaperone; Provisional; Region: PRK10780 314282006562 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 314282006563 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 314282006564 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314282006565 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314282006566 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314282006567 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314282006568 Surface antigen; Region: Bac_surface_Ag; pfam01103 314282006569 zinc metallopeptidase RseP; Provisional; Region: PRK10779 314282006570 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 314282006571 active site 314282006572 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 314282006573 protein binding site [polypeptide binding]; other site 314282006574 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 314282006575 putative substrate binding region [chemical binding]; other site 314282006576 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 314282006577 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 314282006578 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 314282006579 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 314282006580 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 314282006581 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 314282006582 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 314282006583 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 314282006584 catalytic residue [active] 314282006585 putative FPP diphosphate binding site; other site 314282006586 putative FPP binding hydrophobic cleft; other site 314282006587 dimer interface [polypeptide binding]; other site 314282006588 putative IPP diphosphate binding site; other site 314282006589 ribosome recycling factor; Reviewed; Region: frr; PRK00083 314282006590 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 314282006591 hinge region; other site 314282006592 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 314282006593 putative nucleotide binding site [chemical binding]; other site 314282006594 uridine monophosphate binding site [chemical binding]; other site 314282006595 homohexameric interface [polypeptide binding]; other site 314282006596 elongation factor Ts; Provisional; Region: tsf; PRK09377 314282006597 UBA/TS-N domain; Region: UBA; pfam00627 314282006598 Elongation factor TS; Region: EF_TS; pfam00889 314282006599 Elongation factor TS; Region: EF_TS; pfam00889 314282006600 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 314282006601 rRNA interaction site [nucleotide binding]; other site 314282006602 S8 interaction site; other site 314282006603 putative laminin-1 binding site; other site 314282006604 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 314282006605 active site 314282006606 PII uridylyl-transferase; Provisional; Region: PRK05007 314282006607 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314282006608 metal binding triad; other site 314282006609 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 314282006610 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314282006611 Zn2+ binding site [ion binding]; other site 314282006612 Mg2+ binding site [ion binding]; other site 314282006613 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 314282006614 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 314282006615 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 314282006616 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 314282006617 Walker A/P-loop; other site 314282006618 ATP binding site [chemical binding]; other site 314282006619 Q-loop/lid; other site 314282006620 ABC transporter signature motif; other site 314282006621 Walker B; other site 314282006622 D-loop; other site 314282006623 H-loop/switch region; other site 314282006624 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 314282006625 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 314282006626 dimer interface [polypeptide binding]; other site 314282006627 conserved gate region; other site 314282006628 putative PBP binding loops; other site 314282006629 ABC-ATPase subunit interface; other site 314282006630 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 314282006631 dimer interface [polypeptide binding]; other site 314282006632 conserved gate region; other site 314282006633 putative PBP binding loops; other site 314282006634 ABC-ATPase subunit interface; other site 314282006635 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 314282006636 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 314282006637 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 314282006638 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 314282006639 active site 314282006640 phosphorylation site [posttranslational modification] 314282006641 intermolecular recognition site; other site 314282006642 dimerization interface [polypeptide binding]; other site 314282006643 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 314282006644 Walker A motif; other site 314282006645 ATP binding site [chemical binding]; other site 314282006646 Walker B motif; other site 314282006647 arginine finger; other site 314282006648 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314282006649 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314282006650 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; cl02459 314282006651 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 314282006652 dimer interface [polypeptide binding]; other site 314282006653 phosphorylation site [posttranslational modification] 314282006654 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 314282006655 ATP binding site [chemical binding]; other site 314282006656 Mg2+ binding site [ion binding]; other site 314282006657 G-X-G motif; other site 314282006658 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 314282006659 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 314282006660 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 314282006661 Walker A motif; other site 314282006662 ATP binding site [chemical binding]; other site 314282006663 Walker B motif; other site 314282006664 arginine finger; other site 314282006665 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314282006666 Flagellar protein FliS; Region: FliS; cl00654 314282006667 DJ-1 family protein; Region: not_thiJ; TIGR01383 314282006668 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 314282006669 conserved cys residue [active] 314282006670 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 314282006671 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 314282006672 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 314282006673 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 314282006674 active pocket/dimerization site; other site 314282006675 active site 314282006676 phosphorylation site [posttranslational modification] 314282006677 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 314282006678 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 314282006679 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 314282006680 active site 314282006681 phosphorylation site [posttranslational modification] 314282006682 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 314282006683 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 314282006684 dimer interface [polypeptide binding]; other site 314282006685 active site 314282006686 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 314282006687 putative active site [active] 314282006688 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 314282006689 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 314282006690 binding surface 314282006691 TPR motif; other site 314282006692 Tetratricopeptide repeat; Region: TPR_16; pfam13432 314282006693 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 314282006694 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 314282006695 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 314282006696 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 314282006697 FlaG protein; Region: FlaG; pfam03646 314282006698 flagellin; Validated; Region: PRK08026 314282006699 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314282006700 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 314282006701 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 314282006702 putative active site [active] 314282006703 putative catalytic site [active] 314282006704 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 314282006705 active site 314282006706 dimer interface [polypeptide binding]; other site 314282006707 tetratricopeptide repeat protein; Provisional; Region: PRK11788 314282006708 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 314282006709 binding surface 314282006710 TPR motif; other site 314282006711 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 314282006712 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 314282006713 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 314282006714 IHF dimer interface [polypeptide binding]; other site 314282006715 IHF - DNA interface [nucleotide binding]; other site 314282006716 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 314282006717 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 314282006718 RNA binding site [nucleotide binding]; other site 314282006719 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 314282006720 RNA binding site [nucleotide binding]; other site 314282006721 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 314282006722 RNA binding site [nucleotide binding]; other site 314282006723 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 314282006724 RNA binding site [nucleotide binding]; other site 314282006725 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 314282006726 RNA binding site [nucleotide binding]; other site 314282006727 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 314282006728 RNA binding site [nucleotide binding]; other site 314282006729 cytidylate kinase; Provisional; Region: cmk; PRK00023 314282006730 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 314282006731 CMP-binding site; other site 314282006732 The sites determining sugar specificity; other site 314282006733 VacJ like lipoprotein; Region: VacJ; cl01073 314282006734 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 314282006735 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 314282006736 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 314282006737 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 314282006738 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 314282006739 catalytic residues [active] 314282006740 central insert; other site 314282006741 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 314282006742 CcmE; Region: CcmE; cl00994 314282006743 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 314282006744 heme exporter protein CcmC; Region: ccmC; TIGR01191 314282006745 heme exporter protein CcmB; Region: ccmB; TIGR01190 314282006746 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 314282006747 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 314282006748 Walker A/P-loop; other site 314282006749 ATP binding site [chemical binding]; other site 314282006750 Q-loop/lid; other site 314282006751 ABC transporter signature motif; other site 314282006752 Walker B; other site 314282006753 D-loop; other site 314282006754 H-loop/switch region; other site 314282006755 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 314282006756 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 314282006757 putative CheA interaction surface; other site 314282006758 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 314282006759 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 314282006760 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 314282006761 P-loop; other site 314282006762 Magnesium ion binding site [ion binding]; other site 314282006763 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 314282006764 Magnesium ion binding site [ion binding]; other site 314282006765 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 314282006766 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 314282006767 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282006768 ligand binding site [chemical binding]; other site 314282006769 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 314282006770 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 314282006771 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 314282006772 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 314282006773 active site 314282006774 phosphorylation site [posttranslational modification] 314282006775 intermolecular recognition site; other site 314282006776 dimerization interface [polypeptide binding]; other site 314282006777 CheB methylesterase; Region: CheB_methylest; pfam01339 314282006778 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 314282006779 putative binding surface; other site 314282006780 active site 314282006781 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 314282006782 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 314282006783 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 314282006784 ATP binding site [chemical binding]; other site 314282006785 Mg2+ binding site [ion binding]; other site 314282006786 G-X-G motif; other site 314282006787 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 314282006788 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 314282006789 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 314282006790 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 314282006791 active site 314282006792 phosphorylation site [posttranslational modification] 314282006793 intermolecular recognition site; other site 314282006794 dimerization interface [polypeptide binding]; other site 314282006795 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 314282006796 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314282006797 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 314282006798 DNA binding residues [nucleotide binding] 314282006799 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 314282006800 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 314282006801 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 314282006802 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 314282006803 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 314282006804 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 314282006805 FHIPEP family; Region: FHIPEP; pfam00771 314282006806 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 314282006807 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 314282006808 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 314282006809 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 314282006810 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 314282006811 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 314282006812 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 314282006813 flagellar motor switch protein; Validated; Region: fliN; PRK05698 314282006814 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 314282006815 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 314282006816 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 314282006817 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 314282006818 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 314282006819 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 314282006820 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 314282006821 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 314282006822 Walker A motif/ATP binding site; other site 314282006823 Walker B motif; other site 314282006824 flagellar assembly protein H; Validated; Region: fliH; PRK05687 314282006825 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 314282006826 Flagellar assembly protein FliH; Region: FliH; pfam02108 314282006827 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 314282006828 MgtE intracellular N domain; Region: MgtE_N; smart00924 314282006829 FliG C-terminal domain; Region: FliG_C; pfam01706 314282006830 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 314282006831 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 314282006832 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 314282006833 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 314282006834 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 314282006835 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 314282006836 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 314282006837 Nitrogen regulatory protein P-II; Region: P-II; smart00938 314282006838 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 314282006839 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 314282006840 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 314282006841 hypothetical protein; Provisional; Region: PRK04998 314282006842 lipoate-protein ligase B; Provisional; Region: PRK14342 314282006843 lipoyl synthase; Provisional; Region: PRK05481 314282006844 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 314282006845 FeS/SAM binding site; other site 314282006846 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 314282006847 heme-binding site [chemical binding]; other site 314282006848 regulatory protein CsrD; Provisional; Region: PRK11059 314282006849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282006850 active site 314282006851 I-site; other site 314282006852 metal binding site [ion binding]; metal-binding site 314282006853 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 314282006854 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 314282006855 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 314282006856 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 314282006857 S-adenosylmethionine binding site [chemical binding]; other site 314282006858 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 314282006859 PAS domain; Region: PAS_9; pfam13426 314282006860 putative active site [active] 314282006861 heme pocket [chemical binding]; other site 314282006862 HAMP domain; Region: HAMP; pfam00672 314282006863 dimerization interface [polypeptide binding]; other site 314282006864 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282006865 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282006866 dimer interface [polypeptide binding]; other site 314282006867 putative CheW interface [polypeptide binding]; other site 314282006868 KpsF/GutQ family protein; Region: kpsF; TIGR00393 314282006869 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 314282006870 putative active site [active] 314282006871 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 314282006872 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 314282006873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 314282006874 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 314282006875 Na binding site [ion binding]; other site 314282006876 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314282006877 EamA-like transporter family; Region: EamA; pfam00892 314282006878 EamA-like transporter family; Region: EamA; pfam00892 314282006879 Amidinotransferase; Region: Amidinotransf; cl12043 314282006880 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314282006881 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 314282006882 S-adenosylmethionine binding site [chemical binding]; other site 314282006883 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; cd00085 314282006884 active site 314282006885 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 314282006886 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 314282006887 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 314282006888 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 314282006889 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 314282006890 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 314282006891 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 314282006892 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 314282006893 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 314282006894 proline aminopeptidase P II; Provisional; Region: PRK10879 314282006895 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 314282006896 active site 314282006897 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 314282006898 Cell division protein ZapA; Region: ZapA; pfam05164 314282006899 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 314282006900 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 314282006901 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314282006902 HlyD family secretion protein; Region: HlyD_3; pfam13437 314282006903 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 314282006904 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 314282006905 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 314282006906 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 314282006907 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 314282006908 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 314282006909 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 314282006910 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314282006911 active site 314282006912 dimer interface [polypeptide binding]; other site 314282006913 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 314282006914 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 314282006915 ligand binding site [chemical binding]; other site 314282006916 NAD binding site [chemical binding]; other site 314282006917 tetramer interface [polypeptide binding]; other site 314282006918 catalytic site [active] 314282006919 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 314282006920 L-serine binding site [chemical binding]; other site 314282006921 ACT domain interface; other site 314282006922 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 314282006923 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 314282006924 S-adenosylmethionine binding site [chemical binding]; other site 314282006925 Fe-S metabolism associated domain; Region: SufE; cl00951 314282006926 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 314282006927 Transglycosylase; Region: Transgly; pfam00912 314282006928 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 314282006929 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 314282006930 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 314282006931 ATP binding site [chemical binding]; other site 314282006932 putative Mg++ binding site [ion binding]; other site 314282006933 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 314282006934 nucleotide binding region [chemical binding]; other site 314282006935 ATP-binding site [chemical binding]; other site 314282006936 Helicase associated domain (HA2); Region: HA2; pfam04408 314282006937 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 314282006938 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 314282006939 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 314282006940 active site 314282006941 HIGH motif; other site 314282006942 nucleotide binding site [chemical binding]; other site 314282006943 active site 314282006944 KMSKS motif; other site 314282006945 poly(A) polymerase; Region: pcnB; TIGR01942 314282006946 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 314282006947 active site 314282006948 NTP binding site [chemical binding]; other site 314282006949 metal binding triad [ion binding]; metal-binding site 314282006950 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 314282006951 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 314282006952 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 314282006953 catalytic center binding site [active] 314282006954 ATP binding site [chemical binding]; other site 314282006955 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 314282006956 oligomerization interface [polypeptide binding]; other site 314282006957 active site 314282006958 metal binding site [ion binding]; metal-binding site 314282006959 pantoate--beta-alanine ligase; Region: panC; TIGR00018 314282006960 Pantoate-beta-alanine ligase; Region: PanC; cd00560 314282006961 active site 314282006962 ATP-binding site [chemical binding]; other site 314282006963 pantoate-binding site; other site 314282006964 HXXH motif; other site 314282006965 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 314282006966 tetramerization interface [polypeptide binding]; other site 314282006967 active site 314282006968 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 314282006969 TMAO/DMSO reductase; Reviewed; Region: PRK05363 314282006970 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 314282006971 Moco binding site; other site 314282006972 metal coordination site [ion binding]; other site 314282006973 potential frameshift: common BLAST hit: gi|378715540|ref|YP_005280430.1| integrase catalytic subunit 314282006974 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 314282006975 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314282006976 active site 314282006977 metal binding site [ion binding]; metal-binding site 314282006978 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 314282006979 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 314282006980 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 314282006981 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 314282006982 Helix-turn-helix domain; Region: HTH_28; pfam13518 314282006983 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 314282006984 transaldolase-like protein; Provisional; Region: PTZ00411 314282006985 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 314282006986 active site 314282006987 dimer interface [polypeptide binding]; other site 314282006988 catalytic residue [active] 314282006989 transketolase; Reviewed; Region: PRK12753 314282006990 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 314282006991 TPP-binding site [chemical binding]; other site 314282006992 dimer interface [polypeptide binding]; other site 314282006993 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 314282006994 PYR/PP interface [polypeptide binding]; other site 314282006995 dimer interface [polypeptide binding]; other site 314282006996 TPP binding site [chemical binding]; other site 314282006997 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314282006998 Putative methyltransferase; Region: Methyltransf_4; cl17290 314282006999 inner membrane transport permease; Provisional; Region: PRK15066 314282007000 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 314282007001 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282007002 Walker A/P-loop; other site 314282007003 ATP binding site [chemical binding]; other site 314282007004 Q-loop/lid; other site 314282007005 ABC transporter signature motif; other site 314282007006 Walker B; other site 314282007007 D-loop; other site 314282007008 H-loop/switch region; other site 314282007009 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314282007010 active site 314282007011 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 314282007012 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 314282007013 aromatic acid decarboxylase; Validated; Region: PRK05920 314282007014 Flavoprotein; Region: Flavoprotein; pfam02441 314282007015 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 314282007016 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314282007017 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314282007018 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314282007019 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 314282007020 DHH family; Region: DHH; pfam01368 314282007021 DHHA2 domain; Region: DHHA2; pfam02833 314282007022 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 314282007023 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 314282007024 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 314282007025 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 314282007026 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 314282007027 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314282007028 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314282007029 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 314282007030 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 314282007031 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 314282007032 carboxyltransferase (CT) interaction site; other site 314282007033 biotinylation site [posttranslational modification]; other site 314282007034 Malic enzyme, N-terminal domain; Region: malic; pfam00390 314282007035 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 314282007036 putative NAD(P) binding site [chemical binding]; other site 314282007037 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 314282007038 Homeodomain-like domain; Region: HTH_23; pfam13384 314282007039 Winged helix-turn helix; Region: HTH_29; pfam13551 314282007040 Homeodomain-like domain; Region: HTH_32; pfam13565 314282007041 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 314282007042 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 314282007043 Nucleoside recognition; Region: Gate; pfam07670 314282007044 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 314282007045 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 314282007046 intersubunit interface [polypeptide binding]; other site 314282007047 active site 314282007048 catalytic residue [active] 314282007049 phosphopentomutase; Provisional; Region: PRK05362 314282007050 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 314282007051 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 314282007052 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 314282007053 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 314282007054 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 314282007055 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 314282007056 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 314282007057 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 314282007058 active site 314282007059 catalytic motif [active] 314282007060 Zn binding site [ion binding]; other site 314282007061 uridine phosphorylase; Provisional; Region: PRK11178 314282007062 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 314282007063 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 314282007064 Endonuclease I; Region: Endonuclease_1; pfam04231 314282007065 primosome assembly protein PriA; Validated; Region: PRK05580 314282007066 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 314282007067 ATP binding site [chemical binding]; other site 314282007068 putative Mg++ binding site [ion binding]; other site 314282007069 helicase superfamily c-terminal domain; Region: HELICc; smart00490 314282007070 CHASE domain; Region: CHASE; pfam03924 314282007071 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282007072 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282007073 metal binding site [ion binding]; metal-binding site 314282007074 active site 314282007075 I-site; other site 314282007076 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 314282007077 amino acid carrier protein; Region: agcS; TIGR00835 314282007078 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 314282007079 adenine DNA glycosylase; Provisional; Region: PRK10880 314282007080 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 314282007081 minor groove reading motif; other site 314282007082 helix-hairpin-helix signature motif; other site 314282007083 substrate binding pocket [chemical binding]; other site 314282007084 active site 314282007085 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 314282007086 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 314282007087 DNA binding and oxoG recognition site [nucleotide binding] 314282007088 oxidative damage protection protein; Provisional; Region: PRK05408 314282007089 Ion channel; Region: Ion_trans_2; pfam07885 314282007090 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 314282007091 Protein of unknown function (DUF541); Region: SIMPL; cl01077 314282007092 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 314282007093 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 314282007094 active site 314282007095 intersubunit interface [polypeptide binding]; other site 314282007096 zinc binding site [ion binding]; other site 314282007097 Na+ binding site [ion binding]; other site 314282007098 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 314282007099 Phosphoglycerate kinase; Region: PGK; pfam00162 314282007100 substrate binding site [chemical binding]; other site 314282007101 hinge regions; other site 314282007102 ADP binding site [chemical binding]; other site 314282007103 catalytic site [active] 314282007104 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282007105 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282007106 metal binding site [ion binding]; metal-binding site 314282007107 active site 314282007108 I-site; other site 314282007109 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 314282007110 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 314282007111 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 314282007112 TM-ABC transporter signature motif; other site 314282007113 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 314282007114 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 314282007115 Walker A/P-loop; other site 314282007116 ATP binding site [chemical binding]; other site 314282007117 Q-loop/lid; other site 314282007118 ABC transporter signature motif; other site 314282007119 Walker B; other site 314282007120 D-loop; other site 314282007121 H-loop/switch region; other site 314282007122 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 314282007123 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 314282007124 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 314282007125 ligand binding site [chemical binding]; other site 314282007126 calcium binding site [ion binding]; other site 314282007127 lac repressor; Reviewed; Region: lacI; PRK09526 314282007128 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 314282007129 DNA binding site [nucleotide binding] 314282007130 domain linker motif; other site 314282007131 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 314282007132 ligand binding site [chemical binding]; other site 314282007133 dimerization interface (open form) [polypeptide binding]; other site 314282007134 dimerization interface (closed form) [polypeptide binding]; other site 314282007135 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 314282007136 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314282007137 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282007138 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282007139 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 314282007140 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282007141 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 314282007142 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282007143 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314282007144 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 314282007145 Methyltransferase domain; Region: Methyltransf_11; pfam08241 314282007146 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 314282007147 RNA/DNA hybrid binding site [nucleotide binding]; other site 314282007148 active site 314282007149 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 314282007150 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 314282007151 active site 314282007152 catalytic site [active] 314282007153 substrate binding site [chemical binding]; other site 314282007154 TIGR03503 family protein; Region: TIGR03503 314282007155 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 314282007156 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 314282007157 Walker A motif; other site 314282007158 ATP binding site [chemical binding]; other site 314282007159 Walker B motif; other site 314282007160 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 314282007161 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314282007162 active site 314282007163 HIGH motif; other site 314282007164 nucleotide binding site [chemical binding]; other site 314282007165 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 314282007166 KMSKS motif; other site 314282007167 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 314282007168 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 314282007169 active site turn [active] 314282007170 phosphorylation site [posttranslational modification] 314282007171 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 314282007172 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 314282007173 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 314282007174 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 314282007175 active site 314282007176 trimer interface [polypeptide binding]; other site 314282007177 allosteric site; other site 314282007178 active site lid [active] 314282007179 hexamer (dimer of trimers) interface [polypeptide binding]; other site 314282007180 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 314282007181 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 314282007182 active site 314282007183 dimer interface [polypeptide binding]; other site 314282007184 MarR family; Region: MarR_2; cl17246 314282007185 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 314282007186 ROK family; Region: ROK; pfam00480 314282007187 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 314282007188 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 314282007189 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314282007190 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314282007191 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 314282007192 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 314282007193 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 314282007194 Walker A motif; other site 314282007195 ATP binding site [chemical binding]; other site 314282007196 Walker B motif; other site 314282007197 Pilin (bacterial filament); Region: Pilin; pfam00114 314282007198 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 314282007199 metal binding site 2 [ion binding]; metal-binding site 314282007200 putative DNA binding helix; other site 314282007201 metal binding site 1 [ion binding]; metal-binding site 314282007202 dimer interface [polypeptide binding]; other site 314282007203 structural Zn2+ binding site [ion binding]; other site 314282007204 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 314282007205 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 314282007206 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 314282007207 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 314282007208 putative metal binding site [ion binding]; other site 314282007209 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 314282007210 catalytic residues [active] 314282007211 hinge region; other site 314282007212 alpha helical domain; other site 314282007213 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 314282007214 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314282007215 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314282007216 ABC transporter; Region: ABC_tran_2; pfam12848 314282007217 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314282007218 glutathione reductase; Validated; Region: PRK06116 314282007219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314282007220 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314282007221 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314282007222 thymidylate synthase; Reviewed; Region: thyA; PRK01827 314282007223 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 314282007224 dimerization interface [polypeptide binding]; other site 314282007225 active site 314282007226 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 314282007227 serine/threonine transporter SstT; Provisional; Region: PRK13628 314282007228 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 314282007229 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 314282007230 putative active site [active] 314282007231 Ap4A binding site [chemical binding]; other site 314282007232 nudix motif; other site 314282007233 putative metal binding site [ion binding]; other site 314282007234 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 314282007235 putative DNA-binding cleft [nucleotide binding]; other site 314282007236 putative DNA clevage site; other site 314282007237 molecular lever; other site 314282007238 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 314282007239 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 314282007240 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 314282007241 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 314282007242 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 314282007243 O-Antigen ligase; Region: Wzy_C; pfam04932 314282007244 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 314282007245 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 314282007246 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 314282007247 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 314282007248 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314282007249 catalytic residue [active] 314282007250 osmolarity response regulator; Provisional; Region: ompR; PRK09468 314282007251 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 314282007252 active site 314282007253 phosphorylation site [posttranslational modification] 314282007254 intermolecular recognition site; other site 314282007255 dimerization interface [polypeptide binding]; other site 314282007256 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 314282007257 DNA binding site [nucleotide binding] 314282007258 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 314282007259 dimer interface [polypeptide binding]; other site 314282007260 phosphorylation site [posttranslational modification] 314282007261 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 314282007262 ATP binding site [chemical binding]; other site 314282007263 Mg2+ binding site [ion binding]; other site 314282007264 G-X-G motif; other site 314282007265 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 314282007266 RNA binding surface [nucleotide binding]; other site 314282007267 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 314282007268 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 314282007269 FeS/SAM binding site; other site 314282007270 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 314282007271 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 314282007272 ThiS interaction site; other site 314282007273 putative active site [active] 314282007274 tetramer interface [polypeptide binding]; other site 314282007275 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 314282007276 thiS-thiF/thiG interaction site; other site 314282007277 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 314282007278 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 314282007279 ATP binding site [chemical binding]; other site 314282007280 substrate interface [chemical binding]; other site 314282007281 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 314282007282 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 314282007283 substrate binding site [chemical binding]; other site 314282007284 ATP binding site [chemical binding]; other site 314282007285 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 314282007286 thiamine phosphate binding site [chemical binding]; other site 314282007287 active site 314282007288 pyrophosphate binding site [ion binding]; other site 314282007289 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 314282007290 ThiC-associated domain; Region: ThiC-associated; pfam13667 314282007291 ThiC family; Region: ThiC; pfam01964 314282007292 Protein of unknown function (DUF539); Region: DUF539; cl01129 314282007293 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 314282007294 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; cl17257 314282007295 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 314282007296 active site 2 [active] 314282007297 active site 1 [active] 314282007298 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314282007299 MarR family; Region: MarR; pfam01047 314282007300 MarR family; Region: MarR_2; cl17246 314282007301 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314282007302 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 314282007303 elongation factor G; Reviewed; Region: PRK00007 314282007304 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 314282007305 G1 box; other site 314282007306 putative GEF interaction site [polypeptide binding]; other site 314282007307 GTP/Mg2+ binding site [chemical binding]; other site 314282007308 Switch I region; other site 314282007309 G2 box; other site 314282007310 G3 box; other site 314282007311 Switch II region; other site 314282007312 G4 box; other site 314282007313 G5 box; other site 314282007314 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 314282007315 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 314282007316 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 314282007317 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 314282007318 UbiA prenyltransferase family; Region: UbiA; pfam01040 314282007319 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 314282007320 chorismate binding enzyme; Region: Chorismate_bind; cl10555 314282007321 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 314282007322 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 314282007323 dimer interface [polypeptide binding]; other site 314282007324 tetramer interface [polypeptide binding]; other site 314282007325 PYR/PP interface [polypeptide binding]; other site 314282007326 TPP binding site [chemical binding]; other site 314282007327 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 314282007328 TPP-binding site; other site 314282007329 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 314282007330 Putative serine esterase (DUF676); Region: DUF676; pfam05057 314282007331 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 314282007332 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 314282007333 substrate binding site [chemical binding]; other site 314282007334 oxyanion hole (OAH) forming residues; other site 314282007335 trimer interface [polypeptide binding]; other site 314282007336 peroxidase; Provisional; Region: PRK15000 314282007337 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 314282007338 dimer interface [polypeptide binding]; other site 314282007339 decamer (pentamer of dimers) interface [polypeptide binding]; other site 314282007340 catalytic triad [active] 314282007341 peroxidatic and resolving cysteines [active] 314282007342 Cytochrome c553 [Energy production and conversion]; Region: COG2863 314282007343 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 314282007344 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 314282007345 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 314282007346 ligand binding site [chemical binding]; other site 314282007347 flexible hinge region; other site 314282007348 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 314282007349 putative switch regulator; other site 314282007350 non-specific DNA interactions [nucleotide binding]; other site 314282007351 DNA binding site [nucleotide binding] 314282007352 sequence specific DNA binding site [nucleotide binding]; other site 314282007353 putative cAMP binding site [chemical binding]; other site 314282007354 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 314282007355 Fatty acyltransferase-like subfamily of the SGNH 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 hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 314282007356 active site 314282007357 catalytic triad [active] 314282007358 oxyanion hole [active] 314282007359 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 314282007360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282007361 Walker A/P-loop; other site 314282007362 ATP binding site [chemical binding]; other site 314282007363 Q-loop/lid; other site 314282007364 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314282007365 ABC transporter; Region: ABC_tran_2; pfam12848 314282007366 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314282007367 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 314282007368 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 314282007369 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314282007370 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 314282007371 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 314282007372 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 314282007373 comF family protein; Region: comF; TIGR00201 314282007374 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314282007375 active site 314282007376 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 314282007377 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 314282007378 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 314282007379 helicase 45; Provisional; Region: PTZ00424 314282007380 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 314282007381 ATP binding site [chemical binding]; other site 314282007382 Mg++ binding site [ion binding]; other site 314282007383 motif III; other site 314282007384 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 314282007385 nucleotide binding region [chemical binding]; other site 314282007386 ATP-binding site [chemical binding]; other site 314282007387 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 314282007388 putative RNA binding site [nucleotide binding]; other site 314282007389 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 314282007390 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 314282007391 Substrate binding site; other site 314282007392 Mg++ binding site; other site 314282007393 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 314282007394 active site 314282007395 substrate binding site [chemical binding]; other site 314282007396 CoA binding site [chemical binding]; other site 314282007397 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 314282007398 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 314282007399 homodimer interface [polypeptide binding]; other site 314282007400 NAD binding pocket [chemical binding]; other site 314282007401 ATP binding pocket [chemical binding]; other site 314282007402 Mg binding site [ion binding]; other site 314282007403 active-site loop [active] 314282007404 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 314282007405 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 314282007406 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 314282007407 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314282007408 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 314282007409 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 314282007410 SecA binding site; other site 314282007411 Preprotein binding site; other site 314282007412 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 314282007413 GSH binding site [chemical binding]; other site 314282007414 catalytic residues [active] 314282007415 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 314282007416 active site residue [active] 314282007417 phosphoglyceromutase; Provisional; Region: PRK05434 314282007418 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 314282007419 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 314282007420 Peptidase family M23; Region: Peptidase_M23; pfam01551 314282007421 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 314282007422 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 314282007423 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 314282007424 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 314282007425 FMN binding site [chemical binding]; other site 314282007426 active site 314282007427 catalytic residues [active] 314282007428 substrate binding site [chemical binding]; other site 314282007429 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 314282007430 Catalytic domain of Protein Kinases; Region: PKc; cd00180 314282007431 active site 314282007432 ATP binding site [chemical binding]; other site 314282007433 substrate binding site [chemical binding]; other site 314282007434 activation loop (A-loop); other site 314282007435 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 314282007436 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; cl17257 314282007437 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 314282007438 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314282007439 active site 314282007440 metal binding site [ion binding]; metal-binding site 314282007441 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 314282007442 TrkA-N domain; Region: TrkA_N; pfam02254 314282007443 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 314282007444 AAA ATPase domain; Region: AAA_16; pfam13191 314282007445 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 314282007446 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 314282007447 Walker A motif; other site 314282007448 ATP binding site [chemical binding]; other site 314282007449 Walker B motif; other site 314282007450 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 314282007451 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 314282007452 Walker A motif; other site 314282007453 ATP binding site [chemical binding]; other site 314282007454 Walker B motif; other site 314282007455 arginine finger; other site 314282007456 Peptidase family M41; Region: Peptidase_M41; pfam01434 314282007457 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 314282007458 Sel1-like repeats; Region: SEL1; smart00671 314282007459 Sel1-like repeats; Region: SEL1; smart00671 314282007460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314282007461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282007462 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 314282007463 putative effector binding pocket; other site 314282007464 dimerization interface [polypeptide binding]; other site 314282007465 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 314282007466 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 314282007467 potential catalytic triad [active] 314282007468 conserved cys residue [active] 314282007469 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 314282007470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282007471 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 314282007472 putative dimerization interface [polypeptide binding]; other site 314282007473 putative substrate binding pocket [chemical binding]; other site 314282007474 purine nucleoside phosphorylase; Provisional; Region: PRK08202 314282007475 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 314282007476 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 314282007477 putative substrate translocation pore; other site 314282007478 multifunctional aminopeptidase A; Provisional; Region: PRK00913 314282007479 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 314282007480 interface (dimer of trimers) [polypeptide binding]; other site 314282007481 Substrate-binding/catalytic site; other site 314282007482 Zn-binding sites [ion binding]; other site 314282007483 recombinase A; Provisional; Region: recA; PRK09354 314282007484 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 314282007485 hexamer interface [polypeptide binding]; other site 314282007486 Walker A motif; other site 314282007487 ATP binding site [chemical binding]; other site 314282007488 Walker B motif; other site 314282007489 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 314282007490 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 314282007491 MutS domain I; Region: MutS_I; pfam01624 314282007492 MutS domain II; Region: MutS_II; pfam05188 314282007493 MutS domain III; Region: MutS_III; pfam05192 314282007494 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 314282007495 Walker A/P-loop; other site 314282007496 ATP binding site [chemical binding]; other site 314282007497 Q-loop/lid; other site 314282007498 ABC transporter signature motif; other site 314282007499 Walker B; other site 314282007500 D-loop; other site 314282007501 H-loop/switch region; other site 314282007502 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 314282007503 metal binding site [ion binding]; metal-binding site 314282007504 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 314282007505 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 314282007506 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314282007507 putative substrate translocation pore; other site 314282007508 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 314282007509 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 314282007510 dimer interface [polypeptide binding]; other site 314282007511 ssDNA binding site [nucleotide binding]; other site 314282007512 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314282007513 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 314282007514 pyridoxamine kinase; Validated; Region: PRK05756 314282007515 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 314282007516 pyridoxal binding site [chemical binding]; other site 314282007517 dimer interface [polypeptide binding]; other site 314282007518 ATP binding site [chemical binding]; other site 314282007519 dUMP phosphatase; Provisional; Region: PRK09449 314282007520 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 314282007521 motif II; other site 314282007522 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 314282007523 Na2 binding site [ion binding]; other site 314282007524 putative substrate binding site 1 [chemical binding]; other site 314282007525 Na binding site 1 [ion binding]; other site 314282007526 putative substrate binding site 2 [chemical binding]; other site 314282007527 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 314282007528 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 314282007529 putative DNA binding site [nucleotide binding]; other site 314282007530 putative Zn2+ binding site [ion binding]; other site 314282007531 AsnC family; Region: AsnC_trans_reg; pfam01037 314282007532 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 314282007533 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 314282007534 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314282007535 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 314282007536 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314282007537 Zn2+ binding site [ion binding]; other site 314282007538 Mg2+ binding site [ion binding]; other site 314282007539 Bacterial sugar transferase; Region: Bac_transf; pfam02397 314282007540 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 314282007541 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314282007542 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 314282007543 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 314282007544 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 314282007545 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314282007546 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314282007547 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 314282007548 active site 314282007549 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 314282007550 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 314282007551 putative CoA binding site [chemical binding]; other site 314282007552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 314282007553 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 314282007554 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 314282007555 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 314282007556 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314282007557 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 314282007558 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 314282007559 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314282007560 acyl-activating enzyme (AAE) consensus motif; other site 314282007561 active site 314282007562 AMP binding site [chemical binding]; other site 314282007563 CoA binding site [chemical binding]; other site 314282007564 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314282007565 active site 314282007566 AMP binding site [chemical binding]; other site 314282007567 CoA binding site [chemical binding]; other site 314282007568 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 314282007569 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 314282007570 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 314282007571 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 314282007572 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 314282007573 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 314282007574 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 314282007575 active site 314282007576 homodimer interface [polypeptide binding]; other site 314282007577 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 314282007578 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 314282007579 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 314282007580 signal recognition particle protein; Provisional; Region: PRK10867 314282007581 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 314282007582 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 314282007583 P loop; other site 314282007584 GTP binding site [chemical binding]; other site 314282007585 Signal peptide binding domain; Region: SRP_SPB; pfam02978 314282007586 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 314282007587 Gram-negative porin; Region: Porin_4; pfam13609 314282007588 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 314282007589 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 314282007590 trimer interface [polypeptide binding]; other site 314282007591 hypothetical protein; Provisional; Region: PRK11573 314282007592 Domain of unknown function DUF21; Region: DUF21; pfam01595 314282007593 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 314282007594 Transporter associated domain; Region: CorC_HlyC; smart01091 314282007595 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 314282007596 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314282007597 catalytic residue [active] 314282007598 glutamate--cysteine ligase; Provisional; Region: PRK02107 314282007599 carbon storage regulator; Provisional; Region: PRK01712 314282007600 aspartate kinase; Reviewed; Region: PRK06635 314282007601 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 314282007602 putative nucleotide binding site [chemical binding]; other site 314282007603 putative catalytic residues [active] 314282007604 putative Mg ion binding site [ion binding]; other site 314282007605 putative aspartate binding site [chemical binding]; other site 314282007606 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 314282007607 putative allosteric regulatory site; other site 314282007608 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 314282007609 putative allosteric regulatory residue; other site 314282007610 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 314282007611 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 314282007612 motif 1; other site 314282007613 active site 314282007614 motif 2; other site 314282007615 motif 3; other site 314282007616 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 314282007617 DHHA1 domain; Region: DHHA1; pfam02272 314282007618 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 314282007619 active site 314282007620 homodimer interface [polypeptide binding]; other site 314282007621 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 314282007622 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 314282007623 ATP binding site [chemical binding]; other site 314282007624 putative Mg++ binding site [ion binding]; other site 314282007625 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 314282007626 nucleotide binding region [chemical binding]; other site 314282007627 ATP-binding site [chemical binding]; other site 314282007628 Uncharacterized conserved protein [Function unknown]; Region: COG3148 314282007629 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 314282007630 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 314282007631 Walker A motif; other site 314282007632 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 314282007633 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 314282007634 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 314282007635 active site 314282007636 catalytic tetrad [active] 314282007637 exoribonuclease R; Provisional; Region: PRK11642 314282007638 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 314282007639 RNB domain; Region: RNB; pfam00773 314282007640 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 314282007641 RNA binding site [nucleotide binding]; other site 314282007642 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 314282007643 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 314282007644 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314282007645 Protein of unknown function, DUF481; Region: DUF481; pfam04338 314282007646 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 314282007647 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 314282007648 dimer interface [polypeptide binding]; other site 314282007649 ssDNA binding site [nucleotide binding]; other site 314282007650 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314282007651 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 314282007652 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 314282007653 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 314282007654 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 314282007655 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 314282007656 catalytic core [active] 314282007657 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 314282007658 active pocket/dimerization site; other site 314282007659 active site 314282007660 phosphorylation site [posttranslational modification] 314282007661 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 314282007662 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 314282007663 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 314282007664 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 314282007665 active site 314282007666 phosphorylation site [posttranslational modification] 314282007667 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 314282007668 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 314282007669 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 314282007670 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 314282007671 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 314282007672 dimer interface [polypeptide binding]; other site 314282007673 putative anticodon binding site; other site 314282007674 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 314282007675 motif 1; other site 314282007676 active site 314282007677 motif 2; other site 314282007678 motif 3; other site 314282007679 This domain is found in peptide chain release factors; Region: PCRF; smart00937 314282007680 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 314282007681 RF-1 domain; Region: RF-1; pfam00472 314282007682 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 314282007683 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 314282007684 Sel1-like repeats; Region: SEL1; smart00671 314282007685 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 314282007686 outer membrane protein A; Reviewed; Region: PRK10808 314282007687 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 314282007688 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314282007689 ligand binding site [chemical binding]; other site 314282007690 elongation factor Tu; Reviewed; Region: PRK00049 314282007691 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 314282007692 G1 box; other site 314282007693 GEF interaction site [polypeptide binding]; other site 314282007694 GTP/Mg2+ binding site [chemical binding]; other site 314282007695 Switch I region; other site 314282007696 G2 box; other site 314282007697 G3 box; other site 314282007698 Switch II region; other site 314282007699 G4 box; other site 314282007700 G5 box; other site 314282007701 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 314282007702 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 314282007703 Antibiotic Binding Site [chemical binding]; other site 314282007704 elongation factor G; Reviewed; Region: PRK00007 314282007705 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 314282007706 G1 box; other site 314282007707 putative GEF interaction site [polypeptide binding]; other site 314282007708 GTP/Mg2+ binding site [chemical binding]; other site 314282007709 Switch I region; other site 314282007710 G2 box; other site 314282007711 G3 box; other site 314282007712 Switch II region; other site 314282007713 G4 box; other site 314282007714 G5 box; other site 314282007715 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 314282007716 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 314282007717 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 314282007718 30S ribosomal protein S7; Validated; Region: PRK05302 314282007719 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 314282007720 S17 interaction site [polypeptide binding]; other site 314282007721 S8 interaction site; other site 314282007722 16S rRNA interaction site [nucleotide binding]; other site 314282007723 streptomycin interaction site [chemical binding]; other site 314282007724 23S rRNA interaction site [nucleotide binding]; other site 314282007725 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 314282007726 DsrH like protein; Region: DsrH; pfam04077 314282007727 DsrE/DsrF-like family; Region: DrsE; cl00672 314282007728 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 314282007729 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 314282007730 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 314282007731 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 314282007732 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 314282007733 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 314282007734 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 314282007735 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 314282007736 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 314282007737 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 314282007738 DNA binding site [nucleotide binding] 314282007739 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 314282007740 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 314282007741 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 314282007742 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 314282007743 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 314282007744 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 314282007745 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 314282007746 RPB3 interaction site [polypeptide binding]; other site 314282007747 RPB1 interaction site [polypeptide binding]; other site 314282007748 RPB11 interaction site [polypeptide binding]; other site 314282007749 RPB10 interaction site [polypeptide binding]; other site 314282007750 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 314282007751 core dimer interface [polypeptide binding]; other site 314282007752 peripheral dimer interface [polypeptide binding]; other site 314282007753 L10 interface [polypeptide binding]; other site 314282007754 L11 interface [polypeptide binding]; other site 314282007755 putative EF-Tu interaction site [polypeptide binding]; other site 314282007756 putative EF-G interaction site [polypeptide binding]; other site 314282007757 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 314282007758 23S rRNA interface [nucleotide binding]; other site 314282007759 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 314282007760 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 314282007761 mRNA/rRNA interface [nucleotide binding]; other site 314282007762 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 314282007763 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 314282007764 23S rRNA interface [nucleotide binding]; other site 314282007765 L7/L12 interface [polypeptide binding]; other site 314282007766 putative thiostrepton binding site; other site 314282007767 L25 interface [polypeptide binding]; other site 314282007768 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 314282007769 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 314282007770 putative homodimer interface [polypeptide binding]; other site 314282007771 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 314282007772 heterodimer interface [polypeptide binding]; other site 314282007773 homodimer interface [polypeptide binding]; other site 314282007774 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 314282007775 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314282007776 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314282007777 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314282007778 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314282007779 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314282007780 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 314282007781 cleavage site 314282007782 active site 314282007783 substrate binding sites [chemical binding]; other site 314282007784 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 314282007785 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 314282007786 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 314282007787 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 314282007788 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 314282007789 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 314282007790 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 314282007791 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 314282007792 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 314282007793 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 314282007794 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 314282007795 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 314282007796 active site residue [active] 314282007797 selenophosphate synthetase; Provisional; Region: PRK00943 314282007798 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 314282007799 dimerization interface [polypeptide binding]; other site 314282007800 putative ATP binding site [chemical binding]; other site 314282007801 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 314282007802 PAS fold; Region: PAS_3; pfam08447 314282007803 putative active site [active] 314282007804 heme pocket [chemical binding]; other site 314282007805 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282007806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282007807 dimer interface [polypeptide binding]; other site 314282007808 putative CheW interface [polypeptide binding]; other site 314282007809 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 314282007810 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314282007811 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 314282007812 Walker A/P-loop; other site 314282007813 ATP binding site [chemical binding]; other site 314282007814 Q-loop/lid; other site 314282007815 ABC transporter signature motif; other site 314282007816 Walker B; other site 314282007817 D-loop; other site 314282007818 H-loop/switch region; other site 314282007819 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 314282007820 FtsX-like permease family; Region: FtsX; pfam02687 314282007821 NosL; Region: NosL; cl01769 314282007822 NosL; Region: NosL; cl01769 314282007823 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 314282007824 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 314282007825 catalytic residues [active] 314282007826 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314282007827 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314282007828 Walker A/P-loop; other site 314282007829 ATP binding site [chemical binding]; other site 314282007830 Q-loop/lid; other site 314282007831 ABC transporter signature motif; other site 314282007832 Walker B; other site 314282007833 D-loop; other site 314282007834 H-loop/switch region; other site 314282007835 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314282007836 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 314282007837 FtsX-like permease family; Region: FtsX; pfam02687 314282007838 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314282007839 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 314282007840 FtsX-like permease family; Region: FtsX; pfam02687 314282007841 Predicted membrane protein [Function unknown]; Region: COG4393 314282007842 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 314282007843 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 314282007844 Fe2+ transport protein; Region: Iron_transport; pfam10634 314282007845 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 314282007846 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 314282007847 Predicted membrane protein [Function unknown]; Region: COG2246 314282007848 GtrA-like protein; Region: GtrA; pfam04138 314282007849 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 314282007850 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 314282007851 Ligand binding site; other site 314282007852 Putative Catalytic site; other site 314282007853 DXD motif; other site 314282007854 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 314282007855 homotrimer interaction site [polypeptide binding]; other site 314282007856 putative active site [active] 314282007857 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 314282007858 Barrier to autointegration factor; Region: BAF; cl03803 314282007859 selenocysteine synthase; Provisional; Region: PRK04311 314282007860 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 314282007861 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 314282007862 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314282007863 catalytic residue [active] 314282007864 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 314282007865 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 314282007866 G1 box; other site 314282007867 GTP/Mg2+ binding site [chemical binding]; other site 314282007868 G2 box; other site 314282007869 Switch I region; other site 314282007870 G3 box; other site 314282007871 Switch II region; other site 314282007872 G4 box; other site 314282007873 G5 box; other site 314282007874 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 314282007875 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 314282007876 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 314282007877 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 314282007878 active site residue [active] 314282007879 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 314282007880 active site residue [active] 314282007881 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 314282007882 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 314282007883 GAF domain; Region: GAF; pfam01590 314282007884 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 314282007885 Walker A motif; other site 314282007886 ATP binding site [chemical binding]; other site 314282007887 Walker B motif; other site 314282007888 arginine finger; other site 314282007889 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314282007890 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 314282007891 molybdopterin cofactor binding site; other site 314282007892 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 314282007893 molybdopterin cofactor binding site; other site 314282007894 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 314282007895 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 314282007896 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 314282007897 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 314282007898 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 314282007899 nickel binding site [ion binding]; other site 314282007900 Formate hydrogenlyase maturation protein HycH; Region: HycH; pfam07450 314282007901 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 314282007902 hydrogenase 4 subunit H; Validated; Region: PRK08222 314282007903 4Fe-4S binding domain; Region: Fer4; pfam00037 314282007904 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 314282007905 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 314282007906 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 314282007907 hydrogenase 4 subunit D; Validated; Region: PRK06525 314282007908 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 314282007909 NADH dehydrogenase; Region: NADHdh; cl00469 314282007910 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 314282007911 hydrogenase 4 subunit B; Validated; Region: PRK06521 314282007912 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 314282007913 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 314282007914 4Fe-4S binding domain; Region: Fer4; pfam00037 314282007915 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 314282007916 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314282007917 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 314282007918 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 314282007919 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 314282007920 Acylphosphatase; Region: Acylphosphatase; pfam00708 314282007921 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 314282007922 HypF finger; Region: zf-HYPF; pfam07503 314282007923 HypF finger; Region: zf-HYPF; pfam07503 314282007924 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 314282007925 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 314282007926 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 314282007927 Hydrogenase formation hypA family; Region: HypD; pfam01924 314282007928 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 314282007929 dimerization interface [polypeptide binding]; other site 314282007930 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 314282007931 ATP binding site [chemical binding]; other site 314282007932 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 314282007933 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 314282007934 DAK2 domain; Region: Dak2; pfam02734 314282007935 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 314282007936 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 314282007937 dimer interface [polypeptide binding]; other site 314282007938 active site 314282007939 metal binding site [ion binding]; metal-binding site 314282007940 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 314282007941 Dak1 domain; Region: Dak1; pfam02733 314282007942 DAK2 domain; Region: Dak2; cl03685 314282007943 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 314282007944 active site 314282007945 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 314282007946 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 314282007947 putative substrate translocation pore; other site 314282007948 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 314282007949 PAS domain; Region: PAS; smart00091 314282007950 putative active site [active] 314282007951 heme pocket [chemical binding]; other site 314282007952 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 314282007953 Walker A motif; other site 314282007954 ATP binding site [chemical binding]; other site 314282007955 Walker B motif; other site 314282007956 arginine finger; other site 314282007957 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314282007958 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 314282007959 Class I ribonucleotide reductase; Region: RNR_I; cd01679 314282007960 active site 314282007961 dimer interface [polypeptide binding]; other site 314282007962 catalytic residues [active] 314282007963 effector binding site; other site 314282007964 R2 peptide binding site; other site 314282007965 ATP cone domain; Region: ATP-cone; pfam03477 314282007966 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 314282007967 dimer interface [polypeptide binding]; other site 314282007968 putative radical transfer pathway; other site 314282007969 diiron center [ion binding]; other site 314282007970 tyrosyl radical; other site 314282007971 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 314282007972 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 314282007973 HflX GTPase family; Region: HflX; cd01878 314282007974 G1 box; other site 314282007975 GTP/Mg2+ binding site [chemical binding]; other site 314282007976 Switch I region; other site 314282007977 G2 box; other site 314282007978 G3 box; other site 314282007979 Switch II region; other site 314282007980 G4 box; other site 314282007981 G5 box; other site 314282007982 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 314282007983 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 314282007984 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 314282007985 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 314282007986 Biotin operon repressor [Transcription]; Region: BirA; COG1654 314282007987 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 314282007988 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 314282007989 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 314282007990 FAD binding domain; Region: FAD_binding_4; pfam01565 314282007991 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 314282007992 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 314282007993 methionine sulfoxide reductase B; Provisional; Region: PRK00222 314282007994 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 314282007995 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 314282007996 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 314282007997 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 314282007998 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 314282007999 oligopeptidase A; Provisional; Region: PRK10911 314282008000 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 314282008001 active site 314282008002 Zn binding site [ion binding]; other site 314282008003 PAS domain; Region: PAS_9; pfam13426 314282008004 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 314282008005 putative active site [active] 314282008006 heme pocket [chemical binding]; other site 314282008007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314282008008 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 314282008009 ATP binding site [chemical binding]; other site 314282008010 Mg2+ binding site [ion binding]; other site 314282008011 G-X-G motif; other site 314282008012 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 314282008013 G1 box; other site 314282008014 GTP/Mg2+ binding site [chemical binding]; other site 314282008015 Switch I region; other site 314282008016 G2 box; other site 314282008017 G3 box; other site 314282008018 Switch II region; other site 314282008019 G4 box; other site 314282008020 G5 box; other site 314282008021 Cytochrome c553 [Energy production and conversion]; Region: COG2863 314282008022 Cytochrome c; Region: Cytochrom_C; cl11414 314282008023 Der GTPase activator (YihI); Region: YihI; pfam04220 314282008024 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 314282008025 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 314282008026 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 314282008027 FeS/SAM binding site; other site 314282008028 HemN C-terminal domain; Region: HemN_C; pfam06969 314282008029 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 314282008030 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 314282008031 endonuclease IV; Provisional; Region: PRK01060 314282008032 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 314282008033 AP (apurinic/apyrimidinic) site pocket; other site 314282008034 DNA interaction; other site 314282008035 Metal-binding active site; metal-binding site 314282008036 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 314282008037 HD domain; Region: HD_4; pfam13328 314282008038 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 314282008039 synthetase active site [active] 314282008040 NTP binding site [chemical binding]; other site 314282008041 metal binding site [ion binding]; metal-binding site 314282008042 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 314282008043 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 314282008044 META domain; Region: META; pfam03724 314282008045 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 314282008046 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 314282008047 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 314282008048 active site 314282008049 metal binding site [ion binding]; metal-binding site 314282008050 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 314282008051 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 314282008052 ATP binding site [chemical binding]; other site 314282008053 putative Mg++ binding site [ion binding]; other site 314282008054 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 314282008055 nucleotide binding region [chemical binding]; other site 314282008056 ATP-binding site [chemical binding]; other site 314282008057 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 314282008058 HRDC domain; Region: HRDC; pfam00570 314282008059 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314282008060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314282008061 metal binding site [ion binding]; metal-binding site 314282008062 active site 314282008063 I-site; other site 314282008064 Flavodoxin domain; Region: Flavodoxin_5; cl17428 314282008065 Cation transport protein; Region: TrkH; cl17365 314282008066 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 314282008067 hypothetical protein; Provisional; Region: PRK11568 314282008068 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 314282008069 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 314282008070 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 314282008071 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 314282008072 substrate binding pocket [chemical binding]; other site 314282008073 membrane-bound complex binding site; other site 314282008074 hinge residues; other site 314282008075 replicative DNA helicase; Region: DnaB; TIGR00665 314282008076 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 314282008077 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 314282008078 Walker A motif; other site 314282008079 ATP binding site [chemical binding]; other site 314282008080 Walker B motif; other site 314282008081 DNA binding loops [nucleotide binding] 314282008082 alanine racemase; Reviewed; Region: alr; PRK00053 314282008083 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 314282008084 active site 314282008085 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314282008086 substrate binding site [chemical binding]; other site 314282008087 catalytic residues [active] 314282008088 dimer interface [polypeptide binding]; other site 314282008089 O-succinylbenzoate synthase; Provisional; Region: PRK05105 314282008090 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 314282008091 active site 314282008092 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 314282008093 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 314282008094 acyl-activating enzyme (AAE) consensus motif; other site 314282008095 putative AMP binding site [chemical binding]; other site 314282008096 putative active site [active] 314282008097 putative CoA binding site [chemical binding]; other site 314282008098 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 314282008099 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 314282008100 putative acyl-acceptor binding pocket; other site 314282008101 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 314282008102 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314282008103 metal binding triad; other site 314282008104 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 314282008105 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314282008106 metal binding triad; other site 314282008107 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 314282008108 PspA/IM30 family; Region: PspA_IM30; pfam04012 314282008109 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282008110 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282008111 dimer interface [polypeptide binding]; other site 314282008112 putative CheW interface [polypeptide binding]; other site 314282008113 Uncharacterized conserved protein [Function unknown]; Region: COG3025 314282008114 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 314282008115 putative active site [active] 314282008116 putative metal binding residues [ion binding]; other site 314282008117 signature motif; other site 314282008118 putative triphosphate binding site [ion binding]; other site 314282008119 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 314282008120 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 314282008121 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 314282008122 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 314282008123 Bacterial SH3 domain homologues; Region: SH3b; smart00287 314282008124 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 314282008125 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 314282008126 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 314282008127 Walker A motif; other site 314282008128 ATP binding site [chemical binding]; other site 314282008129 Walker B motif; other site 314282008130 arginine finger; other site 314282008131 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 314282008132 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 314282008133 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 314282008134 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 314282008135 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 314282008136 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314282008137 Zn2+ binding site [ion binding]; other site 314282008138 Mg2+ binding site [ion binding]; other site 314282008139 Bacitracin resistance protein BacA; Region: BacA; pfam02673 314282008140 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; cl00233 314282008141 catalytic center binding site [active] 314282008142 ATP binding site [chemical binding]; other site 314282008143 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 314282008144 homooctamer interface [polypeptide binding]; other site 314282008145 active site 314282008146 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 314282008147 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 314282008148 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 314282008149 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314282008150 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 314282008151 dimer interface [polypeptide binding]; other site 314282008152 active site 314282008153 metal binding site [ion binding]; metal-binding site 314282008154 glutathione binding site [chemical binding]; other site 314282008155 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 314282008156 N-acetylmannosamine kinase; Provisional; Region: PRK05082 314282008157 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 314282008158 nucleotide binding site [chemical binding]; other site 314282008159 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 314282008160 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 314282008161 putative active site cavity [active] 314282008162 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 314282008163 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 314282008164 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 314282008165 putative active site [active] 314282008166 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 314282008167 Class I aldolases; Region: Aldolase_Class_I; cl17187 314282008168 catalytic residue [active] 314282008169 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 314282008170 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 314282008171 active site 314282008172 HIGH motif; other site 314282008173 dimer interface [polypeptide binding]; other site 314282008174 KMSKS motif; other site 314282008175 phosphoglycolate phosphatase; Provisional; Region: PRK13222 314282008176 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 314282008177 motif II; other site 314282008178 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 314282008179 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 314282008180 substrate binding site [chemical binding]; other site 314282008181 hexamer interface [polypeptide binding]; other site 314282008182 metal binding site [ion binding]; metal-binding site 314282008183 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 314282008184 AAA domain; Region: AAA_22; pfam13401 314282008185 cell division protein DamX; Validated; Region: PRK10905 314282008186 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 314282008187 active site 314282008188 dimer interface [polypeptide binding]; other site 314282008189 metal binding site [ion binding]; metal-binding site 314282008190 shikimate kinase; Reviewed; Region: aroK; PRK00131 314282008191 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 314282008192 ADP binding site [chemical binding]; other site 314282008193 magnesium binding site [ion binding]; other site 314282008194 putative shikimate binding site; other site 314282008195 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 314282008196 Secretin and TonB N terminus short domain; Region: STN; smart00965 314282008197 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314282008198 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 314282008199 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 314282008200 Pilus assembly protein, PilP; Region: PilP; pfam04351 314282008201 Pilus assembly protein, PilO; Region: PilO; pfam04350 314282008202 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 314282008203 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 314282008204 Competence protein A; Region: Competence_A; pfam11104 314282008205 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 314282008206 Transglycosylase; Region: Transgly; pfam00912 314282008207 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 314282008208 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; cl17915 314282008209 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 314282008210 motif II; other site 314282008211 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 314282008212 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 314282008213 dimer interface [polypeptide binding]; other site 314282008214 ADP-ribose binding site [chemical binding]; other site 314282008215 active site 314282008216 nudix motif; other site 314282008217 metal binding site [ion binding]; metal-binding site 314282008218 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 314282008219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314282008220 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314282008221 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314282008222 Protein of unknown function (DUF1422); Region: DUF1422; cl11649 314282008223 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 314282008224 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 314282008225 MOSC domain; Region: MOSC; pfam03473 314282008226 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 314282008227 catalytic loop [active] 314282008228 iron binding site [ion binding]; other site 314282008229 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 314282008230 dihydrodipicolinate reductase; Provisional; Region: PRK00048 314282008231 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 314282008232 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 314282008233 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 314282008234 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 314282008235 nucleotide binding site/active site [active] 314282008236 HIT family signature motif; other site 314282008237 catalytic residue [active] 314282008238 HDOD domain; Region: HDOD; pfam08668 314282008239 hypothetical protein; Provisional; Region: PRK11820 314282008240 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 314282008241 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 314282008242 Protein with unknown function (DUF469); Region: DUF469; pfam04320 314282008243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314282008244 active site 314282008245 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 314282008246 FAD dependent oxidoreductase; Region: DAO; pfam01266 314282008247 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314282008248 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 314282008249 active site 314282008250 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 314282008251 Ligand binding site; other site 314282008252 Putative Catalytic site; other site 314282008253 DXD motif; other site 314282008254 Protein with unknown function (DUF469); Region: DUF469; pfam04320 314282008255 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314282008256 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314282008257 dimer interface [polypeptide binding]; other site 314282008258 putative CheW interface [polypeptide binding]; other site 314282008259 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 314282008260 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 314282008261 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 314282008262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314282008263 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 314282008264 dimerization interface [polypeptide binding]; other site 314282008265 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 314282008266 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 314282008267 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 314282008268 shikimate binding site; other site 314282008269 NAD(P) binding site [chemical binding]; other site 314282008270 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 314282008271 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 314282008272 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 314282008273 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 314282008274 serine/threonine protein kinase; Provisional; Region: PRK11768 314282008275 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 314282008276 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 314282008277 catalytic residues [active] 314282008278 hinge region; other site 314282008279 alpha helical domain; other site 314282008280 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 314282008281 pantothenate kinase; Provisional; Region: PRK05439 314282008282 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 314282008283 ATP-binding site [chemical binding]; other site 314282008284 CoA-binding site [chemical binding]; other site 314282008285 Mg2+-binding site [ion binding]; other site 314282008286 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 314282008287 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 314282008288 putative active site [active] 314282008289 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 314282008290 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 314282008291 glutamine binding [chemical binding]; other site 314282008292 catalytic triad [active] 314282008293 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 314282008294 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 314282008295 trmE is a tRNA modification GTPase; Region: trmE; cd04164 314282008296 G1 box; other site 314282008297 GTP/Mg2+ binding site [chemical binding]; other site 314282008298 Switch I region; other site 314282008299 G2 box; other site 314282008300 Switch II region; other site 314282008301 G3 box; other site 314282008302 G4 box; other site 314282008303 G5 box; other site 314282008304 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 314282008305 membrane protein insertase; Provisional; Region: PRK01318 314282008306 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 314282008307 Haemolytic domain; Region: Haemolytic; pfam01809 314282008308 ribonuclease P; Reviewed; Region: rnpA; PRK01732 314282008309 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399