-- dump date 20140619_140422 -- class Genbank::misc_feature -- table misc_feature_note -- id note 504728000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 504728000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 504728000003 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 504728000004 Walker A motif; other site 504728000005 ATP binding site [chemical binding]; other site 504728000006 Walker B motif; other site 504728000007 arginine finger; other site 504728000008 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 504728000009 DnaA box-binding interface [nucleotide binding]; other site 504728000010 DNA polymerase III subunit beta; Provisional; Region: PRK14945 504728000011 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 504728000012 putative DNA binding surface [nucleotide binding]; other site 504728000013 dimer interface [polypeptide binding]; other site 504728000014 beta-clamp/clamp loader binding surface; other site 504728000015 beta-clamp/translesion DNA polymerase binding surface; other site 504728000016 enolase; Provisional; Region: eno; PRK00077 504728000017 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 504728000018 dimer interface [polypeptide binding]; other site 504728000019 metal binding site [ion binding]; metal-binding site 504728000020 substrate binding pocket [chemical binding]; other site 504728000021 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 504728000022 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 504728000023 domain interfaces; other site 504728000024 active site 504728000025 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 504728000026 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 504728000027 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 504728000028 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 504728000029 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 504728000030 EamA-like transporter family; Region: EamA; pfam00892 504728000031 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 504728000032 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 504728000033 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 504728000034 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 504728000035 substrate binding pocket [chemical binding]; other site 504728000036 chain length determination region; other site 504728000037 substrate-Mg2+ binding site; other site 504728000038 catalytic residues [active] 504728000039 aspartate-rich region 1; other site 504728000040 active site lid residues [active] 504728000041 aspartate-rich region 2; other site 504728000042 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 504728000043 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 504728000044 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 504728000045 TPP-binding site; other site 504728000046 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 504728000047 PYR/PP interface [polypeptide binding]; other site 504728000048 dimer interface [polypeptide binding]; other site 504728000049 TPP binding site [chemical binding]; other site 504728000050 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504728000051 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728000052 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 504728000053 active site residue [active] 504728000054 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504728000055 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 504728000056 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 504728000057 catalytic residues [active] 504728000058 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 504728000059 active site residue [active] 504728000060 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504728000061 putative homotetramer interface [polypeptide binding]; other site 504728000062 putative homodimer interface [polypeptide binding]; other site 504728000063 putative allosteric switch controlling residues; other site 504728000064 putative metal binding site [ion binding]; other site 504728000065 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 504728000066 acetyl-lysine deacetylase; Provisional; Region: PRK04443 504728000067 M20 Peptidase acetylornithine deacetylase/acetyl-lysine deacetylase; Region: M20_ArgE_LysK; cd05653 504728000068 metal binding site [ion binding]; metal-binding site 504728000069 putative dimer interface [polypeptide binding]; other site 504728000070 Ferredoxin [Energy production and conversion]; Region: COG1146 504728000071 4Fe-4S binding domain; Region: Fer4; cl02805 504728000072 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728000073 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 504728000074 active site 504728000075 phosphorylation site [posttranslational modification] 504728000076 intermolecular recognition site; other site 504728000077 dimerization interface [polypeptide binding]; other site 504728000078 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 504728000079 DNA binding site [nucleotide binding] 504728000080 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 504728000081 dimerization interface [polypeptide binding]; other site 504728000082 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 504728000083 dimer interface [polypeptide binding]; other site 504728000084 phosphorylation site [posttranslational modification] 504728000085 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 504728000086 ATP binding site [chemical binding]; other site 504728000087 Mg2+ binding site [ion binding]; other site 504728000088 G-X-G motif; other site 504728000089 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728000090 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 504728000091 dimerization interface [polypeptide binding]; other site 504728000092 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 504728000093 dimer interface [polypeptide binding]; other site 504728000094 phosphorylation site [posttranslational modification] 504728000095 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 504728000096 ATP binding site [chemical binding]; other site 504728000097 Mg2+ binding site [ion binding]; other site 504728000098 G-X-G motif; other site 504728000099 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728000100 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 504728000101 active site 504728000102 phosphorylation site [posttranslational modification] 504728000103 intermolecular recognition site; other site 504728000104 dimerization interface [polypeptide binding]; other site 504728000105 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 504728000106 DNA binding site [nucleotide binding] 504728000107 Short C-terminal domain; Region: SHOCT; pfam09851 504728000108 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 504728000109 putative active site [active] 504728000110 potential frameshift: common BLAST hit: gi|283781240|ref|YP_003371995.1| ApbE family lipoprotein 504728000111 ApbE family; Region: ApbE; pfam02424 504728000112 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl17856 504728000113 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 504728000114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 504728000115 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 504728000116 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728000117 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 504728000118 dimer interface [polypeptide binding]; other site 504728000119 conserved gate region; other site 504728000120 putative PBP binding loops; other site 504728000121 ABC-ATPase subunit interface; other site 504728000122 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 504728000123 dimer interface [polypeptide binding]; other site 504728000124 conserved gate region; other site 504728000125 putative PBP binding loops; other site 504728000126 ABC-ATPase subunit interface; other site 504728000127 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728000128 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728000129 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 504728000130 AAA domain; Region: AAA_23; pfam13476 504728000131 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 504728000132 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728000133 putative substrate translocation pore; other site 504728000134 Macro domain, Unknown family 2. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_2; cd03330 504728000135 putative ADP-ribose binding site [chemical binding]; other site 504728000136 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 504728000137 putative active site [active] 504728000138 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 504728000139 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 504728000140 active site 504728000141 metal binding site [ion binding]; metal-binding site 504728000142 Chromate transporter; Region: Chromate_transp; pfam02417 504728000143 Chromate transporter; Region: Chromate_transp; pfam02417 504728000144 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 504728000145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728000146 Coenzyme A binding pocket [chemical binding]; other site 504728000147 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 504728000148 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728000149 Coenzyme A binding pocket [chemical binding]; other site 504728000150 putative acetyltransferase; Provisional; Region: PRK03624 504728000151 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728000152 Coenzyme A binding pocket [chemical binding]; other site 504728000153 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 504728000154 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 504728000155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728000156 Coenzyme A binding pocket [chemical binding]; other site 504728000157 potential frameshift: common BLAST hit: gi|226355206|ref|YP_002784946.1| putative diguanylate cyclase(GGDEF)/Metal dependent 504728000158 GAF domain; Region: GAF; cl17456 504728000159 GAF domain; Region: GAF_2; pfam13185 504728000160 GAF domain; Region: GAF_2; pfam13185 504728000161 GAF domain; Region: GAF_3; pfam13492 504728000162 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728000163 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728000164 Zn2+ binding site [ion binding]; other site 504728000165 Mg2+ binding site [ion binding]; other site 504728000166 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 504728000167 classical (c) SDRs; Region: SDR_c; cd05233 504728000168 NAD(P) binding site [chemical binding]; other site 504728000169 active site 504728000170 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 504728000171 ATP cone domain; Region: ATP-cone; pfam03477 504728000172 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 504728000173 Putative zinc ribbon domain; Region: DUF164; pfam02591 504728000174 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 504728000175 putative active site [active] 504728000176 nucleotide binding site [chemical binding]; other site 504728000177 nudix motif; other site 504728000178 putative metal binding site [ion binding]; other site 504728000179 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 504728000180 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 504728000181 classical (c) SDRs; Region: SDR_c; cd05233 504728000182 NAD(P) binding site [chemical binding]; other site 504728000183 active site 504728000184 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 504728000185 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 504728000186 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 504728000187 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 504728000188 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 504728000189 putative active site; other site 504728000190 catalytic triad [active] 504728000191 putative dimer interface [polypeptide binding]; other site 504728000192 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 504728000193 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 504728000194 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 504728000195 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 504728000196 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728000197 catalytic residue [active] 504728000198 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 504728000199 catalytic core [active] 504728000200 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 504728000201 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 504728000202 dimerization interface [polypeptide binding]; other site 504728000203 putative ATP binding site [chemical binding]; other site 504728000204 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 504728000205 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 504728000206 GatB domain; Region: GatB_Yqey; smart00845 504728000207 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504728000208 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 504728000209 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504728000210 catalytic residue [active] 504728000211 hypothetical protein; Provisional; Region: PHA03410; cl14695 504728000212 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 504728000213 Walker A motif; other site 504728000214 ATP binding site [chemical binding]; other site 504728000215 Walker B motif; other site 504728000216 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728000217 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 504728000218 active site 504728000219 metal binding site [ion binding]; metal-binding site 504728000220 Predicted membrane protein [Function unknown]; Region: COG5373 504728000221 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 504728000222 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 504728000223 ATP binding site [chemical binding]; other site 504728000224 putative Mg++ binding site [ion binding]; other site 504728000225 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 504728000226 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 504728000227 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 504728000228 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 504728000229 transmembrane helices; other site 504728000230 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 504728000231 Family of unknown function (DUF633); Region: DUF633; pfam04816 504728000232 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 504728000233 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728000234 PEGA domain; Region: PEGA; pfam08308 504728000235 PEGA domain; Region: PEGA; pfam08308 504728000236 Predicted periplasmic protein [General function prediction only]; Region: COG3895 504728000237 Predicted periplasmic protein [General function prediction only]; Region: COG3895 504728000238 e3 binding domain; Region: E3_binding; pfam02817 504728000239 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 504728000240 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 504728000241 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 504728000242 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 504728000243 RNA binding site [nucleotide binding]; other site 504728000244 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 504728000245 RNA binding site [nucleotide binding]; other site 504728000246 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 504728000247 RNA binding site [nucleotide binding]; other site 504728000248 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 504728000249 RNA binding site [nucleotide binding]; other site 504728000250 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 504728000251 RNA binding site [nucleotide binding]; other site 504728000252 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 504728000253 MoaE interaction surface [polypeptide binding]; other site 504728000254 MoeB interaction surface [polypeptide binding]; other site 504728000255 thiocarboxylated glycine; other site 504728000256 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 504728000257 MoaE homodimer interface [polypeptide binding]; other site 504728000258 MoaD interaction [polypeptide binding]; other site 504728000259 active site residues [active] 504728000260 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 504728000261 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 504728000262 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 504728000263 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 504728000264 Nitrogen regulatory protein P-II; Region: P-II; smart00938 504728000265 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 504728000266 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 504728000267 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 504728000268 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 504728000269 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 504728000270 Walker A motif; other site 504728000271 ATP binding site [chemical binding]; other site 504728000272 Walker B motif; other site 504728000273 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 504728000274 Ligand Binding Site [chemical binding]; other site 504728000275 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 504728000276 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 504728000277 SnoaL-like domain; Region: SnoaL_2; pfam12680 504728000278 SnoaL-like domain; Region: SnoaL_2; pfam12680 504728000279 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 504728000280 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 504728000281 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 504728000282 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 504728000283 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 504728000284 active site 504728000285 substrate binding site [chemical binding]; other site 504728000286 cosubstrate binding site; other site 504728000287 catalytic site [active] 504728000288 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 504728000289 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 504728000290 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 504728000291 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 504728000292 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 504728000293 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 504728000294 active site 504728000295 dimerization interface [polypeptide binding]; other site 504728000296 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 504728000297 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 504728000298 S-adenosylmethionine binding site [chemical binding]; other site 504728000299 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 504728000300 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 504728000301 G-X-X-G motif; other site 504728000302 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 504728000303 RxxxH motif; other site 504728000304 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 504728000305 Haemolytic domain; Region: Haemolytic; pfam01809 504728000306 Ribonuclease P; Region: Ribonuclease_P; pfam00825 504728000307 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 504728000308 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728000309 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728000310 Walker A/P-loop; other site 504728000311 ATP binding site [chemical binding]; other site 504728000312 Q-loop/lid; other site 504728000313 ABC transporter signature motif; other site 504728000314 Walker B; other site 504728000315 D-loop; other site 504728000316 H-loop/switch region; other site 504728000317 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 504728000318 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728000319 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 504728000320 acyl-activating enzyme (AAE) consensus motif; other site 504728000321 putative AMP binding site [chemical binding]; other site 504728000322 putative active site [active] 504728000323 putative CoA binding site [chemical binding]; other site 504728000324 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728000325 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 504728000326 TM-ABC transporter signature motif; other site 504728000327 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728000328 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 504728000329 TM-ABC transporter signature motif; other site 504728000330 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728000331 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504728000332 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728000333 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728000334 Walker A/P-loop; other site 504728000335 ATP binding site [chemical binding]; other site 504728000336 Q-loop/lid; other site 504728000337 ABC transporter signature motif; other site 504728000338 Walker B; other site 504728000339 D-loop; other site 504728000340 H-loop/switch region; other site 504728000341 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 504728000342 Protein of unknown function (DUF3197); Region: DUF3197; pfam11432 504728000343 MarR family; Region: MarR_2; pfam12802 504728000344 MarR family; Region: MarR_2; cl17246 504728000345 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 504728000346 putative substrate translocation pore; other site 504728000347 succinic semialdehyde dehydrogenase; Region: PLN02278 504728000348 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 504728000349 tetramerization interface [polypeptide binding]; other site 504728000350 NAD(P) binding site [chemical binding]; other site 504728000351 catalytic residues [active] 504728000352 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728000353 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728000354 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504728000355 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504728000356 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 504728000357 putative substrate binding pocket [chemical binding]; other site 504728000358 dimerization interface [polypeptide binding]; other site 504728000359 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728000360 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728000361 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728000362 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728000363 Walker A/P-loop; other site 504728000364 ATP binding site [chemical binding]; other site 504728000365 Q-loop/lid; other site 504728000366 ABC transporter signature motif; other site 504728000367 Walker B; other site 504728000368 D-loop; other site 504728000369 H-loop/switch region; other site 504728000370 TOBE domain; Region: TOBE_2; pfam08402 504728000371 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 504728000372 dimer interface [polypeptide binding]; other site 504728000373 conserved gate region; other site 504728000374 putative PBP binding loops; other site 504728000375 ABC-ATPase subunit interface; other site 504728000376 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728000377 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 504728000378 dimer interface [polypeptide binding]; other site 504728000379 conserved gate region; other site 504728000380 putative PBP binding loops; other site 504728000381 ABC-ATPase subunit interface; other site 504728000382 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 504728000383 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 504728000384 tetrameric interface [polypeptide binding]; other site 504728000385 NAD binding site [chemical binding]; other site 504728000386 catalytic residues [active] 504728000387 substrate binding site [chemical binding]; other site 504728000388 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 504728000389 HD domain; Region: HD_4; pfam13328 504728000390 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504728000391 aminotransferase; Validated; Region: PRK07046 504728000392 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 504728000393 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728000394 catalytic residue [active] 504728000395 putative acetyltransferase; Provisional; Region: PRK03624 504728000396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728000397 Coenzyme A binding pocket [chemical binding]; other site 504728000398 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 504728000399 binding surface 504728000400 TPR motif; other site 504728000401 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 504728000402 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 504728000403 active site 504728000404 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728000405 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_11; cd08516 504728000406 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504728000407 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 504728000408 putative PBP binding loops; other site 504728000409 dimer interface [polypeptide binding]; other site 504728000410 ABC-ATPase subunit interface; other site 504728000411 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728000412 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 504728000413 dimer interface [polypeptide binding]; other site 504728000414 conserved gate region; other site 504728000415 putative PBP binding loops; other site 504728000416 ABC-ATPase subunit interface; other site 504728000417 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 504728000418 CoenzymeA binding site [chemical binding]; other site 504728000419 subunit interaction site [polypeptide binding]; other site 504728000420 PHB binding site; other site 504728000421 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 504728000422 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728000423 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 504728000424 dimer interface [polypeptide binding]; other site 504728000425 conserved gate region; other site 504728000426 putative PBP binding loops; other site 504728000427 ABC-ATPase subunit interface; other site 504728000428 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 504728000429 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 504728000430 putative PBP binding loops; other site 504728000431 ABC-ATPase subunit interface; other site 504728000432 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728000433 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728000434 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 504728000435 putative DNA binding site [nucleotide binding]; other site 504728000436 dimerization interface [polypeptide binding]; other site 504728000437 putative Zn2+ binding site [ion binding]; other site 504728000438 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 504728000439 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 504728000440 nucleotide binding site [chemical binding]; other site 504728000441 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 504728000442 putative active site [active] 504728000443 dimerization interface [polypeptide binding]; other site 504728000444 putative tRNAtyr binding site [nucleotide binding]; other site 504728000445 EDD domain protein, DegV family; Region: DegV; TIGR00762 504728000446 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 504728000447 EDD domain protein, DegV family; Region: DegV; TIGR00762 504728000448 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 504728000449 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 504728000450 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 504728000451 ligand binding site [chemical binding]; other site 504728000452 NAD binding site [chemical binding]; other site 504728000453 dimerization interface [polypeptide binding]; other site 504728000454 catalytic site [active] 504728000455 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 504728000456 putative L-serine binding site [chemical binding]; other site 504728000457 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 504728000458 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728000459 catalytic residue [active] 504728000460 short chain dehydrogenase; Provisional; Region: PRK08267 504728000461 classical (c) SDRs; Region: SDR_c; cd05233 504728000462 NAD(P) binding site [chemical binding]; other site 504728000463 active site 504728000464 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 504728000465 UbiA prenyltransferase family; Region: UbiA; pfam01040 504728000466 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 504728000467 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 504728000468 active site residue [active] 504728000469 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 504728000470 active site residue [active] 504728000471 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 504728000472 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 504728000473 NADP binding site [chemical binding]; other site 504728000474 dimer interface [polypeptide binding]; other site 504728000475 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 504728000476 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 504728000477 putative acyl-acceptor binding pocket; other site 504728000478 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 504728000479 IHF dimer interface [polypeptide binding]; other site 504728000480 IHF - DNA interface [nucleotide binding]; other site 504728000481 NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles; Region: NADH_oxidase; cd03370 504728000482 dimer interface [polypeptide binding]; other site 504728000483 FMN binding site [chemical binding]; other site 504728000484 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 504728000485 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 504728000486 RNA binding surface [nucleotide binding]; other site 504728000487 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 504728000488 active site 504728000489 uracil binding [chemical binding]; other site 504728000490 Protein of unknown function (DUF497); Region: DUF497; cl01108 504728000491 Helix-turn-helix domain; Region: HTH_20; pfam12840 504728000492 H+ Antiporter protein; Region: 2A0121; TIGR00900 504728000493 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 504728000494 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 504728000495 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 504728000496 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 504728000497 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 504728000498 active site 504728000499 catalytic tetrad [active] 504728000500 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 504728000501 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 504728000502 NAD(P) binding site [chemical binding]; other site 504728000503 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 504728000504 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 504728000505 VanW like protein; Region: VanW; pfam04294 504728000506 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 504728000507 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 504728000508 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 504728000509 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 504728000510 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728000511 substrate binding site [chemical binding]; other site 504728000512 dimer interface [polypeptide binding]; other site 504728000513 ATP binding site [chemical binding]; other site 504728000514 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 504728000515 active site 504728000516 tetramer interface [polypeptide binding]; other site 504728000517 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 504728000518 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 504728000519 active site 504728000520 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504728000521 dimer interface [polypeptide binding]; other site 504728000522 substrate binding site [chemical binding]; other site 504728000523 catalytic residues [active] 504728000524 Protein of unknown function (DUF3208); Region: DUF3208; pfam11482 504728000525 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 504728000526 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 504728000527 MPT binding site; other site 504728000528 trimer interface [polypeptide binding]; other site 504728000529 MMPL family; Region: MMPL; pfam03176 504728000530 MMPL family; Region: MMPL; pfam03176 504728000531 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 504728000532 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 504728000533 FtsH Extracellular; Region: FtsH_ext; pfam06480 504728000534 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 504728000535 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 504728000536 Walker A motif; other site 504728000537 ATP binding site [chemical binding]; other site 504728000538 Walker B motif; other site 504728000539 arginine finger; other site 504728000540 Peptidase family M41; Region: Peptidase_M41; pfam01434 504728000541 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 504728000542 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 504728000543 nucleotide binding site [chemical binding]; other site 504728000544 NEF interaction site [polypeptide binding]; other site 504728000545 SBD interface [polypeptide binding]; other site 504728000546 GrpE; Region: GrpE; pfam01025 504728000547 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 504728000548 dimer interface [polypeptide binding]; other site 504728000549 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 504728000550 chaperone protein DnaJ; Provisional; Region: PRK14299 504728000551 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 504728000552 HSP70 interaction site [polypeptide binding]; other site 504728000553 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 504728000554 substrate binding site [polypeptide binding]; other site 504728000555 dimer interface [polypeptide binding]; other site 504728000556 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 504728000557 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 504728000558 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 504728000559 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 504728000560 CRISPR/Cas system-associated RAMP superfamily protein Csm3; Region: Csm3_III-A; cd09684 504728000561 CRISPR/Cas system-associated RAMP superfamily protein Csm4; Region: Csm4_III-A; cl17438 504728000562 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 504728000563 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 504728000564 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 504728000565 putative active site [active] 504728000566 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 504728000567 CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670 504728000568 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 504728000569 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 504728000570 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 504728000571 CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670 504728000572 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09747 504728000573 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 504728000574 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728000575 putative binding site residues; other site 504728000576 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504728000577 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 504728000578 ABC-ATPase subunit interface; other site 504728000579 dimer interface [polypeptide binding]; other site 504728000580 putative PBP binding regions; other site 504728000581 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504728000582 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504728000583 Walker A/P-loop; other site 504728000584 ATP binding site [chemical binding]; other site 504728000585 Q-loop/lid; other site 504728000586 ABC transporter signature motif; other site 504728000587 Walker B; other site 504728000588 D-loop; other site 504728000589 H-loop/switch region; other site 504728000590 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 504728000591 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728000592 intersubunit interface [polypeptide binding]; other site 504728000593 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 504728000594 catalytic core [active] 504728000595 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 504728000596 homotrimer interface [polypeptide binding]; other site 504728000597 Walker A motif; other site 504728000598 GTP binding site [chemical binding]; other site 504728000599 Walker B motif; other site 504728000600 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 504728000601 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 504728000602 putative dimer interface [polypeptide binding]; other site 504728000603 active site pocket [active] 504728000604 putative cataytic base [active] 504728000605 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 504728000606 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 504728000607 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 504728000608 Qi binding site; other site 504728000609 intrachain domain interface; other site 504728000610 interchain domain interface [polypeptide binding]; other site 504728000611 heme bH binding site [chemical binding]; other site 504728000612 heme bL binding site [chemical binding]; other site 504728000613 Qo binding site; other site 504728000614 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 504728000615 intrachain domain interface; other site 504728000616 Qo binding site; other site 504728000617 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 504728000618 iron-sulfur cluster [ion binding]; other site 504728000619 [2Fe-2S] cluster binding site [ion binding]; other site 504728000620 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 504728000621 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504728000622 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 504728000623 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 504728000624 Metal-binding active site; metal-binding site 504728000625 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 504728000626 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 504728000627 active site 504728000628 motif I; other site 504728000629 motif II; other site 504728000630 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 504728000631 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 504728000632 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 504728000633 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 504728000634 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 504728000635 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728000636 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728000637 Walker A/P-loop; other site 504728000638 ATP binding site [chemical binding]; other site 504728000639 Q-loop/lid; other site 504728000640 ABC transporter signature motif; other site 504728000641 Walker B; other site 504728000642 D-loop; other site 504728000643 H-loop/switch region; other site 504728000644 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728000645 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728000646 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 504728000647 dimer interface [polypeptide binding]; other site 504728000648 substrate binding site [chemical binding]; other site 504728000649 metal binding sites [ion binding]; metal-binding site 504728000650 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 504728000651 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 504728000652 FeS/SAM binding site; other site 504728000653 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 504728000654 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 504728000655 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 504728000656 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 504728000657 nucleophile elbow; other site 504728000658 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 504728000659 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 504728000660 quinone interaction residues [chemical binding]; other site 504728000661 active site 504728000662 catalytic residues [active] 504728000663 FMN binding site [chemical binding]; other site 504728000664 substrate binding site [chemical binding]; other site 504728000665 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728000666 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728000667 active site 504728000668 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 504728000669 S1_RPS1_repeat_hs4: 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_hs4; cd05692 504728000670 RNA binding site [nucleotide binding]; other site 504728000671 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 504728000672 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 504728000673 NAD binding site [chemical binding]; other site 504728000674 homotetramer interface [polypeptide binding]; other site 504728000675 homodimer interface [polypeptide binding]; other site 504728000676 substrate binding site [chemical binding]; other site 504728000677 active site 504728000678 DinB superfamily; Region: DinB_2; pfam12867 504728000679 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 504728000680 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 504728000681 generic binding surface I; other site 504728000682 generic binding surface II; other site 504728000683 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 504728000684 putative active site [active] 504728000685 putative catalytic site [active] 504728000686 putative Mg binding site IVb [ion binding]; other site 504728000687 putative phosphate binding site [ion binding]; other site 504728000688 putative DNA binding site [nucleotide binding]; other site 504728000689 putative Mg binding site IVa [ion binding]; other site 504728000690 Protein of unknown function (DUF2847); Region: DUF2847; cl17683 504728000691 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 504728000692 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 504728000693 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 504728000694 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728000695 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 504728000696 substrate binding site [chemical binding]; other site 504728000697 ATP binding site [chemical binding]; other site 504728000698 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 504728000699 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 504728000700 active site 504728000701 intersubunit interface [polypeptide binding]; other site 504728000702 catalytic residue [active] 504728000703 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 504728000704 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 504728000705 NADP binding site [chemical binding]; other site 504728000706 homodimer interface [polypeptide binding]; other site 504728000707 active site 504728000708 KduI/IolB family; Region: KduI; pfam04962 504728000709 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728000710 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728000711 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 504728000712 dimer interface [polypeptide binding]; other site 504728000713 conserved gate region; other site 504728000714 putative PBP binding loops; other site 504728000715 ABC-ATPase subunit interface; other site 504728000716 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728000717 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 504728000718 dimer interface [polypeptide binding]; other site 504728000719 conserved gate region; other site 504728000720 ABC-ATPase subunit interface; other site 504728000721 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728000722 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728000723 DNA binding site [nucleotide binding] 504728000724 domain linker motif; other site 504728000725 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504728000726 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728000727 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728000728 DNA binding site [nucleotide binding] 504728000729 domain linker motif; other site 504728000730 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_9; cd06290 504728000731 putative dimerization interface [polypeptide binding]; other site 504728000732 putative ligand binding site [chemical binding]; other site 504728000733 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728000734 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728000735 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728000736 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 504728000737 dimer interface [polypeptide binding]; other site 504728000738 conserved gate region; other site 504728000739 putative PBP binding loops; other site 504728000740 ABC-ATPase subunit interface; other site 504728000741 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728000742 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 504728000743 dimer interface [polypeptide binding]; other site 504728000744 conserved gate region; other site 504728000745 ABC-ATPase subunit interface; other site 504728000746 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 504728000747 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 504728000748 beta-galactosidase; Region: BGL; TIGR03356 504728000749 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 504728000750 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 504728000751 inhibitor binding site; inhibition site 504728000752 active site 504728000753 Cytochrome P450; Region: p450; cl12078 504728000754 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 504728000755 Protein of unknown function (DUF3105); Region: DUF3105; pfam11303 504728000756 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728000757 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504728000758 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728000759 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 504728000760 metal-binding site [ion binding] 504728000761 Thermus thermophilus CsoR, a Cu(I)-sensing transcriptional regulator, and related domains; this domain family was previously known as part of DUF156; Region: TthCsoR-like_DUF156; cd10151 504728000762 putative homodimer interface [polypeptide binding]; other site 504728000763 putative homotetramer interface [polypeptide binding]; other site 504728000764 allosteric switch controlling residues; other site 504728000765 putative metal binding site [ion binding]; other site 504728000766 putative homodimer-homodimer interface [polypeptide binding]; other site 504728000767 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504728000768 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 504728000769 metal-binding site [ion binding] 504728000770 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504728000771 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 504728000772 metal-binding site [ion binding] 504728000773 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504728000774 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 504728000775 motif II; other site 504728000776 Short C-terminal domain; Region: SHOCT; pfam09851 504728000777 Heavy-metal-associated domain; Region: HMA; pfam00403 504728000778 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504728000779 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504728000780 Soluble P-type ATPase [General function prediction only]; Region: COG4087 504728000781 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728000782 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 504728000783 active site 504728000784 phosphorylation site [posttranslational modification] 504728000785 intermolecular recognition site; other site 504728000786 dimerization interface [polypeptide binding]; other site 504728000787 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 504728000788 DNA binding site [nucleotide binding] 504728000789 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 504728000790 dimerization interface [polypeptide binding]; other site 504728000791 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 504728000792 dimer interface [polypeptide binding]; other site 504728000793 phosphorylation site [posttranslational modification] 504728000794 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 504728000795 ATP binding site [chemical binding]; other site 504728000796 Mg2+ binding site [ion binding]; other site 504728000797 G-X-G motif; other site 504728000798 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 504728000799 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504728000800 Multicopper oxidase; Region: Cu-oxidase; pfam00394 504728000801 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 504728000802 Domain of unknown function (DUF305); Region: DUF305; pfam03713 504728000803 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 504728000804 Low molecular weight phosphatase family; Region: LMWPc; cd00115 504728000805 active site 504728000806 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 504728000807 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 504728000808 active site 504728000809 catalytic site [active] 504728000810 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 504728000811 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 504728000812 trehalose synthase; Region: treS_nterm; TIGR02456 504728000813 active site 504728000814 catalytic site [active] 504728000815 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728000816 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728000817 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728000818 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 504728000819 active site 504728000820 phosphorylation site [posttranslational modification] 504728000821 intermolecular recognition site; other site 504728000822 dimerization interface [polypeptide binding]; other site 504728000823 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 504728000824 DNA binding site [nucleotide binding] 504728000825 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728000826 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 504728000827 dimer interface [polypeptide binding]; other site 504728000828 phosphorylation site [posttranslational modification] 504728000829 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 504728000830 ATP binding site [chemical binding]; other site 504728000831 Mg2+ binding site [ion binding]; other site 504728000832 G-X-G motif; other site 504728000833 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 504728000834 putative active site [active] 504728000835 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 504728000836 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 504728000837 choline dehydrogenase; Validated; Region: PRK02106 504728000838 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728000839 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 504728000840 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 504728000841 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 504728000842 G1 box; other site 504728000843 putative GEF interaction site [polypeptide binding]; other site 504728000844 GTP/Mg2+ binding site [chemical binding]; other site 504728000845 Switch I region; other site 504728000846 G2 box; other site 504728000847 G3 box; other site 504728000848 Switch II region; other site 504728000849 G4 box; other site 504728000850 G5 box; other site 504728000851 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 504728000852 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 504728000853 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 504728000854 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 504728000855 Metal-binding active site; metal-binding site 504728000856 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728000857 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 504728000858 ABC-ATPase subunit interface; other site 504728000859 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728000860 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 504728000861 dimer interface [polypeptide binding]; other site 504728000862 conserved gate region; other site 504728000863 putative PBP binding loops; other site 504728000864 ABC-ATPase subunit interface; other site 504728000865 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728000866 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728000867 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 504728000868 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 504728000869 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 504728000870 putative active site [active] 504728000871 putative substrate binding site [chemical binding]; other site 504728000872 putative cosubstrate binding site; other site 504728000873 catalytic site [active] 504728000874 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 504728000875 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 504728000876 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 504728000877 protein binding site [polypeptide binding]; other site 504728000878 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 504728000879 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 504728000880 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 504728000881 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 504728000882 GDP-binding site [chemical binding]; other site 504728000883 ACT binding site; other site 504728000884 IMP binding site; other site 504728000885 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 504728000886 putative deacylase active site [active] 504728000887 glutamate carboxypeptidase; Reviewed; Region: PRK06133 504728000888 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 504728000889 metal binding site [ion binding]; metal-binding site 504728000890 dimer interface [polypeptide binding]; other site 504728000891 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 504728000892 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 504728000893 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 504728000894 active site 504728000895 HIGH motif; other site 504728000896 KMSK motif region; other site 504728000897 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 504728000898 tRNA binding surface [nucleotide binding]; other site 504728000899 anticodon binding site; other site 504728000900 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 504728000901 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 504728000902 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 504728000903 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 504728000904 catalytic residues [active] 504728000905 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK14811 504728000906 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 504728000907 DNA binding site [nucleotide binding] 504728000908 catalytic residue [active] 504728000909 H2TH interface [polypeptide binding]; other site 504728000910 putative catalytic residues [active] 504728000911 turnover-facilitating residue; other site 504728000912 intercalation triad [nucleotide binding]; other site 504728000913 8OG recognition residue [nucleotide binding]; other site 504728000914 putative reading head residues; other site 504728000915 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 504728000916 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 504728000917 Predicted transcriptional regulator [Transcription]; Region: COG2378 504728000918 HTH domain; Region: HTH_11; pfam08279 504728000919 WYL domain; Region: WYL; pfam13280 504728000920 short chain dehydrogenase; Provisional; Region: PRK08303 504728000921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728000922 NAD(P) binding site [chemical binding]; other site 504728000923 active site 504728000924 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 504728000925 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 504728000926 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 504728000927 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 504728000928 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_C39B; cd02418 504728000929 putative active site [active] 504728000930 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504728000931 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 504728000932 Walker A/P-loop; other site 504728000933 ATP binding site [chemical binding]; other site 504728000934 Q-loop/lid; other site 504728000935 ABC transporter signature motif; other site 504728000936 Walker B; other site 504728000937 D-loop; other site 504728000938 H-loop/switch region; other site 504728000939 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504728000940 HlyD family secretion protein; Region: HlyD_3; pfam13437 504728000941 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728000942 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 504728000943 DNA binding residues [nucleotide binding] 504728000944 dimerization interface [polypeptide binding]; other site 504728000945 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 504728000946 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 504728000947 glycogen synthase; Provisional; Region: glgA; PRK00654 504728000948 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 504728000949 ADP-binding pocket [chemical binding]; other site 504728000950 homodimer interface [polypeptide binding]; other site 504728000951 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 504728000952 putative active site pocket [active] 504728000953 dimerization interface [polypeptide binding]; other site 504728000954 putative catalytic residue [active] 504728000955 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 504728000956 NADPH bind site [chemical binding]; other site 504728000957 putative FMN binding site [chemical binding]; other site 504728000958 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 504728000959 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 504728000960 ligand binding site; other site 504728000961 oligomer interface; other site 504728000962 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 504728000963 dimer interface [polypeptide binding]; other site 504728000964 N-terminal domain interface [polypeptide binding]; other site 504728000965 sulfate 1 binding site; other site 504728000966 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 504728000967 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 504728000968 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 504728000969 Domain interface; other site 504728000970 Active site tetrad [active] 504728000971 Peptide binding site; other site 504728000972 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 504728000973 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 504728000974 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 504728000975 active site 504728000976 dimer interface [polypeptide binding]; other site 504728000977 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 504728000978 Ligand Binding Site [chemical binding]; other site 504728000979 Molecular Tunnel; other site 504728000980 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504728000981 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 504728000982 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 504728000983 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 504728000984 active site 504728000985 dimer interface [polypeptide binding]; other site 504728000986 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 504728000987 Ligand Binding Site [chemical binding]; other site 504728000988 Molecular Tunnel; other site 504728000989 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 504728000990 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 504728000991 inhibitor-cofactor binding pocket; inhibition site 504728000992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728000993 catalytic residue [active] 504728000994 putative trimer interface [polypeptide binding]; other site 504728000995 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 504728000996 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 504728000997 putative CoA binding site [chemical binding]; other site 504728000998 putative trimer interface [polypeptide binding]; other site 504728000999 putative active site [active] 504728001000 putative substrate binding site [chemical binding]; other site 504728001001 putative CoA binding site [chemical binding]; other site 504728001002 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728001003 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728001004 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728001005 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 504728001006 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 504728001007 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 504728001008 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 504728001009 putative glycosyl transferase; Provisional; Region: PRK10307 504728001010 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 504728001011 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 504728001012 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 504728001013 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 504728001014 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504728001015 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 504728001016 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 504728001017 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 504728001018 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 504728001019 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 504728001020 inhibitor-cofactor binding pocket; inhibition site 504728001021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728001022 catalytic residue [active] 504728001023 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 504728001024 extended (e) SDRs; Region: SDR_e; cd08946 504728001025 NAD(P) binding site [chemical binding]; other site 504728001026 active site 504728001027 substrate binding site [chemical binding]; other site 504728001028 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 504728001029 Interdomain contacts; other site 504728001030 Cytokine receptor motif; other site 504728001031 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 504728001032 Interdomain contacts; other site 504728001033 Cytokine receptor motif; other site 504728001034 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 504728001035 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 504728001036 Galactose oxidase, central domain; Region: Kelch_3; cl02701 504728001037 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 504728001038 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 504728001039 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 504728001040 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 504728001041 Mg++ binding site [ion binding]; other site 504728001042 putative catalytic motif [active] 504728001043 substrate binding site [chemical binding]; other site 504728001044 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 504728001045 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 504728001046 putative NAD(P) binding site [chemical binding]; other site 504728001047 active site 504728001048 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 504728001049 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 504728001050 ligand binding site [chemical binding]; other site 504728001051 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 504728001052 putative switch regulator; other site 504728001053 non-specific DNA interactions [nucleotide binding]; other site 504728001054 DNA binding site [nucleotide binding] 504728001055 sequence specific DNA binding site [nucleotide binding]; other site 504728001056 putative cAMP binding site [chemical binding]; other site 504728001057 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 504728001058 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 504728001059 DNA binding residues [nucleotide binding] 504728001060 B12 binding domain; Region: B12-binding_2; pfam02607 504728001061 B12 binding domain; Region: B12-binding; pfam02310 504728001062 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 504728001063 S-adenosylmethionine binding site [chemical binding]; other site 504728001064 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 504728001065 active site lid residues [active] 504728001066 substrate binding pocket [chemical binding]; other site 504728001067 catalytic residues [active] 504728001068 substrate-Mg2+ binding site; other site 504728001069 aspartate-rich region 1; other site 504728001070 aspartate-rich region 2; other site 504728001071 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 504728001072 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 504728001073 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 504728001074 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728001075 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 504728001076 lycopene cyclase; Region: lycopene_cycl; TIGR01789 504728001077 Protein of unknown function (DUF422); Region: DUF422; pfam04240 504728001078 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 504728001079 putative acyl-acceptor binding pocket; other site 504728001080 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 504728001081 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 504728001082 active site 504728001083 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 504728001084 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 504728001085 Cytochrome P450; Region: p450; cl12078 504728001086 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504728001087 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728001088 Coenzyme A binding pocket [chemical binding]; other site 504728001089 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 504728001090 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 504728001091 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 504728001092 NAD(P) binding site [chemical binding]; other site 504728001093 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 504728001094 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 504728001095 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 504728001096 NAD(P) binding site [chemical binding]; other site 504728001097 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 504728001098 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 504728001099 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 504728001100 substrate binding pocket [chemical binding]; other site 504728001101 chain length determination region; other site 504728001102 substrate-Mg2+ binding site; other site 504728001103 catalytic residues [active] 504728001104 aspartate-rich region 1; other site 504728001105 active site lid residues [active] 504728001106 aspartate-rich region 2; other site 504728001107 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 504728001108 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 504728001109 CoA binding domain; Region: CoA_binding; smart00881 504728001110 Sporulation related domain; Region: SPOR; pfam05036 504728001111 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 504728001112 TPR motif; other site 504728001113 binding surface 504728001114 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 504728001115 TPR motif; other site 504728001116 binding surface 504728001117 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 504728001118 TPR motif; other site 504728001119 binding surface 504728001120 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 504728001121 binding surface 504728001122 TPR motif; other site 504728001123 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 504728001124 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 504728001125 homotetramer interface [polypeptide binding]; other site 504728001126 FMN binding site [chemical binding]; other site 504728001127 homodimer contacts [polypeptide binding]; other site 504728001128 putative active site [active] 504728001129 putative substrate binding site [chemical binding]; other site 504728001130 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 504728001131 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_7; cd12166 504728001132 putative ligand binding site [chemical binding]; other site 504728001133 putative NAD binding site [chemical binding]; other site 504728001134 catalytic site [active] 504728001135 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 504728001136 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 504728001137 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 504728001138 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 504728001139 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 504728001140 P loop; other site 504728001141 GTP binding site [chemical binding]; other site 504728001142 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 504728001143 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 504728001144 hypothetical protein; Validated; Region: PRK00068 504728001145 PUA domain; Region: PUA; cl00607 504728001146 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 504728001147 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 504728001148 putative RNA binding site [nucleotide binding]; other site 504728001149 Protein of unknown function (DUF525); Region: DUF525; cl01119 504728001150 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 504728001151 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728001152 Walker A/P-loop; other site 504728001153 ATP binding site [chemical binding]; other site 504728001154 Q-loop/lid; other site 504728001155 ABC transporter signature motif; other site 504728001156 Walker B; other site 504728001157 D-loop; other site 504728001158 H-loop/switch region; other site 504728001159 C-terminal peptidase (prc); Region: prc; TIGR00225 504728001160 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 504728001161 protein binding site [polypeptide binding]; other site 504728001162 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 504728001163 Catalytic dyad [active] 504728001164 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 504728001165 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728001166 Walker A/P-loop; other site 504728001167 ATP binding site [chemical binding]; other site 504728001168 Q-loop/lid; other site 504728001169 ABC transporter signature motif; other site 504728001170 Walker B; other site 504728001171 D-loop; other site 504728001172 H-loop/switch region; other site 504728001173 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 504728001174 30S subunit binding site; other site 504728001175 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 504728001176 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 504728001177 P-loop; other site 504728001178 Magnesium ion binding site [ion binding]; other site 504728001179 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 504728001180 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 504728001181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728001182 homodimer interface [polypeptide binding]; other site 504728001183 catalytic residue [active] 504728001184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728001185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728001186 metal binding site [ion binding]; metal-binding site 504728001187 active site 504728001188 I-site; other site 504728001189 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 504728001190 RNA/DNA hybrid binding site [nucleotide binding]; other site 504728001191 active site 504728001192 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728001193 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 504728001194 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 504728001195 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 504728001196 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 504728001197 DctM-like transporters; Region: DctM; pfam06808 504728001198 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 504728001199 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 504728001200 NADP binding site [chemical binding]; other site 504728001201 dimer interface [polypeptide binding]; other site 504728001202 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 504728001203 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 504728001204 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 504728001205 Amidohydrolase; Region: Amidohydro_4; pfam13147 504728001206 active site 504728001207 dimer interface [polypeptide binding]; other site 504728001208 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 504728001209 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 504728001210 dimer interface [polypeptide binding]; other site 504728001211 active site 504728001212 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 504728001213 dimer interface [polypeptide binding]; other site 504728001214 active site 504728001215 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 504728001216 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 504728001217 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504728001218 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 504728001219 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 504728001220 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 504728001221 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 504728001222 ligand binding site [chemical binding]; other site 504728001223 flexible hinge region; other site 504728001224 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 504728001225 putative switch regulator; other site 504728001226 non-specific DNA interactions [nucleotide binding]; other site 504728001227 DNA binding site [nucleotide binding] 504728001228 sequence specific DNA binding site [nucleotide binding]; other site 504728001229 putative cAMP binding site [chemical binding]; other site 504728001230 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 504728001231 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 504728001232 oligomer interface [polypeptide binding]; other site 504728001233 metal binding site [ion binding]; metal-binding site 504728001234 metal binding site [ion binding]; metal-binding site 504728001235 putative Cl binding site [ion binding]; other site 504728001236 aspartate ring; other site 504728001237 basic sphincter; other site 504728001238 hydrophobic gate; other site 504728001239 periplasmic entrance; other site 504728001240 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 504728001241 ornithine cyclodeaminase; Validated; Region: PRK07340 504728001242 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 504728001243 MOSC domain; Region: MOSC; pfam03473 504728001244 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504728001245 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 504728001246 Cytochrome c; Region: Cytochrom_C; pfam00034 504728001247 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 504728001248 sulfite oxidase; Provisional; Region: PLN00177 504728001249 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 504728001250 Moco binding site; other site 504728001251 metal coordination site [ion binding]; other site 504728001252 dimerization interface [polypeptide binding]; other site 504728001253 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 504728001254 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 504728001255 ATP binding site [chemical binding]; other site 504728001256 Mg2+ binding site [ion binding]; other site 504728001257 G-X-G motif; other site 504728001258 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 504728001259 ATP binding site [chemical binding]; other site 504728001260 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 504728001261 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 504728001262 MutS domain I; Region: MutS_I; pfam01624 504728001263 MutS domain II; Region: MutS_II; pfam05188 504728001264 MutS domain III; Region: MutS_III; pfam05192 504728001265 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 504728001266 Walker A/P-loop; other site 504728001267 ATP binding site [chemical binding]; other site 504728001268 Q-loop/lid; other site 504728001269 ABC transporter signature motif; other site 504728001270 Walker B; other site 504728001271 D-loop; other site 504728001272 H-loop/switch region; other site 504728001273 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 504728001274 MPT binding site; other site 504728001275 trimer interface [polypeptide binding]; other site 504728001276 DNA gyrase subunit A; Validated; Region: PRK05560 504728001277 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 504728001278 CAP-like domain; other site 504728001279 active site 504728001280 primary dimer interface [polypeptide binding]; other site 504728001281 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001282 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001283 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001284 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001285 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001286 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001287 glycerol kinase; Provisional; Region: glpK; PRK00047 504728001288 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 504728001289 N- and C-terminal domain interface [polypeptide binding]; other site 504728001290 active site 504728001291 MgATP binding site [chemical binding]; other site 504728001292 catalytic site [active] 504728001293 metal binding site [ion binding]; metal-binding site 504728001294 glycerol binding site [chemical binding]; other site 504728001295 homotetramer interface [polypeptide binding]; other site 504728001296 homodimer interface [polypeptide binding]; other site 504728001297 FBP binding site [chemical binding]; other site 504728001298 protein IIAGlc interface [polypeptide binding]; other site 504728001299 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728001300 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 504728001301 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 504728001302 Mrr N-terminal domain; Region: Mrr_N; pfam14338 504728001303 Fic family protein [Function unknown]; Region: COG3177 504728001304 Fic/DOC family; Region: Fic; pfam02661 504728001305 Helix-turn-helix domain; Region: HTH_17; pfam12728 504728001306 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 504728001307 PLD-like domain; Region: PLDc_2; pfam13091 504728001308 putative homodimer interface [polypeptide binding]; other site 504728001309 putative active site [active] 504728001310 catalytic site [active] 504728001311 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728001312 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 504728001313 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 504728001314 nucleotide binding region [chemical binding]; other site 504728001315 ATP-binding site [chemical binding]; other site 504728001316 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728001317 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 504728001318 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728001319 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; cl00327 504728001320 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 504728001321 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 504728001322 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 504728001323 Flavoprotein; Region: Flavoprotein; pfam02441 504728001324 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 504728001325 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 504728001326 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 504728001327 substrate binding site; other site 504728001328 dimer interface; other site 504728001329 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14612 504728001330 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 504728001331 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 504728001332 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728001333 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 504728001334 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 504728001335 dimer interface [polypeptide binding]; other site 504728001336 conserved gate region; other site 504728001337 putative PBP binding loops; other site 504728001338 ABC-ATPase subunit interface; other site 504728001339 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 504728001340 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 504728001341 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728001342 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728001343 Walker A/P-loop; other site 504728001344 ATP binding site [chemical binding]; other site 504728001345 Q-loop/lid; other site 504728001346 ABC transporter signature motif; other site 504728001347 Walker B; other site 504728001348 D-loop; other site 504728001349 H-loop/switch region; other site 504728001350 Predicted membrane protein [Function unknown]; Region: COG1470 504728001351 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 504728001352 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 504728001353 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504728001354 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 504728001355 putative dimer interface [polypeptide binding]; other site 504728001356 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 504728001357 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728001358 putative substrate translocation pore; other site 504728001359 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 504728001360 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; pfam09988 504728001361 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728001362 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728001363 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 504728001364 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04135 504728001365 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 504728001366 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504728001367 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728001368 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 504728001369 Peptidase S8 family domain, uncharacterized subfamily 5; Region: Peptidases_S8_5; cd07489 504728001370 active site 504728001371 catalytic triad [active] 504728001372 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 504728001373 PA/protease or protease-like domain interface [polypeptide binding]; other site 504728001374 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728001375 catalytic residues [active] 504728001376 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 504728001377 prolyl-tRNA synthetase; Provisional; Region: PRK08661 504728001378 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_arch_euk; cd00778 504728001379 dimer interface [polypeptide binding]; other site 504728001380 motif 1; other site 504728001381 active site 504728001382 motif 2; other site 504728001383 motif 3; other site 504728001384 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 504728001385 anticodon binding site; other site 504728001386 zinc-binding site [ion binding]; other site 504728001387 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 504728001388 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 504728001389 minor groove reading motif; other site 504728001390 helix-hairpin-helix signature motif; other site 504728001391 substrate binding pocket [chemical binding]; other site 504728001392 active site 504728001393 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 504728001394 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 504728001395 active site 504728001396 Hemerythrin; Region: Hemerythrin; cd12107 504728001397 Fe binding site [ion binding]; other site 504728001398 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 504728001399 S-adenosylmethionine binding site [chemical binding]; other site 504728001400 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 504728001401 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 504728001402 dimer interface [polypeptide binding]; other site 504728001403 TPP-binding site [chemical binding]; other site 504728001404 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 504728001405 2-oxoglutarate dehydrogenase complex dihydrolipoamide succinyltransferase (E2 component); Region: sucB; TIGR01347 504728001406 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 504728001407 E3 interaction surface; other site 504728001408 lipoyl attachment site [posttranslational modification]; other site 504728001409 e3 binding domain; Region: E3_binding; pfam02817 504728001410 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 504728001411 cytidylate kinase; Provisional; Region: cmk; PRK00023 504728001412 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 504728001413 CMP-binding site; other site 504728001414 The sites determining sugar specificity; other site 504728001415 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 504728001416 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 504728001417 hinge; other site 504728001418 active site 504728001419 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 504728001420 DHH family; Region: DHH; pfam01368 504728001421 DHHA1 domain; Region: DHHA1; pfam02272 504728001422 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 504728001423 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 504728001424 homodimer interface [polypeptide binding]; other site 504728001425 substrate-cofactor binding pocket; other site 504728001426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728001427 catalytic residue [active] 504728001428 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 504728001429 FAD binding site [chemical binding]; other site 504728001430 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 504728001431 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 504728001432 NAD(P) binding site [chemical binding]; other site 504728001433 putative acetyltransferase; Provisional; Region: PRK03624 504728001434 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728001435 Coenzyme A binding pocket [chemical binding]; other site 504728001436 calcium/proton exchanger (cax); Region: cax; TIGR00378 504728001437 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728001438 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728001439 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728001440 Zn2+ binding site [ion binding]; other site 504728001441 Mg2+ binding site [ion binding]; other site 504728001442 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 504728001443 DNA binding residues [nucleotide binding] 504728001444 2-phosphoglycerate kinase; Provisional; Region: PRK12337 504728001445 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 504728001446 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 504728001447 active site 504728001448 catalytic tetrad [active] 504728001449 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 504728001450 ROK family; Region: ROK; pfam00480 504728001451 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 504728001452 non-specific DNA binding site [nucleotide binding]; other site 504728001453 salt bridge; other site 504728001454 sequence-specific DNA binding site [nucleotide binding]; other site 504728001455 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 504728001456 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504728001457 non-specific DNA binding site [nucleotide binding]; other site 504728001458 salt bridge; other site 504728001459 sequence-specific DNA binding site [nucleotide binding]; other site 504728001460 Toprim domain; Region: Toprim_3; pfam13362 504728001461 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 504728001462 AAA-like domain; Region: AAA_10; pfam12846 504728001463 Domain of unknown function DUF87; Region: DUF87; pfam01935 504728001464 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 504728001465 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 504728001466 PLD-like domain; Region: PLDc_2; pfam13091 504728001467 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728001468 Zn2+ binding site [ion binding]; other site 504728001469 Mg2+ binding site [ion binding]; other site 504728001470 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504728001471 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 504728001472 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504728001473 catalytic residue [active] 504728001474 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 504728001475 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 504728001476 Walker A motif; other site 504728001477 ATP binding site [chemical binding]; other site 504728001478 Walker B motif; other site 504728001479 S-layer homology domain; Region: SLH; pfam00395 504728001480 Protein of unknown function (DUF964); Region: DUF964; cl01483 504728001481 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728001482 metal ion-dependent adhesion site (MIDAS); other site 504728001483 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 504728001484 RES domain; Region: RES; cl02411 504728001485 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 504728001486 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 504728001487 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728001488 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 504728001489 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728001490 Walker A/P-loop; other site 504728001491 ATP binding site [chemical binding]; other site 504728001492 Q-loop/lid; other site 504728001493 ABC transporter signature motif; other site 504728001494 Walker B; other site 504728001495 D-loop; other site 504728001496 H-loop/switch region; other site 504728001497 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 504728001498 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 504728001499 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 504728001500 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 504728001501 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 504728001502 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 504728001503 active site 504728001504 catalytic tetrad [active] 504728001505 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728001506 active site 504728001507 NTP binding site [chemical binding]; other site 504728001508 metal binding triad [ion binding]; metal-binding site 504728001509 KNTase C-terminal domain; Region: KNTase_C; pfam07827 504728001510 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 504728001511 Cytochrome P450; Region: p450; cl12078 504728001512 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 504728001513 putative active site [active] 504728001514 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 504728001515 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 504728001516 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 504728001517 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 504728001518 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 504728001519 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 504728001520 Walker A motif; other site 504728001521 ATP binding site [chemical binding]; other site 504728001522 Uncharacterized conserved protein [Function unknown]; Region: COG4715 504728001523 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 504728001524 Restriction endonuclease [Defense mechanisms]; Region: COG3587 504728001525 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 504728001526 ATP binding site [chemical binding]; other site 504728001527 putative Mg++ binding site [ion binding]; other site 504728001528 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 504728001529 DNA methylase; Region: N6_N4_Mtase; cl17433 504728001530 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728001531 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728001532 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 504728001533 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 504728001534 FeS/SAM binding site; other site 504728001535 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 504728001536 active site 504728001537 catalytic residues [active] 504728001538 DNA binding site [nucleotide binding] 504728001539 Int/Topo IB signature motif; other site 504728001540 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 504728001541 putative DNA binding site [nucleotide binding]; other site 504728001542 putative Zn2+ binding site [ion binding]; other site 504728001543 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 504728001544 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 504728001545 Part of AAA domain; Region: AAA_19; pfam13245 504728001546 Family description; Region: UvrD_C_2; pfam13538 504728001547 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728001548 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 504728001549 ATP binding site [chemical binding]; other site 504728001550 putative Mg++ binding site [ion binding]; other site 504728001551 RNA polymerase I-specific transcription initiation factor Rrn7; Region: RRN7; pfam11781 504728001552 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 504728001553 ATP-binding site [chemical binding]; other site 504728001554 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 504728001555 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 504728001556 ATP binding site [chemical binding]; other site 504728001557 putative Mg++ binding site [ion binding]; other site 504728001558 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 504728001559 nucleotide binding region [chemical binding]; other site 504728001560 ATP-binding site [chemical binding]; other site 504728001561 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 504728001562 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 504728001563 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 504728001564 Staphylococcal nuclease homologues; Region: SNc; smart00318 504728001565 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 504728001566 Catalytic site; other site 504728001567 Excalibur calcium-binding domain; Region: Excalibur; smart00894 504728001568 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 504728001569 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 504728001570 putative active site [active] 504728001571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 504728001572 Protein of unknown function (DUF433); Region: DUF433; pfam04255 504728001573 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 504728001574 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 504728001575 Walker A/P-loop; other site 504728001576 ATP binding site [chemical binding]; other site 504728001577 Q-loop/lid; other site 504728001578 ABC transporter signature motif; other site 504728001579 Walker B; other site 504728001580 D-loop; other site 504728001581 H-loop/switch region; other site 504728001582 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 504728001583 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 504728001584 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 504728001585 dimer interface [polypeptide binding]; other site 504728001586 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 504728001587 active site 504728001588 Fe binding site [ion binding]; other site 504728001589 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 504728001590 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 504728001591 NAD(P) binding site [chemical binding]; other site 504728001592 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 504728001593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 504728001594 Transcriptional regulators [Transcription]; Region: FadR; COG2186 504728001595 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728001596 DNA-binding site [nucleotide binding]; DNA binding site 504728001597 FCD domain; Region: FCD; pfam07729 504728001598 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 504728001599 active site 504728001600 Ap6A binding site [chemical binding]; other site 504728001601 nudix motif; other site 504728001602 metal binding site [ion binding]; metal-binding site 504728001603 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 504728001604 active site 504728001605 putative substrate binding region [chemical binding]; other site 504728001606 FOG: CBS domain [General function prediction only]; Region: COG0517 504728001607 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 504728001608 Predicted methyltransferases [General function prediction only]; Region: COG0313 504728001609 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 504728001610 putative SAM binding site [chemical binding]; other site 504728001611 putative homodimer interface [polypeptide binding]; other site 504728001612 6-phosphofructokinase; Provisional; Region: PRK03202 504728001613 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 504728001614 active site 504728001615 ADP/pyrophosphate binding site [chemical binding]; other site 504728001616 dimerization interface [polypeptide binding]; other site 504728001617 allosteric effector site; other site 504728001618 fructose-1,6-bisphosphate binding site; other site 504728001619 methionine sulfoxide reductase A; Provisional; Region: PRK14054 504728001620 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 504728001621 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 504728001622 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 504728001623 RNA/DNA hybrid binding site [nucleotide binding]; other site 504728001624 active site 504728001625 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 504728001626 heterotetramer interface [polypeptide binding]; other site 504728001627 active site pocket [active] 504728001628 cleavage site 504728001629 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 504728001630 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 504728001631 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 504728001632 ABC-ATPase subunit interface; other site 504728001633 dimer interface [polypeptide binding]; other site 504728001634 putative PBP binding regions; other site 504728001635 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 504728001636 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 504728001637 ABC-ATPase subunit interface; other site 504728001638 dimer interface [polypeptide binding]; other site 504728001639 putative PBP binding regions; other site 504728001640 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 504728001641 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 504728001642 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 504728001643 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 504728001644 intersubunit interface [polypeptide binding]; other site 504728001645 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 504728001646 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 504728001647 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 504728001648 FeoA domain; Region: FeoA; pfam04023 504728001649 Minimal MMP-like domain found in Thermus thermophilus TTHA0227, Acidothermus cellulolyticus ACEL2062 and similar proteins; Region: MMP_TTHA0227_like; cl01577 504728001650 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 504728001651 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 504728001652 substrate binding site; other site 504728001653 metal-binding site 504728001654 Oligomer interface; other site 504728001655 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 504728001656 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728001657 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728001658 DNA binding site [nucleotide binding] 504728001659 domain linker motif; other site 504728001660 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 504728001661 dimerization interface [polypeptide binding]; other site 504728001662 ligand binding site [chemical binding]; other site 504728001663 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728001664 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 504728001665 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 504728001666 putative PBP binding loops; other site 504728001667 ABC-ATPase subunit interface; other site 504728001668 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728001669 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 504728001670 dimer interface [polypeptide binding]; other site 504728001671 conserved gate region; other site 504728001672 putative PBP binding loops; other site 504728001673 ABC-ATPase subunit interface; other site 504728001674 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 504728001675 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 504728001676 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 504728001677 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 504728001678 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 504728001679 active site 504728001680 NTP binding site [chemical binding]; other site 504728001681 metal binding triad [ion binding]; metal-binding site 504728001682 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 504728001683 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 504728001684 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504728001685 TAP-like protein; Region: Abhydrolase_4; pfam08386 504728001686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 504728001687 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728001688 PEGA domain; Region: PEGA; pfam08308 504728001689 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 504728001690 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 504728001691 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504728001692 potassium/proton antiporter; Reviewed; Region: PRK05326 504728001693 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 504728001694 Domain of unknown function (DUF814); Region: DUF814; pfam05670 504728001695 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728001696 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 504728001697 dimerization interface [polypeptide binding]; other site 504728001698 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 504728001699 dimer interface [polypeptide binding]; other site 504728001700 phosphorylation site [posttranslational modification] 504728001701 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 504728001702 ATP binding site [chemical binding]; other site 504728001703 Mg2+ binding site [ion binding]; other site 504728001704 G-X-G motif; other site 504728001705 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728001706 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 504728001707 active site 504728001708 phosphorylation site [posttranslational modification] 504728001709 intermolecular recognition site; other site 504728001710 dimerization interface [polypeptide binding]; other site 504728001711 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 504728001712 DNA binding site [nucleotide binding] 504728001713 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 504728001714 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 504728001715 S-adenosylmethionine binding site [chemical binding]; other site 504728001716 Type II transport protein GspH; Region: GspH; pfam12019 504728001717 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 504728001718 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 504728001719 PilX N-terminal; Region: PilX_N; pfam14341 504728001720 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728001721 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 504728001722 ATP binding site [chemical binding]; other site 504728001723 G-X-G motif; other site 504728001724 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728001725 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 504728001726 active site 504728001727 phosphorylation site [posttranslational modification] 504728001728 intermolecular recognition site; other site 504728001729 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 504728001730 DNA binding residues [nucleotide binding] 504728001731 dimerization interface [polypeptide binding]; other site 504728001732 PilX N-terminal; Region: PilX_N; pfam14341 504728001733 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 504728001734 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 504728001735 GTP-binding protein LepA; Provisional; Region: PRK05433 504728001736 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 504728001737 G1 box; other site 504728001738 putative GEF interaction site [polypeptide binding]; other site 504728001739 GTP/Mg2+ binding site [chemical binding]; other site 504728001740 Switch I region; other site 504728001741 G2 box; other site 504728001742 G3 box; other site 504728001743 Switch II region; other site 504728001744 G4 box; other site 504728001745 G5 box; other site 504728001746 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 504728001747 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 504728001748 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 504728001749 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 504728001750 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 504728001751 substrate binding pocket [chemical binding]; other site 504728001752 membrane-bound complex binding site; other site 504728001753 hinge residues; other site 504728001754 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 504728001755 DNA-binding site [nucleotide binding]; DNA binding site 504728001756 RNA-binding motif; other site 504728001757 acyl carrier protein; Provisional; Region: acpP; PRK00982 504728001758 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 504728001759 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 504728001760 NAD(P) binding site [chemical binding]; other site 504728001761 homotetramer interface [polypeptide binding]; other site 504728001762 homodimer interface [polypeptide binding]; other site 504728001763 active site 504728001764 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 504728001765 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 504728001766 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 504728001767 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 504728001768 dimer interface [polypeptide binding]; other site 504728001769 active site 504728001770 CoA binding pocket [chemical binding]; other site 504728001771 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 504728001772 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 504728001773 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 504728001774 TPR motif; other site 504728001775 Tetratricopeptide repeat; Region: TPR_16; pfam13432 504728001776 binding surface 504728001777 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 504728001778 binding surface 504728001779 TPR motif; other site 504728001780 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 504728001781 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 504728001782 TPR motif; other site 504728001783 binding surface 504728001784 Uncharacterized conserved protein [Function unknown]; Region: COG1432 504728001785 LabA_like proteins; Region: LabA; cd10911 504728001786 putative metal binding site [ion binding]; other site 504728001787 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 504728001788 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 504728001789 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 504728001790 serine O-acetyltransferase; Region: cysE; TIGR01172 504728001791 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 504728001792 trimer interface [polypeptide binding]; other site 504728001793 active site 504728001794 substrate binding site [chemical binding]; other site 504728001795 CoA binding site [chemical binding]; other site 504728001796 hypothetical protein; Validated; Region: PRK00110 504728001797 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 504728001798 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 504728001799 dimer interface [polypeptide binding]; other site 504728001800 active site 504728001801 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 504728001802 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 504728001803 protein binding site [polypeptide binding]; other site 504728001804 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 504728001805 Active site serine [active] 504728001806 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 504728001807 C-terminal peptidase (prc); Region: prc; TIGR00225 504728001808 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 504728001809 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 504728001810 Active site serine [active] 504728001811 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504728001812 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728001813 Coenzyme A binding pocket [chemical binding]; other site 504728001814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728001815 NAD(P) binding site [chemical binding]; other site 504728001816 active site 504728001817 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728001818 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 504728001819 Walker A/P-loop; other site 504728001820 ATP binding site [chemical binding]; other site 504728001821 Q-loop/lid; other site 504728001822 ABC transporter signature motif; other site 504728001823 Walker B; other site 504728001824 D-loop; other site 504728001825 H-loop/switch region; other site 504728001826 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 504728001827 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 504728001828 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728001829 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728001830 Walker A/P-loop; other site 504728001831 ATP binding site [chemical binding]; other site 504728001832 Q-loop/lid; other site 504728001833 ABC transporter signature motif; other site 504728001834 Walker B; other site 504728001835 D-loop; other site 504728001836 H-loop/switch region; other site 504728001837 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 504728001838 Thiamine pyrophosphokinase; Region: TPK; cd07995 504728001839 active site 504728001840 dimerization interface [polypeptide binding]; other site 504728001841 thiamine binding site [chemical binding]; other site 504728001842 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 504728001843 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 504728001844 PA/protease or protease-like domain interface [polypeptide binding]; other site 504728001845 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 504728001846 Peptidase family M28; Region: Peptidase_M28; pfam04389 504728001847 metal binding site [ion binding]; metal-binding site 504728001848 serine racemase; Region: PLN02970 504728001849 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 504728001850 tetramer interface [polypeptide binding]; other site 504728001851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728001852 catalytic residue [active] 504728001853 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 504728001854 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 504728001855 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 504728001856 FeS/SAM binding site; other site 504728001857 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 504728001858 nucleotide binding site/active site [active] 504728001859 HIT family signature motif; other site 504728001860 catalytic residue [active] 504728001861 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728001862 active site 504728001863 metal binding site [ion binding]; metal-binding site 504728001864 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728001865 Bifunctional nuclease; Region: DNase-RNase; pfam02577 504728001866 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728001867 active site 504728001868 adenine phosphoribosyltransferase; Provisional; Region: PRK07322 504728001869 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504728001870 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728001871 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 504728001872 CoenzymeA binding site [chemical binding]; other site 504728001873 subunit interaction site [polypeptide binding]; other site 504728001874 PHB binding site; other site 504728001875 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 504728001876 Stage II sporulation protein; Region: SpoIID; pfam08486 504728001877 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 504728001878 Recombination protein O N terminal; Region: RecO_N; pfam11967 504728001879 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 504728001880 N- and C-terminal domain interface [polypeptide binding]; other site 504728001881 active site 504728001882 MgATP binding site [chemical binding]; other site 504728001883 catalytic site [active] 504728001884 metal binding site [ion binding]; metal-binding site 504728001885 xylulose binding site [chemical binding]; other site 504728001886 homodimer interface [polypeptide binding]; other site 504728001887 xylose isomerase, Arthrobacter type; Region: xylA_Arthro; TIGR02631 504728001888 xylose isomerase; Provisional; Region: PRK12677 504728001889 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 504728001890 putative DNA binding site [nucleotide binding]; other site 504728001891 putative Zn2+ binding site [ion binding]; other site 504728001892 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 504728001893 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728001894 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728001895 Domain of unknown function (DUF305); Region: DUF305; pfam03713 504728001896 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 504728001897 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 504728001898 UbiA prenyltransferase family; Region: UbiA; pfam01040 504728001899 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 504728001900 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 504728001901 Cytochrome c; Region: Cytochrom_C; pfam00034 504728001902 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 504728001903 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 504728001904 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 504728001905 Subunit I/III interface [polypeptide binding]; other site 504728001906 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728001907 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504728001908 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728001909 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 504728001910 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 504728001911 [2Fe-2S] cluster binding site [ion binding]; other site 504728001912 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 504728001913 hydrophobic ligand binding site; other site 504728001914 Carboxylesterase family; Region: COesterase; pfam00135 504728001915 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 504728001916 substrate binding pocket [chemical binding]; other site 504728001917 catalytic triad [active] 504728001918 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504728001919 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504728001920 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728001921 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 504728001922 metal binding site 2 [ion binding]; metal-binding site 504728001923 putative DNA binding helix; other site 504728001924 metal binding site 1 [ion binding]; metal-binding site 504728001925 dimer interface [polypeptide binding]; other site 504728001926 structural Zn2+ binding site [ion binding]; other site 504728001927 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 504728001928 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 504728001929 domain interfaces; other site 504728001930 active site 504728001931 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 504728001932 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 504728001933 hypothetical protein; Reviewed; Region: PRK12497 504728001934 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 504728001935 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 504728001936 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 504728001937 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 504728001938 S-adenosylmethionine binding site [chemical binding]; other site 504728001939 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728001940 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 504728001941 substrate binding site [chemical binding]; other site 504728001942 ATP binding site [chemical binding]; other site 504728001943 recombination factor protein RarA; Reviewed; Region: PRK13342 504728001944 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 504728001945 Walker A motif; other site 504728001946 ATP binding site [chemical binding]; other site 504728001947 Walker B motif; other site 504728001948 arginine finger; other site 504728001949 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 504728001950 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728001951 I-site; other site 504728001952 active site 504728001953 metal binding site [ion binding]; metal-binding site 504728001954 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 504728001955 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728001956 catalytic residue [active] 504728001957 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 504728001958 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 504728001959 HSP70 interaction site [polypeptide binding]; other site 504728001960 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 504728001961 Zn binding sites [ion binding]; other site 504728001962 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 504728001963 dimer interface [polypeptide binding]; other site 504728001964 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 504728001965 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 504728001966 tetrameric interface [polypeptide binding]; other site 504728001967 NAD binding site [chemical binding]; other site 504728001968 catalytic residues [active] 504728001969 YcfA-like protein; Region: YcfA; pfam07927 504728001970 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 504728001971 hypothetical protein; Provisional; Region: PRK12705 504728001972 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 504728001973 recombinase A; Provisional; Region: recA; PRK09354 504728001974 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 504728001975 hexamer interface [polypeptide binding]; other site 504728001976 Walker A motif; other site 504728001977 ATP binding site [chemical binding]; other site 504728001978 Walker B motif; other site 504728001979 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 504728001980 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 504728001981 competence damage-inducible protein A; Provisional; Region: PRK00549 504728001982 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 504728001983 putative MPT binding site; other site 504728001984 Competence-damaged protein; Region: CinA; pfam02464 504728001985 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 504728001986 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 504728001987 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 504728001988 conserved repeat domain; Region: B_ant_repeat; TIGR01451 504728001989 Eukaryotic porin family that forms channels in the mitochondrial outer membrane; Region: Porin3; cl03224 504728001990 Domain of unknown function DUF11; Region: DUF11; pfam01345 504728001991 Domain of unknown function DUF11; Region: DUF11; pfam01345 504728001992 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 504728001993 conserved repeat domain; Region: B_ant_repeat; TIGR01451 504728001994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 504728001995 dihydroorotase; Validated; Region: pyrC; PRK09357 504728001996 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 504728001997 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 504728001998 active site 504728001999 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 504728002000 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 504728002001 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 504728002002 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 504728002003 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728002004 active site 504728002005 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12858 504728002006 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728002007 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 504728002008 putative substrate binding site [chemical binding]; other site 504728002009 putative ATP binding site [chemical binding]; other site 504728002010 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 504728002011 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 504728002012 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 504728002013 active site 504728002014 FMN binding site [chemical binding]; other site 504728002015 substrate binding site [chemical binding]; other site 504728002016 homotetramer interface [polypeptide binding]; other site 504728002017 catalytic residue [active] 504728002018 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728002019 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728002020 active site 504728002021 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 504728002022 Ligand binding site [chemical binding]; other site 504728002023 Electron transfer flavoprotein domain; Region: ETF; pfam01012 504728002024 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 504728002025 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 504728002026 Ligand Binding Site [chemical binding]; other site 504728002027 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 504728002028 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 504728002029 histidinol dehydrogenase; Region: hisD; TIGR00069 504728002030 NAD binding site [chemical binding]; other site 504728002031 dimerization interface [polypeptide binding]; other site 504728002032 product binding site; other site 504728002033 substrate binding site [chemical binding]; other site 504728002034 zinc binding site [ion binding]; other site 504728002035 catalytic residues [active] 504728002036 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728002037 isocitrate lyase; Provisional; Region: PRK15063 504728002038 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 504728002039 tetramer interface [polypeptide binding]; other site 504728002040 active site 504728002041 Mg2+/Mn2+ binding site [ion binding]; other site 504728002042 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 504728002043 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 504728002044 ligand binding site [chemical binding]; other site 504728002045 flexible hinge region; other site 504728002046 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 504728002047 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 504728002048 metal binding triad; other site 504728002049 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 504728002050 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 504728002051 catalytic triad [active] 504728002052 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 504728002053 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 504728002054 NAD(P) binding site [chemical binding]; other site 504728002055 catalytic residues [active] 504728002056 short chain dehydrogenase; Provisional; Region: PRK06057 504728002057 classical (c) SDRs; Region: SDR_c; cd05233 504728002058 NAD(P) binding site [chemical binding]; other site 504728002059 active site 504728002060 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 504728002061 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 504728002062 ethanolamine permease; Region: 2A0305; TIGR00908 504728002063 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 504728002064 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728002065 DNA-binding site [nucleotide binding]; DNA binding site 504728002066 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 504728002067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002068 homodimer interface [polypeptide binding]; other site 504728002069 catalytic residue [active] 504728002070 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 504728002071 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504728002072 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504728002073 ABC transporter; Region: ABC_tran_2; pfam12848 504728002074 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504728002075 membrane protein; Provisional; Region: PRK14401 504728002076 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728002077 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728002078 DNA binding site [nucleotide binding] 504728002079 domain linker motif; other site 504728002080 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504728002081 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 504728002082 [2Fe-2S] cluster binding site [ion binding]; other site 504728002083 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 504728002084 FeS assembly protein SufD; Region: sufD; TIGR01981 504728002085 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 504728002086 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 504728002087 FeS assembly protein SufB; Region: sufB; TIGR01980 504728002088 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 504728002089 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 504728002090 Walker A/P-loop; other site 504728002091 ATP binding site [chemical binding]; other site 504728002092 Q-loop/lid; other site 504728002093 ABC transporter signature motif; other site 504728002094 Walker B; other site 504728002095 D-loop; other site 504728002096 H-loop/switch region; other site 504728002097 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 504728002098 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 504728002099 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 504728002100 FeS/SAM binding site; other site 504728002101 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002102 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002103 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 504728002104 binding surface 504728002105 TPR motif; other site 504728002106 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002107 CHAT domain; Region: CHAT; pfam12770 504728002108 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728002109 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728002110 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 504728002111 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504728002112 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 504728002113 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728002114 active site 504728002115 catalytic residues [active] 504728002116 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 504728002117 binding surface 504728002118 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002119 TPR motif; other site 504728002120 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002121 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002122 diaminopimelate decarboxylase; Region: lysA; TIGR01048 504728002123 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 504728002124 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504728002125 catalytic residue [active] 504728002126 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 504728002127 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 504728002128 catalytic triad [active] 504728002129 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504728002130 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504728002131 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 504728002132 Walker A/P-loop; other site 504728002133 ATP binding site [chemical binding]; other site 504728002134 Q-loop/lid; other site 504728002135 ABC transporter signature motif; other site 504728002136 Walker B; other site 504728002137 D-loop; other site 504728002138 H-loop/switch region; other site 504728002139 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504728002140 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504728002141 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728002142 Walker A/P-loop; other site 504728002143 ATP binding site [chemical binding]; other site 504728002144 Q-loop/lid; other site 504728002145 ABC transporter signature motif; other site 504728002146 Walker B; other site 504728002147 D-loop; other site 504728002148 H-loop/switch region; other site 504728002149 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 504728002150 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 504728002151 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 504728002152 metal binding site [ion binding]; metal-binding site 504728002153 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728002154 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 504728002155 active site 504728002156 phosphorylation site [posttranslational modification] 504728002157 intermolecular recognition site; other site 504728002158 dimerization interface [polypeptide binding]; other site 504728002159 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 504728002160 DNA binding residues [nucleotide binding] 504728002161 dimerization interface [polypeptide binding]; other site 504728002162 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 504728002163 Predicted membrane protein [Function unknown]; Region: COG3174 504728002164 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 504728002165 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14835 504728002166 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 504728002167 catalytic residue [active] 504728002168 putative FPP diphosphate binding site; other site 504728002169 putative FPP binding hydrophobic cleft; other site 504728002170 dimer interface [polypeptide binding]; other site 504728002171 putative IPP diphosphate binding site; other site 504728002172 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 504728002173 Src Homology 3 domain superfamily; Region: SH3; cl17036 504728002174 peptide ligand binding site [polypeptide binding]; other site 504728002175 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 504728002176 active site 504728002177 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 504728002178 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 504728002179 active site 504728002180 catalytic triad [active] 504728002181 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 504728002182 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 504728002183 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 504728002184 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 504728002185 Cysteine-rich domain; Region: CCG; pfam02754 504728002186 Cysteine-rich domain; Region: CCG; pfam02754 504728002187 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 504728002188 Predicted membrane protein [Function unknown]; Region: COG2311 504728002189 Protein of unknown function (DUF418); Region: DUF418; cl12135 504728002190 DinB superfamily; Region: DinB_2; pfam12867 504728002191 Protein of unknown function (DUF664); Region: DUF664; pfam04978 504728002192 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 504728002193 dimerization interface [polypeptide binding]; other site 504728002194 putative DNA binding site [nucleotide binding]; other site 504728002195 Transcriptional regulators [Transcription]; Region: MarR; COG1846 504728002196 putative Zn2+ binding site [ion binding]; other site 504728002197 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728002198 Coenzyme A binding pocket [chemical binding]; other site 504728002199 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 504728002200 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728002201 putative substrate translocation pore; other site 504728002202 Low molecular weight phosphatase family; Region: LMWPc; cd00115 504728002203 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 504728002204 active site 504728002205 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 504728002206 Low molecular weight phosphatase family; Region: LMWPc; cd00115 504728002207 active site 504728002208 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 504728002209 putative active site [active] 504728002210 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 504728002211 binding surface 504728002212 TPR motif; other site 504728002213 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 504728002214 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 504728002215 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 504728002216 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 504728002217 active site 504728002218 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728002219 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728002220 active site 504728002221 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 504728002222 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 504728002223 FOG: CBS domain [General function prediction only]; Region: COG0517 504728002224 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 504728002225 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 504728002226 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 504728002227 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 504728002228 active site 504728002229 Zn binding site [ion binding]; other site 504728002230 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 504728002231 CcmB protein; Region: CcmB; cl17444 504728002232 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 504728002233 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 504728002234 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 504728002235 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 504728002236 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728002237 catalytic residues [active] 504728002238 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 504728002239 TPR repeat; Region: TPR_11; pfam13414 504728002240 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 504728002241 binding surface 504728002242 TPR motif; other site 504728002243 Tetratricopeptide repeat; Region: TPR_16; pfam13432 504728002244 Cytochrome c; Region: Cytochrom_C; cl11414 504728002245 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 504728002246 iron-sulfur cluster [ion binding]; other site 504728002247 [2Fe-2S] cluster binding site [ion binding]; other site 504728002248 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 504728002249 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 504728002250 active site 504728002251 HIGH motif; other site 504728002252 dimer interface [polypeptide binding]; other site 504728002253 KMSKS motif; other site 504728002254 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 504728002255 RNA binding surface [nucleotide binding]; other site 504728002256 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 504728002257 CHAD domain; Region: CHAD; pfam05235 504728002258 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 504728002259 Arginase family; Region: Arginase; cd09989 504728002260 agmatinase; Region: agmatinase; TIGR01230 504728002261 active site 504728002262 Mn binding site [ion binding]; other site 504728002263 oligomer interface [polypeptide binding]; other site 504728002264 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 504728002265 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 504728002266 catalytic residues [active] 504728002267 sulfite reductase subunit beta; Provisional; Region: PRK13504 504728002268 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 504728002269 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 504728002270 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 504728002271 active site 504728002272 SAM binding site [chemical binding]; other site 504728002273 homodimer interface [polypeptide binding]; other site 504728002274 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 504728002275 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 504728002276 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 504728002277 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504728002278 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 504728002279 ATP-sulfurylase; Region: ATPS; cd00517 504728002280 active site 504728002281 HXXH motif; other site 504728002282 flexible loop; other site 504728002283 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 504728002284 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 504728002285 Active Sites [active] 504728002286 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 504728002287 ligand-binding site [chemical binding]; other site 504728002288 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 504728002289 DHH family; Region: DHH; pfam01368 504728002290 DHHA1 domain; Region: DHHA1; pfam02272 504728002291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 504728002292 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728002293 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 504728002294 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 504728002295 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 504728002296 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 504728002297 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728002298 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 504728002299 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 504728002300 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 504728002301 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 504728002302 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728002303 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 504728002304 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 504728002305 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 504728002306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002307 homodimer interface [polypeptide binding]; other site 504728002308 catalytic residue [active] 504728002309 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 504728002310 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728002311 Zn2+ binding site [ion binding]; other site 504728002312 Mg2+ binding site [ion binding]; other site 504728002313 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 504728002314 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 504728002315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728002316 Q-loop/lid; other site 504728002317 Walker B; other site 504728002318 D-loop; other site 504728002319 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728002320 H-loop/switch region; other site 504728002321 active site 504728002322 catalytic residues [active] 504728002323 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 504728002324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 504728002325 Putative esterase; Region: Esterase; pfam00756 504728002326 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 504728002327 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 504728002328 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 504728002329 RNA binding surface [nucleotide binding]; other site 504728002330 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 504728002331 active site 504728002332 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 504728002333 dimerization interface [polypeptide binding]; other site 504728002334 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728002335 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728002336 Zn2+ binding site [ion binding]; other site 504728002337 Mg2+ binding site [ion binding]; other site 504728002338 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 504728002339 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 504728002340 Walker A motif; other site 504728002341 ATP binding site [chemical binding]; other site 504728002342 Walker B motif; other site 504728002343 arginine finger; other site 504728002344 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 504728002345 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728002346 Response regulator receiver domain; Region: Response_reg; pfam00072 504728002347 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 504728002348 active site 504728002349 dimerization interface [polypeptide binding]; other site 504728002350 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 504728002351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 504728002352 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 504728002353 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 504728002354 ligand binding site [chemical binding]; other site 504728002355 flexible hinge region; other site 504728002356 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 504728002357 putative switch regulator; other site 504728002358 non-specific DNA interactions [nucleotide binding]; other site 504728002359 DNA binding site [nucleotide binding] 504728002360 sequence specific DNA binding site [nucleotide binding]; other site 504728002361 putative cAMP binding site [chemical binding]; other site 504728002362 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 504728002363 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 504728002364 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 504728002365 Clp amino terminal domain; Region: Clp_N; pfam02861 504728002366 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 504728002367 Walker A motif; other site 504728002368 ATP binding site [chemical binding]; other site 504728002369 Walker B motif; other site 504728002370 arginine finger; other site 504728002371 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 504728002372 Walker A motif; other site 504728002373 ATP binding site [chemical binding]; other site 504728002374 Walker B motif; other site 504728002375 arginine finger; other site 504728002376 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 504728002377 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 504728002378 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728002379 catalytic residues [active] 504728002380 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 504728002381 putative active site [active] 504728002382 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504728002383 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 504728002384 putative dimer interface [polypeptide binding]; other site 504728002385 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 504728002386 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728002387 active site 504728002388 NTP binding site [chemical binding]; other site 504728002389 metal binding triad [ion binding]; metal-binding site 504728002390 antibiotic binding site [chemical binding]; other site 504728002391 Protein of unknown function DUF86; Region: DUF86; pfam01934 504728002392 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 504728002393 O-Antigen ligase; Region: Wzy_C; pfam04932 504728002394 TPR repeat; Region: TPR_11; pfam13414 504728002395 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 504728002396 binding surface 504728002397 TPR motif; other site 504728002398 TPR repeat; Region: TPR_11; pfam13414 504728002399 Cupin domain; Region: Cupin_2; pfam07883 504728002400 Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP; Region: RLP_RrRLP; cd08210 504728002401 dimer interface [polypeptide binding]; other site 504728002402 active site 504728002403 catalytic residue [active] 504728002404 metal binding site [ion binding]; metal-binding site 504728002405 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728002406 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728002407 Response regulator receiver domain; Region: Response_reg; pfam00072 504728002408 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 504728002409 active site 504728002410 phosphorylation site [posttranslational modification] 504728002411 intermolecular recognition site; other site 504728002412 dimerization interface [polypeptide binding]; other site 504728002413 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 504728002414 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728002415 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 504728002416 putative binding surface; other site 504728002417 active site 504728002418 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 504728002419 putative binding surface; other site 504728002420 active site 504728002421 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 504728002422 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 504728002423 ATP binding site [chemical binding]; other site 504728002424 Mg2+ binding site [ion binding]; other site 504728002425 G-X-G motif; other site 504728002426 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; cl00256 504728002427 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 504728002428 Response regulator receiver domain; Region: Response_reg; pfam00072 504728002429 active site 504728002430 phosphorylation site [posttranslational modification] 504728002431 intermolecular recognition site; other site 504728002432 dimerization interface [polypeptide binding]; other site 504728002433 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 504728002434 dimerization interface [polypeptide binding]; other site 504728002435 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 504728002436 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504728002437 dimer interface [polypeptide binding]; other site 504728002438 putative CheW interface [polypeptide binding]; other site 504728002439 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 504728002440 dimerization interface [polypeptide binding]; other site 504728002441 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 504728002442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504728002443 dimer interface [polypeptide binding]; other site 504728002444 putative CheW interface [polypeptide binding]; other site 504728002445 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 504728002446 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 504728002447 CheW-like domain; Region: CheW; pfam01584 504728002448 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 504728002449 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 504728002450 active site 504728002451 phosphorylation site [posttranslational modification] 504728002452 intermolecular recognition site; other site 504728002453 dimerization interface [polypeptide binding]; other site 504728002454 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 504728002455 Ligand Binding Site [chemical binding]; other site 504728002456 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 504728002457 Dynamin family; Region: Dynamin_N; pfam00350 504728002458 G1 box; other site 504728002459 GTP/Mg2+ binding site [chemical binding]; other site 504728002460 G2 box; other site 504728002461 Switch I region; other site 504728002462 G3 box; other site 504728002463 Switch II region; other site 504728002464 G4 box; other site 504728002465 G5 box; other site 504728002466 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 504728002467 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 504728002468 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 504728002469 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 504728002470 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 504728002471 ATP-grasp domain; Region: ATP-grasp_4; cl17255 504728002472 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 504728002473 Ferritin-like domain; Region: Ferritin; pfam00210 504728002474 ferroxidase diiron center [ion binding]; other site 504728002475 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 504728002476 active site residue [active] 504728002477 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 504728002478 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 504728002479 active site residue [active] 504728002480 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 504728002481 active site residue [active] 504728002482 Predicted transcriptional regulator [Transcription]; Region: COG1959 504728002483 Transcriptional regulator; Region: Rrf2; pfam02082 504728002484 Predicted amidohydrolase [General function prediction only]; Region: COG0388 504728002485 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 504728002486 active site 504728002487 catalytic triad [active] 504728002488 dimer interface [polypeptide binding]; other site 504728002489 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 504728002490 Chromate transporter; Region: Chromate_transp; pfam02417 504728002491 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728002492 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_7; cd08512 504728002493 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728002494 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 504728002495 dimer interface [polypeptide binding]; other site 504728002496 conserved gate region; other site 504728002497 putative PBP binding loops; other site 504728002498 ABC-ATPase subunit interface; other site 504728002499 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504728002500 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 504728002501 dimer interface [polypeptide binding]; other site 504728002502 conserved gate region; other site 504728002503 putative PBP binding loops; other site 504728002504 ABC-ATPase subunit interface; other site 504728002505 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 504728002506 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 504728002507 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 504728002508 Switch I; other site 504728002509 Switch II; other site 504728002510 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 504728002511 ScpA/B protein; Region: ScpA_ScpB; cl00598 504728002512 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 504728002513 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 504728002514 active site 504728002515 HIGH motif; other site 504728002516 dimer interface [polypeptide binding]; other site 504728002517 KMSKS motif; other site 504728002518 putative RNA polymerase sigma E protein; Provisional; Region: PRK13919 504728002519 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504728002520 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 504728002521 putative anti-sigmaE protein; Provisional; Region: PRK13920 504728002522 Anti-sigma-K factor rskA; Region: RskA; pfam10099 504728002523 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 504728002524 dinuclear metal binding motif [ion binding]; other site 504728002525 CHRD domain; Region: CHRD; pfam07452 504728002526 Ferritin-like domain; Region: Ferritin_2; pfam13668 504728002527 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 504728002528 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 504728002529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002530 catalytic residue [active] 504728002531 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728002532 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 504728002533 DNA-binding site [nucleotide binding]; DNA binding site 504728002534 FCD domain; Region: FCD; pfam07729 504728002535 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728002536 Coenzyme A binding pocket [chemical binding]; other site 504728002537 Phosphoglycerate kinase; Region: PGK; pfam00162 504728002538 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 504728002539 substrate binding site [chemical binding]; other site 504728002540 hinge regions; other site 504728002541 ADP binding site [chemical binding]; other site 504728002542 catalytic site [active] 504728002543 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 504728002544 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 504728002545 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 504728002546 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 504728002547 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 504728002548 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 504728002549 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 504728002550 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 504728002551 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 504728002552 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 504728002553 active site 504728002554 motif I; other site 504728002555 motif II; other site 504728002556 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 504728002557 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 504728002558 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 504728002559 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 504728002560 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 504728002561 Walker A motif; other site 504728002562 ATP binding site [chemical binding]; other site 504728002563 Walker B motif; other site 504728002564 hypothetical protein; Provisional; Region: PRK08201 504728002565 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 504728002566 metal binding site [ion binding]; metal-binding site 504728002567 putative dimer interface [polypeptide binding]; other site 504728002568 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728002569 PEGA domain; Region: PEGA; pfam08308 504728002570 PEGA domain; Region: PEGA; pfam08308 504728002571 PEGA domain; Region: PEGA; pfam08308 504728002572 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 504728002573 dimanganese center [ion binding]; other site 504728002574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504728002575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504728002576 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 504728002577 dimerization interface [polypeptide binding]; other site 504728002578 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 504728002579 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 504728002580 putative RNA binding site [nucleotide binding]; other site 504728002581 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 504728002582 S-adenosylmethionine binding site [chemical binding]; other site 504728002583 V-type ATP synthase subunit I; Validated; Region: PRK05771 504728002584 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 504728002585 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; pfam01992 504728002586 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 504728002587 V-type ATP synthase subunit A; Provisional; Region: PRK04192 504728002588 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 504728002589 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 504728002590 Walker A motif/ATP binding site; other site 504728002591 Walker B motif; other site 504728002592 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 504728002593 V-type ATP synthase subunit B; Provisional; Region: PRK04196 504728002594 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 504728002595 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 504728002596 Walker A motif homologous position; other site 504728002597 Walker B motif; other site 504728002598 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 504728002599 Archaeal/vacuolar-type H+-ATPase subunit D [Energy production and conversion]; Region: NtpD; COG1394 504728002600 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 504728002601 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 504728002602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002603 homodimer interface [polypeptide binding]; other site 504728002604 catalytic residue [active] 504728002605 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 504728002606 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 504728002607 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 504728002608 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 504728002609 THF binding site; other site 504728002610 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 504728002611 substrate binding site [chemical binding]; other site 504728002612 THF binding site; other site 504728002613 zinc-binding site [ion binding]; other site 504728002614 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 504728002615 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 504728002616 dimer interface [polypeptide binding]; other site 504728002617 putative radical transfer pathway; other site 504728002618 diiron center [ion binding]; other site 504728002619 tyrosyl radical; other site 504728002620 ATP cone domain; Region: ATP-cone; pfam03477 504728002621 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 504728002622 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 504728002623 Class I ribonucleotide reductase; Region: RNR_I; cd01679 504728002624 active site 504728002625 dimer interface [polypeptide binding]; other site 504728002626 catalytic residues [active] 504728002627 effector binding site; other site 504728002628 R2 peptide binding site; other site 504728002629 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; pfam07972 504728002630 DsrE/DsrF-like family; Region: DrsE; pfam02635 504728002631 Predicted amidohydrolase [General function prediction only]; Region: COG0388 504728002632 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 504728002633 active site 504728002634 catalytic triad [active] 504728002635 dimer interface [polypeptide binding]; other site 504728002636 aspartate kinase; Reviewed; Region: PRK06635 504728002637 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 504728002638 putative nucleotide binding site [chemical binding]; other site 504728002639 putative catalytic residues [active] 504728002640 putative Mg ion binding site [ion binding]; other site 504728002641 putative aspartate binding site [chemical binding]; other site 504728002642 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 504728002643 putative allosteric regulatory site; other site 504728002644 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 504728002645 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728002646 active site 504728002647 malate dehydrogenase; Provisional; Region: PRK05442 504728002648 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 504728002649 NAD(P) binding site [chemical binding]; other site 504728002650 dimer interface [polypeptide binding]; other site 504728002651 malate binding site [chemical binding]; other site 504728002652 malate dehydrogenase; Provisional; Region: PRK13529 504728002653 Malic enzyme, N-terminal domain; Region: malic; pfam00390 504728002654 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 504728002655 NAD(P) binding site [chemical binding]; other site 504728002656 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 504728002657 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 504728002658 DNA binding residues [nucleotide binding] 504728002659 putative dimer interface [polypeptide binding]; other site 504728002660 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 504728002661 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 504728002662 DNA binding residues [nucleotide binding] 504728002663 putative dimer interface [polypeptide binding]; other site 504728002664 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 504728002665 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 504728002666 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 504728002667 Walker A/P-loop; other site 504728002668 ATP binding site [chemical binding]; other site 504728002669 Q-loop/lid; other site 504728002670 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 504728002671 ABC transporter signature motif; other site 504728002672 Walker B; other site 504728002673 D-loop; other site 504728002674 H-loop/switch region; other site 504728002675 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 504728002676 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 504728002677 active site 504728002678 metal binding site [ion binding]; metal-binding site 504728002679 DNA binding site [nucleotide binding] 504728002680 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 504728002681 Putative cyclase; Region: Cyclase; cl00814 504728002682 futalosine nucleosidase; Region: fut_nucase; TIGR03664 504728002683 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728002684 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728002685 Walker A/P-loop; other site 504728002686 ATP binding site [chemical binding]; other site 504728002687 Q-loop/lid; other site 504728002688 ABC transporter signature motif; other site 504728002689 Walker B; other site 504728002690 D-loop; other site 504728002691 H-loop/switch region; other site 504728002692 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 504728002693 Predicted dehydrogenase [General function prediction only]; Region: COG5322 504728002694 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 504728002695 NAD(P) binding pocket [chemical binding]; other site 504728002696 Integral membrane protein TerC family; Region: TerC; cl10468 504728002697 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 504728002698 S-adenosylmethionine binding site [chemical binding]; other site 504728002699 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 504728002700 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 504728002701 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 504728002702 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 504728002703 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 504728002704 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 504728002705 dimer interface [polypeptide binding]; other site 504728002706 ADP-ribose binding site [chemical binding]; other site 504728002707 active site 504728002708 nudix motif; other site 504728002709 metal binding site [ion binding]; metal-binding site 504728002710 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 504728002711 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 504728002712 active site 504728002713 Riboflavin kinase; Region: Flavokinase; pfam01687 504728002714 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 504728002715 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 504728002716 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 504728002717 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 504728002718 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 504728002719 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 504728002720 putative homodimer interface [polypeptide binding]; other site 504728002721 putative active site pocket [active] 504728002722 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 504728002723 Flagellin N-methylase; Region: FliB; pfam03692 504728002724 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 504728002725 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 504728002726 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 504728002727 Ligand Binding Site [chemical binding]; other site 504728002728 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 504728002729 nucleoside/Zn binding site; other site 504728002730 dimer interface [polypeptide binding]; other site 504728002731 catalytic motif [active] 504728002732 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 504728002733 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 504728002734 Permutation of conserved domain; other site 504728002735 active site 504728002736 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cd01291 504728002737 signal recognition particle protein; Provisional; Region: PRK10867 504728002738 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 504728002739 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 504728002740 P loop; other site 504728002741 GTP binding site [chemical binding]; other site 504728002742 Signal peptide binding domain; Region: SRP_SPB; pfam02978 504728002743 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 504728002744 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 504728002745 KH domain; Region: KH_4; pfam13083 504728002746 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13829 504728002747 RimM N-terminal domain; Region: RimM; pfam01782 504728002748 PRC-barrel domain; Region: PRC; pfam05239 504728002749 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 504728002750 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 504728002751 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 504728002752 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 504728002753 active site 504728002754 catalytic residues [active] 504728002755 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 504728002756 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 504728002757 Homeodomain-like domain; Region: HTH_23; pfam13384 504728002758 Winged helix-turn helix; Region: HTH_29; pfam13551 504728002759 DDE superfamily endonuclease; Region: DDE_3; pfam13358 504728002760 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504728002761 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504728002762 Walker A/P-loop; other site 504728002763 ATP binding site [chemical binding]; other site 504728002764 Q-loop/lid; other site 504728002765 ABC transporter signature motif; other site 504728002766 Walker B; other site 504728002767 D-loop; other site 504728002768 H-loop/switch region; other site 504728002769 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 504728002770 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 504728002771 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 504728002772 dimer interface [polypeptide binding]; other site 504728002773 conserved gate region; other site 504728002774 putative PBP binding loops; other site 504728002775 ABC-ATPase subunit interface; other site 504728002776 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 504728002777 dimer interface [polypeptide binding]; other site 504728002778 conserved gate region; other site 504728002779 putative PBP binding loops; other site 504728002780 ABC-ATPase subunit interface; other site 504728002781 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]; Region: COG2074 504728002782 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728002783 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728002784 metal binding site [ion binding]; metal-binding site 504728002785 active site 504728002786 I-site; other site 504728002787 Predicted ATPase [General function prediction only]; Region: COG3903 504728002788 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002789 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 504728002790 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 504728002791 Helix-hairpin-helix motif; Region: HHH; pfam00633 504728002792 Protein of unknown function (DUF421); Region: DUF421; pfam04239 504728002793 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728002794 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 504728002795 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 504728002796 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 504728002797 TPR motif; other site 504728002798 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728002799 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 504728002800 dimerization interface [polypeptide binding]; other site 504728002801 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 504728002802 dimer interface [polypeptide binding]; other site 504728002803 phosphorylation site [posttranslational modification] 504728002804 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 504728002805 ATP binding site [chemical binding]; other site 504728002806 Mg2+ binding site [ion binding]; other site 504728002807 G-X-G motif; other site 504728002808 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 504728002809 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 504728002810 NodB motif; other site 504728002811 active site 504728002812 catalytic site [active] 504728002813 metal binding site [ion binding]; metal-binding site 504728002814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 504728002815 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728002816 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 504728002817 active site 504728002818 phosphorylation site [posttranslational modification] 504728002819 intermolecular recognition site; other site 504728002820 dimerization interface [polypeptide binding]; other site 504728002821 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 504728002822 DNA binding site [nucleotide binding] 504728002823 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 504728002824 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 504728002825 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 504728002826 Walker A motif; other site 504728002827 ATP binding site [chemical binding]; other site 504728002828 Walker B motif; other site 504728002829 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 504728002830 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504728002831 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504728002832 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 504728002833 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 504728002834 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 504728002835 substrate binding pocket [chemical binding]; other site 504728002836 membrane-bound complex binding site; other site 504728002837 hinge residues; other site 504728002838 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 504728002839 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 504728002840 dimer interface [polypeptide binding]; other site 504728002841 conserved gate region; other site 504728002842 putative PBP binding loops; other site 504728002843 ABC-ATPase subunit interface; other site 504728002844 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504728002845 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 504728002846 non-specific DNA binding site [nucleotide binding]; other site 504728002847 salt bridge; other site 504728002848 sequence-specific DNA binding site [nucleotide binding]; other site 504728002849 Cupin domain; Region: Cupin_2; pfam07883 504728002850 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 504728002851 agmatinase; Region: agmatinase; TIGR01230 504728002852 oligomer interface [polypeptide binding]; other site 504728002853 putative active site [active] 504728002854 Mn binding site [ion binding]; other site 504728002855 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 504728002856 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 504728002857 Walker A/P-loop; other site 504728002858 ATP binding site [chemical binding]; other site 504728002859 Q-loop/lid; other site 504728002860 ABC transporter signature motif; other site 504728002861 Walker B; other site 504728002862 D-loop; other site 504728002863 H-loop/switch region; other site 504728002864 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 504728002865 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 504728002866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002867 homodimer interface [polypeptide binding]; other site 504728002868 catalytic residue [active] 504728002869 GAF domain; Region: GAF_3; pfam13492 504728002870 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 504728002871 GAF domain; Region: GAF_2; pfam13185 504728002872 GAF domain; Region: GAF; cl17456 504728002873 GAF domain; Region: GAF; pfam01590 504728002874 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728002875 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 504728002876 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728002877 GAF domain; Region: GAF; pfam01590 504728002878 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728002879 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728002880 Zn2+ binding site [ion binding]; other site 504728002881 Mg2+ binding site [ion binding]; other site 504728002882 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 504728002883 TPR motif; other site 504728002884 binding surface 504728002885 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002886 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 504728002887 binding surface 504728002888 TPR motif; other site 504728002889 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728002890 active site 504728002891 catalytic residues [active] 504728002892 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 504728002893 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 504728002894 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728002895 active site 504728002896 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 504728002897 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 504728002898 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 504728002899 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 504728002900 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 504728002901 S-ribosylhomocysteinase; Provisional; Region: PRK02260 504728002902 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 504728002903 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 504728002904 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 504728002905 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 504728002906 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 504728002907 TrkA-N domain; Region: TrkA_N; pfam02254 504728002908 TrkA-C domain; Region: TrkA_C; pfam02080 504728002909 TrkA-N domain; Region: TrkA_N; pfam02254 504728002910 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 504728002911 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 504728002912 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 504728002913 FeS/SAM binding site; other site 504728002914 Helix-turn-helix domain; Region: HTH_25; pfam13413 504728002915 PEGA domain; Region: PEGA; pfam08308 504728002916 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 504728002917 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 504728002918 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 504728002919 binding surface 504728002920 TPR motif; other site 504728002921 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002922 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 504728002923 binding surface 504728002924 TPR motif; other site 504728002925 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002926 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002927 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728002928 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728002929 metal binding site [ion binding]; metal-binding site 504728002930 active site 504728002931 I-site; other site 504728002932 putative inner membrane protein; Provisional; Region: PRK11099 504728002933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 504728002934 Histidine kinase; Region: HisKA_3; pfam07730 504728002935 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 504728002936 ATP binding site [chemical binding]; other site 504728002937 G-X-G motif; other site 504728002938 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728002939 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 504728002940 active site 504728002941 phosphorylation site [posttranslational modification] 504728002942 intermolecular recognition site; other site 504728002943 dimerization interface [polypeptide binding]; other site 504728002944 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 504728002945 DNA binding residues [nucleotide binding] 504728002946 dimerization interface [polypeptide binding]; other site 504728002947 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 504728002948 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 504728002949 HIGH motif; other site 504728002950 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 504728002951 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728002952 active site 504728002953 KMSKS motif; other site 504728002954 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 504728002955 tRNA binding surface [nucleotide binding]; other site 504728002956 NMT1/THI5 like; Region: NMT1; pfam09084 504728002957 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 504728002958 substrate binding pocket [chemical binding]; other site 504728002959 membrane-bound complex binding site; other site 504728002960 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728002961 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504728002962 Walker A/P-loop; other site 504728002963 ATP binding site [chemical binding]; other site 504728002964 Q-loop/lid; other site 504728002965 ABC transporter signature motif; other site 504728002966 Walker B; other site 504728002967 D-loop; other site 504728002968 H-loop/switch region; other site 504728002969 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504728002970 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 504728002971 dimer interface [polypeptide binding]; other site 504728002972 conserved gate region; other site 504728002973 putative PBP binding loops; other site 504728002974 ABC-ATPase subunit interface; other site 504728002975 Uncharacterized conserved protein [Function unknown]; Region: COG4715 504728002976 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 504728002977 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 504728002978 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 504728002979 putative catalytic cysteine [active] 504728002980 glutamate 5-kinase; Region: proB; TIGR01027 504728002981 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 504728002982 nucleotide binding site [chemical binding]; other site 504728002983 homotetrameric interface [polypeptide binding]; other site 504728002984 putative phosphate binding site [ion binding]; other site 504728002985 putative allosteric binding site; other site 504728002986 PUA domain; Region: PUA; pfam01472 504728002987 oligoendopeptidase F; Region: pepF; TIGR00181 504728002988 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 504728002989 active site 504728002990 Zn binding site [ion binding]; other site 504728002991 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 504728002992 beta-galactosidase; Region: BGL; TIGR03356 504728002993 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 504728002994 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_12; cd07255 504728002995 putative metal binding site [ion binding]; other site 504728002996 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 504728002997 active site 504728002998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728002999 NAD(P) binding site [chemical binding]; other site 504728003000 active site 504728003001 Fumble; Region: Fumble; cl17357 504728003002 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 504728003003 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 504728003004 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 504728003005 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 504728003006 oligomerisation interface [polypeptide binding]; other site 504728003007 mobile loop; other site 504728003008 roof hairpin; other site 504728003009 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 504728003010 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 504728003011 ring oligomerisation interface [polypeptide binding]; other site 504728003012 ATP/Mg binding site [chemical binding]; other site 504728003013 stacking interactions; other site 504728003014 hinge regions; other site 504728003015 Predicted transcriptional regulators [Transcription]; Region: COG1733 504728003016 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 504728003017 Predicted transcriptional regulators [Transcription]; Region: COG1733 504728003018 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 504728003019 dimerization interface [polypeptide binding]; other site 504728003020 putative DNA binding site [nucleotide binding]; other site 504728003021 putative Zn2+ binding site [ion binding]; other site 504728003022 YceI-like domain; Region: YceI; smart00867 504728003023 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728003024 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728003025 active site 504728003026 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728003027 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728003028 active site 504728003029 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily 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: ACAD10_11_like; cd05154 504728003030 Phosphotransferase enzyme family; Region: APH; pfam01636 504728003031 putative active site [active] 504728003032 putative substrate binding site [chemical binding]; other site 504728003033 ATP binding site [chemical binding]; other site 504728003034 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 504728003035 agmatinase; Region: agmatinase; TIGR01230 504728003036 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 504728003037 active site 504728003038 metal binding site [ion binding]; metal-binding site 504728003039 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 504728003040 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 504728003041 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 504728003042 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 504728003043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728003044 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 504728003045 dimer interface [polypeptide binding]; other site 504728003046 phosphorylation site [posttranslational modification] 504728003047 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 504728003048 ATP binding site [chemical binding]; other site 504728003049 Mg2+ binding site [ion binding]; other site 504728003050 G-X-G motif; other site 504728003051 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728003052 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 504728003053 active site 504728003054 phosphorylation site [posttranslational modification] 504728003055 intermolecular recognition site; other site 504728003056 dimerization interface [polypeptide binding]; other site 504728003057 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 504728003058 DNA binding site [nucleotide binding] 504728003059 MutS domain III; Region: MutS_III; pfam05192 504728003060 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 504728003061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728003062 Walker A/P-loop; other site 504728003063 ATP binding site [chemical binding]; other site 504728003064 Q-loop/lid; other site 504728003065 ABC transporter signature motif; other site 504728003066 Walker B; other site 504728003067 D-loop; other site 504728003068 H-loop/switch region; other site 504728003069 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 504728003070 Smr domain; Region: Smr; pfam01713 504728003071 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 504728003072 active site 504728003073 dimerization interface [polypeptide binding]; other site 504728003074 ribonuclease PH; Reviewed; Region: rph; PRK00173 504728003075 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 504728003076 oligomer interface [polypeptide binding]; other site 504728003077 RNA binding site [nucleotide binding]; other site 504728003078 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 504728003079 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 504728003080 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 504728003081 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504728003082 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 504728003083 DNA binding residues [nucleotide binding] 504728003084 Putative zinc-finger; Region: zf-HC2; pfam13490 504728003085 putative anti-sigmaE protein; Provisional; Region: PRK13920 504728003086 Anti-sigma-K factor rskA; Region: RskA; pfam10099 504728003087 succinic semialdehyde dehydrogenase; Reviewed; Region: gabD2; PRK09407 504728003088 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 2-like; Region: ALDH_SSADH2_GabD2; cd07101 504728003089 NAD(P) binding site [chemical binding]; other site 504728003090 catalytic residues [active] 504728003091 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 504728003092 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 504728003093 dimer interface [polypeptide binding]; other site 504728003094 conserved gate region; other site 504728003095 putative PBP binding loops; other site 504728003096 ABC-ATPase subunit interface; other site 504728003097 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728003098 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 504728003099 dimer interface [polypeptide binding]; other site 504728003100 conserved gate region; other site 504728003101 putative PBP binding loops; other site 504728003102 ABC-ATPase subunit interface; other site 504728003103 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 504728003104 homodimer interface [polypeptide binding]; other site 504728003105 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 504728003106 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 504728003107 active site 504728003108 homodimer interface [polypeptide binding]; other site 504728003109 catalytic site [active] 504728003110 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 504728003111 short chain dehydrogenase; Provisional; Region: PRK07326 504728003112 classical (c) SDR, subgroup 4; Region: SDR_c4; cd08929 504728003113 putative NAD(P) binding site [chemical binding]; other site 504728003114 homodimer interface [polypeptide binding]; other site 504728003115 active site 504728003116 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728003117 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728003118 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 504728003119 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 504728003120 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 504728003121 protein binding site [polypeptide binding]; other site 504728003122 hypothetical protein; Provisional; Region: PRK06062 504728003123 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 504728003124 inhibitor-cofactor binding pocket; inhibition site 504728003125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728003126 catalytic residue [active] 504728003127 4-alpha-glucanotransferase; Provisional; Region: PRK14508 504728003128 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728003129 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_13; cd08354 504728003130 putative metal binding site [ion binding]; other site 504728003131 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 504728003132 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 504728003133 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 504728003134 Beta-lactamase; Region: Beta-lactamase; pfam00144 504728003135 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 504728003136 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 504728003137 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728003138 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728003139 active site 504728003140 Uncharacterized conserved protein [Function unknown]; Region: COG1434 504728003141 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 504728003142 putative active site [active] 504728003143 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 504728003144 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 504728003145 TPP-binding site [chemical binding]; other site 504728003146 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 504728003147 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 504728003148 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 504728003149 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 504728003150 dimer interface [polypeptide binding]; other site 504728003151 PYR/PP interface [polypeptide binding]; other site 504728003152 TPP binding site [chemical binding]; other site 504728003153 substrate binding site [chemical binding]; other site 504728003154 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 504728003155 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 504728003156 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 504728003157 active site 504728003158 Domain of unknown function (DUF897); Region: DUF897; pfam05982 504728003159 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 504728003160 active site 504728003161 isocitrate dehydrogenase; Validated; Region: PRK09222 504728003162 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 504728003163 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 504728003164 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 504728003165 ATP-grasp domain; Region: ATP-grasp; pfam02222 504728003166 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 504728003167 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 504728003168 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 504728003169 substrate binding pocket [chemical binding]; other site 504728003170 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 504728003171 B12 binding site [chemical binding]; other site 504728003172 cobalt ligand [ion binding]; other site 504728003173 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 504728003174 epoxyqueuosine reductase; Region: TIGR00276 504728003175 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 504728003176 4Fe-4S binding domain; Region: Fer4; cl02805 504728003177 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728003178 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 504728003179 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 504728003180 putative active site [active] 504728003181 catalytic triad [active] 504728003182 putative dimer interface [polypeptide binding]; other site 504728003183 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 504728003184 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_4; cd08500 504728003185 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 504728003186 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728003187 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 504728003188 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728003189 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 504728003190 ABC-ATPase subunit interface; other site 504728003191 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 504728003192 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 504728003193 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 504728003194 dimer interface [polypeptide binding]; other site 504728003195 conserved gate region; other site 504728003196 ABC-ATPase subunit interface; other site 504728003197 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 504728003198 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504728003199 Walker A/P-loop; other site 504728003200 ATP binding site [chemical binding]; other site 504728003201 Q-loop/lid; other site 504728003202 ABC transporter signature motif; other site 504728003203 Walker B; other site 504728003204 D-loop; other site 504728003205 H-loop/switch region; other site 504728003206 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504728003207 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 504728003208 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504728003209 Walker A/P-loop; other site 504728003210 ATP binding site [chemical binding]; other site 504728003211 Q-loop/lid; other site 504728003212 ABC transporter signature motif; other site 504728003213 Walker B; other site 504728003214 D-loop; other site 504728003215 H-loop/switch region; other site 504728003216 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 504728003217 Uncharacterized conserved protein [Function unknown]; Region: COG5316 504728003218 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 504728003219 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 504728003220 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728003221 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 504728003222 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 504728003223 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 504728003224 recombination protein RecR; Reviewed; Region: recR; PRK00076 504728003225 RecR protein; Region: RecR; pfam02132 504728003226 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 504728003227 putative active site [active] 504728003228 putative metal-binding site [ion binding]; other site 504728003229 tetramer interface [polypeptide binding]; other site 504728003230 hypothetical protein; Validated; Region: PRK00153 504728003231 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 504728003232 H+ Antiporter protein; Region: 2A0121; TIGR00900 504728003233 putative substrate translocation pore; other site 504728003234 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 504728003235 Protein phosphatase 2C; Region: PP2C; pfam00481 504728003236 active site 504728003237 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 504728003238 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 504728003239 active site 504728003240 ATP binding site [chemical binding]; other site 504728003241 substrate binding site [chemical binding]; other site 504728003242 activation loop (A-loop); other site 504728003243 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 504728003244 catalytic triad [active] 504728003245 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 504728003246 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728003247 catalytic triad [active] 504728003248 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728003249 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 504728003250 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 504728003251 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 504728003252 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 504728003253 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 504728003254 rod shape-determining protein MreC; Provisional; Region: PRK13922 504728003255 rod shape-determining protein MreC; Region: MreC; pfam04085 504728003256 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 504728003257 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 504728003258 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 504728003259 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 504728003260 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 504728003261 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 504728003262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728003263 homodimer interface [polypeptide binding]; other site 504728003264 catalytic residue [active] 504728003265 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 504728003266 putative active site pocket [active] 504728003267 4-fold oligomerization interface [polypeptide binding]; other site 504728003268 metal binding residues [ion binding]; metal-binding site 504728003269 3-fold/trimer interface [polypeptide binding]; other site 504728003270 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 504728003271 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 504728003272 putative active site [active] 504728003273 oxyanion strand; other site 504728003274 catalytic triad [active] 504728003275 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728003276 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 504728003277 substrate binding site [chemical binding]; other site 504728003278 ATP binding site [chemical binding]; other site 504728003279 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 504728003280 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 504728003281 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728003282 active site 504728003283 metal binding site [ion binding]; metal-binding site 504728003284 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 504728003285 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 504728003286 23S rRNA interface [nucleotide binding]; other site 504728003287 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 504728003288 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 504728003289 core dimer interface [polypeptide binding]; other site 504728003290 peripheral dimer interface [polypeptide binding]; other site 504728003291 L10 interface [polypeptide binding]; other site 504728003292 L11 interface [polypeptide binding]; other site 504728003293 putative EF-Tu interaction site [polypeptide binding]; other site 504728003294 putative EF-G interaction site [polypeptide binding]; other site 504728003295 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 504728003296 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 504728003297 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 504728003298 active site 504728003299 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 504728003300 Cation efflux family; Region: Cation_efflux; pfam01545 504728003301 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 504728003302 mRNA/rRNA interface [nucleotide binding]; other site 504728003303 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 504728003304 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 504728003305 23S rRNA interface [nucleotide binding]; other site 504728003306 L7/L12 interface [polypeptide binding]; other site 504728003307 putative thiostrepton binding site; other site 504728003308 L25 interface [polypeptide binding]; other site 504728003309 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 504728003310 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 504728003311 putative homodimer interface [polypeptide binding]; other site 504728003312 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 504728003313 heterodimer interface [polypeptide binding]; other site 504728003314 homodimer interface [polypeptide binding]; other site 504728003315 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 504728003316 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 504728003317 elongation factor Tu; Reviewed; Region: PRK00049 504728003318 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 504728003319 G1 box; other site 504728003320 GEF interaction site [polypeptide binding]; other site 504728003321 GTP/Mg2+ binding site [chemical binding]; other site 504728003322 Switch I region; other site 504728003323 G2 box; other site 504728003324 G3 box; other site 504728003325 Switch II region; other site 504728003326 G4 box; other site 504728003327 G5 box; other site 504728003328 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 504728003329 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 504728003330 Antibiotic Binding Site [chemical binding]; other site 504728003331 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 504728003332 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 504728003333 Beta-Casp domain; Region: Beta-Casp; smart01027 504728003334 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 504728003335 multifunctional aminopeptidase A; Provisional; Region: PRK00913 504728003336 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 504728003337 interface (dimer of trimers) [polypeptide binding]; other site 504728003338 Substrate-binding/catalytic site; other site 504728003339 Zn-binding sites [ion binding]; other site 504728003340 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 504728003341 metal binding site 2 [ion binding]; metal-binding site 504728003342 putative DNA binding helix; other site 504728003343 metal binding site 1 [ion binding]; metal-binding site 504728003344 dimer interface [polypeptide binding]; other site 504728003345 structural Zn2+ binding site [ion binding]; other site 504728003346 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 504728003347 metal binding sites [ion binding]; metal-binding site 504728003348 dimer interface [polypeptide binding]; other site 504728003349 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 504728003350 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 504728003351 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 504728003352 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 504728003353 active site 504728003354 dimer interface [polypeptide binding]; other site 504728003355 motif 1; other site 504728003356 motif 2; other site 504728003357 motif 3; other site 504728003358 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 504728003359 anticodon binding site; other site 504728003360 H+ Antiporter protein; Region: 2A0121; TIGR00900 504728003361 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 504728003362 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 504728003363 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728003364 putative substrate translocation pore; other site 504728003365 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 504728003366 catalytic core [active] 504728003367 exopolyphosphatase; Region: exo_poly_only; TIGR03706 504728003368 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 504728003369 polyphosphate kinase; Provisional; Region: PRK05443 504728003370 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 504728003371 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 504728003372 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 504728003373 putative active site [active] 504728003374 catalytic site [active] 504728003375 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 504728003376 putative active site [active] 504728003377 catalytic site [active] 504728003378 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728003379 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 504728003380 Walker A/P-loop; other site 504728003381 ATP binding site [chemical binding]; other site 504728003382 Q-loop/lid; other site 504728003383 ABC transporter signature motif; other site 504728003384 Walker B; other site 504728003385 D-loop; other site 504728003386 H-loop/switch region; other site 504728003387 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 504728003388 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 504728003389 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 504728003390 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 504728003391 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 504728003392 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 504728003393 active site 504728003394 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 504728003395 GTP-binding protein YchF; Reviewed; Region: PRK09601 504728003396 YchF GTPase; Region: YchF; cd01900 504728003397 G1 box; other site 504728003398 GTP/Mg2+ binding site [chemical binding]; other site 504728003399 Switch I region; other site 504728003400 G2 box; other site 504728003401 Switch II region; other site 504728003402 G3 box; other site 504728003403 G4 box; other site 504728003404 G5 box; other site 504728003405 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 504728003406 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 504728003407 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 504728003408 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 504728003409 conserved cys residue [active] 504728003410 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 504728003411 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 504728003412 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 504728003413 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 504728003414 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 504728003415 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 504728003416 Domain interface; other site 504728003417 Peptide binding site; other site 504728003418 Active site tetrad [active] 504728003419 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 504728003420 active site 504728003421 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 504728003422 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 504728003423 active site 504728003424 Zn binding site [ion binding]; other site 504728003425 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 504728003426 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 504728003427 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 504728003428 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 504728003429 substrate binding site [chemical binding]; other site 504728003430 oxyanion hole (OAH) forming residues; other site 504728003431 trimer interface [polypeptide binding]; other site 504728003432 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 504728003433 translation initiation factor IF-3; Region: infC; TIGR00168 504728003434 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 504728003435 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 504728003436 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 504728003437 Part of AAA domain; Region: AAA_19; pfam13245 504728003438 Family description; Region: UvrD_C_2; pfam13538 504728003439 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 504728003440 Protein of unknown function DUF58; Region: DUF58; pfam01882 504728003441 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504728003442 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 504728003443 putative ADP-binding pocket [chemical binding]; other site 504728003444 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 504728003445 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 504728003446 NodB motif; other site 504728003447 putative active site [active] 504728003448 putative catalytic site [active] 504728003449 putative Zn binding site [ion binding]; other site 504728003450 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 504728003451 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 504728003452 active site 504728003453 aconitate hydratase; Validated; Region: PRK09277 504728003454 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 504728003455 substrate binding site [chemical binding]; other site 504728003456 ligand binding site [chemical binding]; other site 504728003457 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 504728003458 substrate binding site [chemical binding]; other site 504728003459 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 504728003460 HTH domain; Region: HTH_11; pfam08279 504728003461 WYL domain; Region: WYL; pfam13280 504728003462 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 504728003463 TROVE domain; Region: TROVE; pfam05731 504728003464 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 504728003465 VWA subgroup: 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_subgroup; cd01465 504728003466 metal ion-dependent adhesion site (MIDAS); other site 504728003467 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728003468 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 504728003469 ATP binding site [chemical binding]; other site 504728003470 putative Mg++ binding site [ion binding]; other site 504728003471 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 504728003472 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 504728003473 nucleotide binding region [chemical binding]; other site 504728003474 ATP-binding site [chemical binding]; other site 504728003475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 504728003476 Protein of unknown function (DUF433); Region: DUF433; pfam04255 504728003477 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 504728003478 Protein of unknown function DUF86; Region: DUF86; cl01031 504728003479 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728003480 active site 504728003481 NTP binding site [chemical binding]; other site 504728003482 metal binding triad [ion binding]; metal-binding site 504728003483 antibiotic binding site [chemical binding]; other site 504728003484 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 504728003485 metal ion-dependent adhesion site (MIDAS); other site 504728003486 Tubulin like; Region: Tubulin_2; pfam13809 504728003487 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 504728003488 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 504728003489 Family description; Region: UvrD_C_2; pfam13538 504728003490 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728003491 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 504728003492 AAA domain; Region: AAA_30; pfam13604 504728003493 Family description; Region: UvrD_C_2; pfam13538 504728003494 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 504728003495 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 504728003496 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 504728003497 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 504728003498 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504728003499 Walker A motif; other site 504728003500 ATP binding site [chemical binding]; other site 504728003501 Walker B motif; other site 504728003502 arginine finger; other site 504728003503 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 504728003504 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 504728003505 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 504728003506 dimerization interface [polypeptide binding]; other site 504728003507 active site 504728003508 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 504728003509 Lumazine binding domain; Region: Lum_binding; pfam00677 504728003510 Lumazine binding domain; Region: Lum_binding; pfam00677 504728003511 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 504728003512 catalytic motif [active] 504728003513 Zn binding site [ion binding]; other site 504728003514 RibD C-terminal domain; Region: RibD_C; cl17279 504728003515 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 504728003516 homopentamer interface [polypeptide binding]; other site 504728003517 active site 504728003518 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 504728003519 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 504728003520 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728003521 active site 504728003522 metal binding site [ion binding]; metal-binding site 504728003523 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 504728003524 PAS domain; Region: PAS_9; pfam13426 504728003525 putative active site [active] 504728003526 heme pocket [chemical binding]; other site 504728003527 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 504728003528 PAS domain; Region: PAS_9; pfam13426 504728003529 putative active site [active] 504728003530 heme pocket [chemical binding]; other site 504728003531 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 504728003532 PAS domain; Region: PAS_9; pfam13426 504728003533 putative active site [active] 504728003534 heme pocket [chemical binding]; other site 504728003535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728003536 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 504728003537 dimer interface [polypeptide binding]; other site 504728003538 phosphorylation site [posttranslational modification] 504728003539 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 504728003540 ATP binding site [chemical binding]; other site 504728003541 G-X-G motif; other site 504728003542 Response regulator receiver domain; Region: Response_reg; pfam00072 504728003543 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 504728003544 active site 504728003545 phosphorylation site [posttranslational modification] 504728003546 intermolecular recognition site; other site 504728003547 dimerization interface [polypeptide binding]; other site 504728003548 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 504728003549 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728003550 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 504728003551 active site 504728003552 phosphorylation site [posttranslational modification] 504728003553 intermolecular recognition site; other site 504728003554 dimerization interface [polypeptide binding]; other site 504728003555 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 504728003556 DNA binding residues [nucleotide binding] 504728003557 dimerization interface [polypeptide binding]; other site 504728003558 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 504728003559 Histidine kinase; Region: HisKA_3; pfam07730 504728003560 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 504728003561 ATP binding site [chemical binding]; other site 504728003562 Mg2+ binding site [ion binding]; other site 504728003563 G-X-G motif; other site 504728003564 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 504728003565 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728003566 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728003567 Walker A/P-loop; other site 504728003568 ATP binding site [chemical binding]; other site 504728003569 Q-loop/lid; other site 504728003570 ABC transporter signature motif; other site 504728003571 Walker B; other site 504728003572 D-loop; other site 504728003573 H-loop/switch region; other site 504728003574 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 504728003575 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 504728003576 putative substrate binding site [chemical binding]; other site 504728003577 putative ATP binding site [chemical binding]; other site 504728003578 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 504728003579 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728003580 nucleotide binding site [chemical binding]; other site 504728003581 D-allose kinase; Provisional; Region: PRK09698 504728003582 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 504728003583 nucleotide binding site [chemical binding]; other site 504728003584 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 504728003585 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728003586 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728003587 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 504728003588 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 504728003589 putative ligand binding site [chemical binding]; other site 504728003590 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 504728003591 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728003592 TM-ABC transporter signature motif; other site 504728003593 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728003594 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728003595 Walker A/P-loop; other site 504728003596 ATP binding site [chemical binding]; other site 504728003597 Q-loop/lid; other site 504728003598 ABC transporter signature motif; other site 504728003599 Walker B; other site 504728003600 D-loop; other site 504728003601 H-loop/switch region; other site 504728003602 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 504728003603 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 504728003604 active site 504728003605 ADP/pyrophosphate binding site [chemical binding]; other site 504728003606 dimerization interface [polypeptide binding]; other site 504728003607 allosteric effector site; other site 504728003608 fructose-1,6-bisphosphate binding site; other site 504728003609 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 504728003610 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 504728003611 intersubunit interface [polypeptide binding]; other site 504728003612 active site 504728003613 zinc binding site [ion binding]; other site 504728003614 Na+ binding site [ion binding]; other site 504728003615 Class I aldolases; Region: Aldolase_Class_I; cl17187 504728003616 catalytic residue [active] 504728003617 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 504728003618 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728003619 substrate binding site [chemical binding]; other site 504728003620 ATP binding site [chemical binding]; other site 504728003621 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 504728003622 putative hydrolase; Provisional; Region: PRK11460 504728003623 Predicted esterase [General function prediction only]; Region: COG0400 504728003624 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 504728003625 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728003626 Zn binding site [ion binding]; other site 504728003627 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 504728003628 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728003629 Zn binding site [ion binding]; other site 504728003630 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 504728003631 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 504728003632 Walker A/P-loop; other site 504728003633 ATP binding site [chemical binding]; other site 504728003634 Q-loop/lid; other site 504728003635 ABC transporter signature motif; other site 504728003636 Walker B; other site 504728003637 D-loop; other site 504728003638 H-loop/switch region; other site 504728003639 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 504728003640 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 504728003641 dimer interface [polypeptide binding]; other site 504728003642 conserved gate region; other site 504728003643 putative PBP binding loops; other site 504728003644 ABC-ATPase subunit interface; other site 504728003645 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 504728003646 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 504728003647 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 504728003648 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 504728003649 metal ion-dependent adhesion site (MIDAS); other site 504728003650 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 504728003651 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728003652 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728003653 active site 504728003654 catalytic residues [active] 504728003655 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 504728003656 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 504728003657 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 504728003658 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 504728003659 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 504728003660 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 504728003661 Prephenate dehydratase; Region: PDT; pfam00800 504728003662 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 504728003663 putative L-Phe binding site [chemical binding]; other site 504728003664 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 504728003665 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 504728003666 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 504728003667 active site 504728003668 catalytic site [active] 504728003669 substrate binding site [chemical binding]; other site 504728003670 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 504728003671 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 504728003672 ligand binding site [chemical binding]; other site 504728003673 flexible hinge region; other site 504728003674 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 504728003675 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 504728003676 metal binding triad; other site 504728003677 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 504728003678 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 504728003679 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 504728003680 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 504728003681 Na binding site [ion binding]; other site 504728003682 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 504728003683 acetyl-CoA synthetase; Provisional; Region: PRK00174 504728003684 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728003685 acyl-activating enzyme (AAE) consensus motif; other site 504728003686 AMP binding site [chemical binding]; other site 504728003687 active site 504728003688 CoA binding site [chemical binding]; other site 504728003689 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504728003690 Bacterial transcriptional regulator; Region: IclR; pfam01614 504728003691 acetyl-CoA synthetase; Provisional; Region: PRK00174 504728003692 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728003693 acyl-activating enzyme (AAE) consensus motif; other site 504728003694 AMP binding site [chemical binding]; other site 504728003695 active site 504728003696 CoA binding site [chemical binding]; other site 504728003697 acetyl-CoA synthetase; Provisional; Region: PRK00174 504728003698 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 504728003699 active site 504728003700 CoA binding site [chemical binding]; other site 504728003701 acyl-activating enzyme (AAE) consensus motif; other site 504728003702 AMP binding site [chemical binding]; other site 504728003703 acetate binding site [chemical binding]; other site 504728003704 peptide chain release factor 2; Validated; Region: prfB; PRK00578 504728003705 PCRF domain; Region: PCRF; pfam03462 504728003706 RF-1 domain; Region: RF-1; pfam00472 504728003707 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 504728003708 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 504728003709 hinge; other site 504728003710 active site 504728003711 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 504728003712 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 504728003713 S-adenosylmethionine binding site [chemical binding]; other site 504728003714 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 504728003715 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14662 504728003716 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 504728003717 active site 504728003718 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 504728003719 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 504728003720 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 504728003721 NodB motif; other site 504728003722 putative active site [active] 504728003723 putative catalytic site [active] 504728003724 putative Zn binding site [ion binding]; other site 504728003725 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 504728003726 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 504728003727 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 504728003728 MoxR-like ATPases [General function prediction only]; Region: COG0714 504728003729 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 504728003730 Walker A motif; other site 504728003731 ATP binding site [chemical binding]; other site 504728003732 Walker B motif; other site 504728003733 arginine finger; other site 504728003734 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 504728003735 Protein of unknown function DUF58; Region: DUF58; pfam01882 504728003736 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728003737 metal ion-dependent adhesion site (MIDAS); other site 504728003738 Aerotolerance regulator N-terminal; Region: BatA; cl06567 504728003739 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728003740 metal ion-dependent adhesion site (MIDAS); other site 504728003741 metal ion-dependent adhesion site (MIDAS); other site 504728003742 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728003743 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 504728003744 metal ion-dependent adhesion site (MIDAS); other site 504728003745 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 504728003746 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 504728003747 active site 2 [active] 504728003748 active site 1 [active] 504728003749 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728003750 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 504728003751 acyl-activating enzyme (AAE) consensus motif; other site 504728003752 AMP binding site [chemical binding]; other site 504728003753 active site 504728003754 CoA binding site [chemical binding]; other site 504728003755 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 504728003756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728003757 NAD(P) binding site [chemical binding]; other site 504728003758 active site 504728003759 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 504728003760 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 504728003761 dimer interface [polypeptide binding]; other site 504728003762 active site 504728003763 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 504728003764 CoenzymeA binding site [chemical binding]; other site 504728003765 subunit interaction site [polypeptide binding]; other site 504728003766 PHB binding site; other site 504728003767 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728003768 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728003769 Walker A/P-loop; other site 504728003770 ATP binding site [chemical binding]; other site 504728003771 Q-loop/lid; other site 504728003772 ABC transporter signature motif; other site 504728003773 Walker B; other site 504728003774 D-loop; other site 504728003775 H-loop/switch region; other site 504728003776 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728003777 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 504728003778 TM-ABC transporter signature motif; other site 504728003779 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728003780 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728003781 Walker A/P-loop; other site 504728003782 ATP binding site [chemical binding]; other site 504728003783 Q-loop/lid; other site 504728003784 ABC transporter signature motif; other site 504728003785 Walker B; other site 504728003786 D-loop; other site 504728003787 H-loop/switch region; other site 504728003788 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 504728003789 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728003790 TM-ABC transporter signature motif; other site 504728003791 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 504728003792 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 504728003793 putative ligand binding site [chemical binding]; other site 504728003794 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 504728003795 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 504728003796 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504728003797 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504728003798 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 504728003799 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 504728003800 active site 504728003801 metal binding site [ion binding]; metal-binding site 504728003802 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 504728003803 tetramer interface [polypeptide binding]; other site 504728003804 active site 504728003805 metal binding site [ion binding]; metal-binding site 504728003806 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 504728003807 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 504728003808 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 504728003809 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 504728003810 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 504728003811 NAD binding site [chemical binding]; other site 504728003812 catalytic residues [active] 504728003813 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 504728003814 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504728003815 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 504728003816 dihydrodipicolinate synthase; Region: dapA; TIGR00674 504728003817 dimer interface [polypeptide binding]; other site 504728003818 active site 504728003819 catalytic residue [active] 504728003820 MarR family; Region: MarR_2; cl17246 504728003821 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 504728003822 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 504728003823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728003824 Coenzyme A binding pocket [chemical binding]; other site 504728003825 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 504728003826 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728003827 Walker A/P-loop; other site 504728003828 ATP binding site [chemical binding]; other site 504728003829 Q-loop/lid; other site 504728003830 ABC transporter signature motif; other site 504728003831 Walker B; other site 504728003832 H-loop/switch region; other site 504728003833 ABC transporter; Region: ABC_tran_2; pfam12848 504728003834 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504728003835 Fe-S metabolism associated domain; Region: SufE; cl00951 504728003836 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 504728003837 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 504728003838 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504728003839 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 504728003840 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 504728003841 DNA binding residues [nucleotide binding] 504728003842 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 504728003843 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 504728003844 S-adenosylmethionine binding site [chemical binding]; other site 504728003845 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 504728003846 Glycoprotease family; Region: Peptidase_M22; pfam00814 504728003847 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 504728003848 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 504728003849 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728003850 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 504728003851 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 504728003852 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 504728003853 catalytic triad [active] 504728003854 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 504728003855 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728003856 active site 504728003857 dimer interface [polypeptide binding]; other site 504728003858 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 504728003859 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 504728003860 active site 504728003861 HIGH motif; other site 504728003862 KMSKS motif; other site 504728003863 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 504728003864 tRNA binding surface [nucleotide binding]; other site 504728003865 anticodon binding site; other site 504728003866 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 504728003867 dimer interface [polypeptide binding]; other site 504728003868 putative tRNA-binding site [nucleotide binding]; other site 504728003869 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 504728003870 homotrimer interaction site [polypeptide binding]; other site 504728003871 active site 504728003872 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 504728003873 thymidine kinase; Provisional; Region: PRK04296 504728003874 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504728003875 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 504728003876 putative dimer interface [polypeptide binding]; other site 504728003877 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 504728003878 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 504728003879 endonuclease IV; Provisional; Region: PRK01060 504728003880 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 504728003881 AP (apurinic/apyrimidinic) site pocket; other site 504728003882 DNA interaction; other site 504728003883 Metal-binding active site; metal-binding site 504728003884 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 504728003885 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728003886 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 504728003887 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 504728003888 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 504728003889 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 504728003890 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 504728003891 active site 504728003892 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 504728003893 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728003894 active site 504728003895 HIGH motif; other site 504728003896 nucleotide binding site [chemical binding]; other site 504728003897 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 504728003898 active site 504728003899 KMSKS motif; other site 504728003900 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 504728003901 tRNA binding surface [nucleotide binding]; other site 504728003902 anticodon binding site; other site 504728003903 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 504728003904 active site 504728003905 intersubunit interactions; other site 504728003906 catalytic residue [active] 504728003907 transcription termination factor Rho; Provisional; Region: rho; PRK09376 504728003908 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 504728003909 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 504728003910 RNA binding site [nucleotide binding]; other site 504728003911 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 504728003912 Walker A motif; other site 504728003913 ATP binding site [chemical binding]; other site 504728003914 Walker B motif; other site 504728003915 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728003916 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728003917 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728003918 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728003919 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728003920 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 504728003921 active site 504728003922 putative substrate binding region [chemical binding]; other site 504728003923 Peptidase family M50; Region: Peptidase_M50; pfam02163 504728003924 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 504728003925 active site 504728003926 putative substrate binding region [chemical binding]; other site 504728003927 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 504728003928 CoA binding domain; Region: CoA_binding; pfam02629 504728003929 CoA-ligase; Region: Ligase_CoA; pfam00549 504728003930 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 504728003931 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 504728003932 CoA-ligase; Region: Ligase_CoA; pfam00549 504728003933 G8 domain; Region: G8; pfam10162 504728003934 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 504728003935 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 504728003936 S-adenosylmethionine binding site [chemical binding]; other site 504728003937 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 504728003938 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 504728003939 active site 504728003940 (T/H)XGH motif; other site 504728003941 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 504728003942 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 504728003943 NAD(P) binding site [chemical binding]; other site 504728003944 catalytic residues [active] 504728003945 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 504728003946 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 504728003947 metal ion-dependent adhesion site (MIDAS); other site 504728003948 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504728003949 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 504728003950 Walker A motif; other site 504728003951 ATP binding site [chemical binding]; other site 504728003952 Walker B motif; other site 504728003953 arginine finger; other site 504728003954 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 504728003955 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504728003956 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504728003957 YHS domain; Region: YHS; pfam04945 504728003958 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 504728003959 putative hydrophobic ligand binding site [chemical binding]; other site 504728003960 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 504728003961 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504728003962 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504728003963 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 504728003964 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 504728003965 catalytic loop [active] 504728003966 iron binding site [ion binding]; other site 504728003967 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504728003968 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 504728003969 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 504728003970 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 504728003971 Ligand binding site; other site 504728003972 metal-binding site 504728003973 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 504728003974 binding surface 504728003975 TPR motif; other site 504728003976 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003977 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003978 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 504728003979 binding surface 504728003980 TPR motif; other site 504728003981 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003982 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 504728003983 TPR motif; other site 504728003984 binding surface 504728003985 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003986 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003987 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728003988 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728003989 Zn2+ binding site [ion binding]; other site 504728003990 Mg2+ binding site [ion binding]; other site 504728003991 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 504728003992 putative metal binding residues [ion binding]; other site 504728003993 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728003994 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728003995 metal binding site [ion binding]; metal-binding site 504728003996 active site 504728003997 I-site; other site 504728003998 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504728003999 hydroxyglutarate oxidase; Provisional; Region: PRK11728 504728004000 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 504728004001 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 504728004002 23S rRNA binding site [nucleotide binding]; other site 504728004003 L21 binding site [polypeptide binding]; other site 504728004004 L13 binding site [polypeptide binding]; other site 504728004005 allantoate amidohydrolase; Reviewed; Region: PRK09290 504728004006 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 504728004007 active site 504728004008 metal binding site [ion binding]; metal-binding site 504728004009 dimer interface [polypeptide binding]; other site 504728004010 hypothetical protein; Provisional; Region: PRK11171 504728004011 Cupin domain; Region: Cupin_2; pfam07883 504728004012 Cupin domain; Region: Cupin_2; cl17218 504728004013 allantoinase; Provisional; Region: PRK06189 504728004014 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 504728004015 active site 504728004016 allantoate amidohydrolase; Reviewed; Region: PRK09290 504728004017 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 504728004018 active site 504728004019 metal binding site [ion binding]; metal-binding site 504728004020 dimer interface [polypeptide binding]; other site 504728004021 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 504728004022 active site 504728004023 homotetramer interface [polypeptide binding]; other site 504728004024 Predicted membrane protein [Function unknown]; Region: COG3748 504728004025 Protein of unknown function (DUF989); Region: DUF989; pfam06181 504728004026 Cytochrome c; Region: Cytochrom_C; pfam00034 504728004027 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 504728004028 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504728004029 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 504728004030 ABC-ATPase subunit interface; other site 504728004031 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504728004032 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504728004033 Walker A/P-loop; other site 504728004034 ATP binding site [chemical binding]; other site 504728004035 Q-loop/lid; other site 504728004036 ABC transporter signature motif; other site 504728004037 Walker B; other site 504728004038 D-loop; other site 504728004039 H-loop/switch region; other site 504728004040 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 504728004041 NMT1/THI5 like; Region: NMT1; pfam09084 504728004042 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 504728004043 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 504728004044 inhibitor-cofactor binding pocket; inhibition site 504728004045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004046 catalytic residue [active] 504728004047 Glutamyl-tRNA reductase [Coenzyme metabolism]; Region: HemA; COG0373 504728004048 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 504728004049 NAD(P) binding pocket [chemical binding]; other site 504728004050 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 504728004051 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 504728004052 porphobilinogen deaminase; Provisional; Region: PRK01066 504728004053 domain interfaces; other site 504728004054 active site 504728004055 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 504728004056 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 504728004057 active site 504728004058 delta-aminolevulinic acid dehydratase; Validated; Region: PRK09283 504728004059 dimer interface [polypeptide binding]; other site 504728004060 active site 504728004061 Schiff base residues; other site 504728004062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728004063 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 504728004064 dimer interface [polypeptide binding]; other site 504728004065 phosphorylation site [posttranslational modification] 504728004066 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 504728004067 ATP binding site [chemical binding]; other site 504728004068 Mg2+ binding site [ion binding]; other site 504728004069 G-X-G motif; other site 504728004070 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728004071 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 504728004072 active site 504728004073 phosphorylation site [posttranslational modification] 504728004074 intermolecular recognition site; other site 504728004075 dimerization interface [polypeptide binding]; other site 504728004076 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 504728004077 DNA binding site [nucleotide binding] 504728004078 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 504728004079 substrate binding site [chemical binding]; other site 504728004080 active site 504728004081 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 504728004082 ferrochelatase; Reviewed; Region: hemH; PRK00035 504728004083 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 504728004084 C-terminal domain interface [polypeptide binding]; other site 504728004085 active site 504728004086 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 504728004087 active site 504728004088 N-terminal domain interface [polypeptide binding]; other site 504728004089 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 504728004090 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728004091 hydroxyglutarate oxidase; Provisional; Region: PRK11728 504728004092 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 504728004093 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 504728004094 Int/Topo IB signature motif; other site 504728004095 Restriction endonuclease; Region: Mrr_cat; pfam04471 504728004096 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 504728004097 non-specific DNA binding site [nucleotide binding]; other site 504728004098 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 504728004099 salt bridge; other site 504728004100 sequence-specific DNA binding site [nucleotide binding]; other site 504728004101 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 504728004102 Catalytic site [active] 504728004103 Helix-turn-helix domain; Region: HTH_17; pfam12728 504728004104 Predicted membrane protein [Function unknown]; Region: COG5373 504728004105 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728004106 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 504728004107 active site 504728004108 metal binding site [ion binding]; metal-binding site 504728004109 PIN domain; Region: PIN_3; cl17397 504728004110 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 504728004111 Walker A motif; other site 504728004112 ATP binding site [chemical binding]; other site 504728004113 Walker B motif; other site 504728004114 hypothetical protein; Provisional; Region: PHA03410; cl14695 504728004115 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504728004116 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 504728004117 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504728004118 catalytic residue [active] 504728004119 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728004120 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728004121 Zn2+ binding site [ion binding]; other site 504728004122 Mg2+ binding site [ion binding]; other site 504728004123 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 504728004124 Walker A motif; other site 504728004125 ATP binding site [chemical binding]; other site 504728004126 Walker B motif; other site 504728004127 arginine finger; other site 504728004128 CTP synthetase; Validated; Region: pyrG; PRK05380 504728004129 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 504728004130 Catalytic site [active] 504728004131 active site 504728004132 UTP binding site [chemical binding]; other site 504728004133 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 504728004134 active site 504728004135 putative oxyanion hole; other site 504728004136 catalytic triad [active] 504728004137 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728004138 Dodecin; Region: Dodecin; pfam07311 504728004139 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 504728004140 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 504728004141 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504728004142 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 504728004143 putative PBP binding loops; other site 504728004144 dimer interface [polypeptide binding]; other site 504728004145 ABC-ATPase subunit interface; other site 504728004146 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728004147 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 504728004148 dimer interface [polypeptide binding]; other site 504728004149 conserved gate region; other site 504728004150 putative PBP binding loops; other site 504728004151 ABC-ATPase subunit interface; other site 504728004152 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_5; cd08511 504728004153 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 504728004154 Transcriptional regulators [Transcription]; Region: FadR; COG2186 504728004155 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728004156 DNA-binding site [nucleotide binding]; DNA binding site 504728004157 FCD domain; Region: FCD; pfam07729 504728004158 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 504728004159 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728004160 putative active site [active] 504728004161 metal binding site [ion binding]; metal-binding site 504728004162 homodimer binding site [polypeptide binding]; other site 504728004163 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 504728004164 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 504728004165 catalytic residues [active] 504728004166 RDD family; Region: RDD; pfam06271 504728004167 Uncharacterized conserved protein [Function unknown]; Region: COG2127 504728004168 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 504728004169 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 504728004170 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 504728004171 Walker A motif; other site 504728004172 ATP binding site [chemical binding]; other site 504728004173 Walker B motif; other site 504728004174 arginine finger; other site 504728004175 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 504728004176 Walker A motif; other site 504728004177 ATP binding site [chemical binding]; other site 504728004178 Walker B motif; other site 504728004179 arginine finger; other site 504728004180 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 504728004181 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 504728004182 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504728004183 FAD binding domain; Region: FAD_binding_4; pfam01565 504728004184 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 504728004185 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 504728004186 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504728004187 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504728004188 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 504728004189 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504728004190 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 504728004191 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504728004192 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 504728004193 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728004194 Walker A/P-loop; other site 504728004195 ATP binding site [chemical binding]; other site 504728004196 Q-loop/lid; other site 504728004197 ABC transporter signature motif; other site 504728004198 Walker B; other site 504728004199 D-loop; other site 504728004200 H-loop/switch region; other site 504728004201 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 504728004202 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 504728004203 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728004204 TM-ABC transporter signature motif; other site 504728004205 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 504728004206 TM-ABC transporter signature motif; other site 504728004207 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 504728004208 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 504728004209 putative ligand binding site [chemical binding]; other site 504728004210 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 504728004211 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 504728004212 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 504728004213 active site 504728004214 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 504728004215 guanine deaminase; Provisional; Region: PRK09228 504728004216 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 504728004217 active site 504728004218 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 504728004219 nudix motif; other site 504728004220 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 504728004221 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 504728004222 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 504728004223 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504728004224 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 504728004225 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 504728004226 substrate binding site [chemical binding]; other site 504728004227 oxyanion hole (OAH) forming residues; other site 504728004228 trimer interface [polypeptide binding]; other site 504728004229 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 504728004230 TPR motif; other site 504728004231 binding surface 504728004232 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 504728004233 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728004234 catalytic residues [active] 504728004235 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 504728004236 metal binding site 2 [ion binding]; metal-binding site 504728004237 putative DNA binding helix; other site 504728004238 metal binding site 1 [ion binding]; metal-binding site 504728004239 dimer interface [polypeptide binding]; other site 504728004240 structural Zn2+ binding site [ion binding]; other site 504728004241 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 504728004242 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 504728004243 intersubunit interface [polypeptide binding]; other site 504728004244 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728004245 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 504728004246 active site 504728004247 metal binding site [ion binding]; metal-binding site 504728004248 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 504728004249 YibE/F-like protein; Region: YibE_F; pfam07907 504728004250 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 504728004251 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 504728004252 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 504728004253 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cd09742 504728004254 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 504728004255 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 504728004256 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 504728004257 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 504728004258 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 504728004259 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 504728004260 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 504728004261 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 504728004262 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 504728004263 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 504728004264 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 504728004265 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 504728004266 WYL domain; Region: WYL; pfam13280 504728004267 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 504728004268 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 504728004269 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 504728004270 TPR motif; other site 504728004271 binding surface 504728004272 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 504728004273 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 504728004274 dimer interface [polypeptide binding]; other site 504728004275 putative anticodon binding site; other site 504728004276 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 504728004277 motif 1; other site 504728004278 active site 504728004279 motif 2; other site 504728004280 motif 3; other site 504728004281 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 504728004282 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 504728004283 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 504728004284 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 504728004285 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 504728004286 Outer membrane efflux protein; Region: OEP; pfam02321 504728004287 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 504728004288 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504728004289 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504728004290 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 504728004291 putative membrane fusion protein; Region: TIGR02828 504728004292 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 504728004293 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 504728004294 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504728004295 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 504728004296 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 504728004297 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 504728004298 active site 504728004299 catalytic site [active] 504728004300 substrate binding site [chemical binding]; other site 504728004301 isocitrate dehydrogenase; Validated; Region: PRK07362 504728004302 isocitrate dehydrogenase; Reviewed; Region: PRK07006 504728004303 CAAX protease self-immunity; Region: Abi; pfam02517 504728004304 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 504728004305 AsnC family; Region: AsnC_trans_reg; pfam01037 504728004306 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728004307 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728004308 active site 504728004309 metal binding site [ion binding]; metal-binding site 504728004310 recombination regulator RecX; Reviewed; Region: recX; PRK00117 504728004311 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 504728004312 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 504728004313 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 504728004314 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 504728004315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004316 catalytic residue [active] 504728004317 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 504728004318 substrate binding site [chemical binding]; other site 504728004319 active site 504728004320 catalytic residues [active] 504728004321 heterodimer interface [polypeptide binding]; other site 504728004322 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 504728004323 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728004324 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 504728004325 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 504728004326 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 504728004327 substrate binding site [chemical binding]; other site 504728004328 dimer interface [polypeptide binding]; other site 504728004329 NADP binding site [chemical binding]; other site 504728004330 catalytic residues [active] 504728004331 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 504728004332 substrate binding site [chemical binding]; other site 504728004333 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 504728004334 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 504728004335 alpha subunit interface [polypeptide binding]; other site 504728004336 TPP binding site [chemical binding]; other site 504728004337 heterodimer interface [polypeptide binding]; other site 504728004338 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504728004339 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 504728004340 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 504728004341 TPP-binding site [chemical binding]; other site 504728004342 tetramer interface [polypeptide binding]; other site 504728004343 heterodimer interface [polypeptide binding]; other site 504728004344 phosphorylation loop region [posttranslational modification] 504728004345 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 504728004346 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 504728004347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004348 homodimer interface [polypeptide binding]; other site 504728004349 catalytic residue [active] 504728004350 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 504728004351 triosephosphate isomerase; Provisional; Region: PRK14567 504728004352 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 504728004353 substrate binding site [chemical binding]; other site 504728004354 dimer interface [polypeptide binding]; other site 504728004355 catalytic triad [active] 504728004356 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 504728004357 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 504728004358 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 504728004359 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 504728004360 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 504728004361 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 504728004362 calcium binding site 2 [ion binding]; other site 504728004363 active site 504728004364 catalytic triad [active] 504728004365 calcium binding site 1 [ion binding]; other site 504728004366 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 504728004367 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 504728004368 metal ion-dependent adhesion site (MIDAS); other site 504728004369 MoxR-like ATPases [General function prediction only]; Region: COG0714 504728004370 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 504728004371 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 504728004372 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 504728004373 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504728004374 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504728004375 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 504728004376 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 504728004377 catalytic loop [active] 504728004378 iron binding site [ion binding]; other site 504728004379 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504728004380 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 504728004381 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504728004382 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504728004383 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 504728004384 intersubunit interface [polypeptide binding]; other site 504728004385 active site 504728004386 Zn2+ binding site [ion binding]; other site 504728004387 short chain dehydrogenase; Provisional; Region: PRK09072 504728004388 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504728004389 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 504728004390 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728004391 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504728004392 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 504728004393 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 504728004394 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 504728004395 E3 interaction surface; other site 504728004396 lipoyl attachment site [posttranslational modification]; other site 504728004397 e3 binding domain; Region: E3_binding; pfam02817 504728004398 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 504728004399 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 504728004400 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 504728004401 TPP-binding site [chemical binding]; other site 504728004402 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 504728004403 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 504728004404 aromatic arch; other site 504728004405 DCoH dimer interaction site [polypeptide binding]; other site 504728004406 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 504728004407 DCoH tetramer interaction site [polypeptide binding]; other site 504728004408 substrate binding site [chemical binding]; other site 504728004409 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 504728004410 23S rRNA interface [nucleotide binding]; other site 504728004411 L3 interface [polypeptide binding]; other site 504728004412 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 504728004413 DinB superfamily; Region: DinB_2; pfam12867 504728004414 DinB family; Region: DinB; cl17821 504728004415 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728004416 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 504728004417 active site 504728004418 phosphorylation site [posttranslational modification] 504728004419 intermolecular recognition site; other site 504728004420 dimerization interface [polypeptide binding]; other site 504728004421 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 504728004422 DNA binding site [nucleotide binding] 504728004423 PAS domain; Region: PAS; smart00091 504728004424 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 504728004425 dimer interface [polypeptide binding]; other site 504728004426 phosphorylation site [posttranslational modification] 504728004427 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 504728004428 Mg2+ binding site [ion binding]; other site 504728004429 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 504728004430 PhoU domain; Region: PhoU; pfam01895 504728004431 PhoU domain; Region: PhoU; pfam01895 504728004432 elongation factor P; Validated; Region: PRK00529 504728004433 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 504728004434 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 504728004435 RNA binding site [nucleotide binding]; other site 504728004436 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 504728004437 RNA binding site [nucleotide binding]; other site 504728004438 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 504728004439 carboxyltransferase (CT) interaction site; other site 504728004440 biotinylation site [posttranslational modification]; other site 504728004441 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 504728004442 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 504728004443 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 504728004444 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 504728004445 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 504728004446 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 504728004447 active site 504728004448 multimer interface [polypeptide binding]; other site 504728004449 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 504728004450 imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; Region: IMP_synth_hisH; TIGR01855 504728004451 predicted active site [active] 504728004452 catalytic triad [active] 504728004453 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 504728004454 SmpB-tmRNA interface; other site 504728004455 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 504728004456 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 504728004457 active site 504728004458 metal binding site [ion binding]; metal-binding site 504728004459 Sporulation and spore germination; Region: Germane; pfam10646 504728004460 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 504728004461 AAA domain; Region: AAA_23; pfam13476 504728004462 Walker A/P-loop; other site 504728004463 ATP binding site [chemical binding]; other site 504728004464 Q-loop/lid; other site 504728004465 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 504728004466 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 504728004467 ABC transporter signature motif; other site 504728004468 Walker B; other site 504728004469 D-loop; other site 504728004470 H-loop/switch region; other site 504728004471 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 504728004472 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 504728004473 active site 504728004474 Predicted membrane protein [Function unknown]; Region: COG3431 504728004475 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 504728004476 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 504728004477 active site 504728004478 DNA binding site [nucleotide binding] 504728004479 Int/Topo IB signature motif; other site 504728004480 S-layer homology domain; Region: SLH; pfam00395 504728004481 S-layer homology domain; Region: SLH; pfam00395 504728004482 S-layer homology domain; Region: SLH; pfam00395 504728004483 GAF domain; Region: GAF; cl17456 504728004484 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728004485 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728004486 metal binding site [ion binding]; metal-binding site 504728004487 active site 504728004488 I-site; other site 504728004489 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 504728004490 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 504728004491 dimer interface [polypeptide binding]; other site 504728004492 motif 1; other site 504728004493 active site 504728004494 motif 2; other site 504728004495 motif 3; other site 504728004496 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 504728004497 anticodon binding site; other site 504728004498 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 504728004499 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 504728004500 dimer interface [polypeptide binding]; other site 504728004501 anticodon binding site; other site 504728004502 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 504728004503 homodimer interface [polypeptide binding]; other site 504728004504 motif 1; other site 504728004505 active site 504728004506 motif 2; other site 504728004507 GAD domain; Region: GAD; pfam02938 504728004508 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 504728004509 motif 3; other site 504728004510 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 504728004511 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 504728004512 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 504728004513 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 504728004514 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 504728004515 active site 504728004516 motif I; other site 504728004517 motif II; other site 504728004518 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 504728004519 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 504728004520 spermidine synthase; Provisional; Region: PRK00811 504728004521 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 504728004522 S-adenosylmethionine binding site [chemical binding]; other site 504728004523 Thioredoxin; Region: Thioredoxin_4; pfam13462 504728004524 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 504728004525 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 504728004526 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 504728004527 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 504728004528 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 504728004529 Walker A motif; other site 504728004530 ATP binding site [chemical binding]; other site 504728004531 Walker B motif; other site 504728004532 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 504728004533 Clp protease; Region: CLP_protease; pfam00574 504728004534 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 504728004535 oligomer interface [polypeptide binding]; other site 504728004536 active site residues [active] 504728004537 trigger factor; Region: tig; TIGR00115 504728004538 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 504728004539 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 504728004540 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728004541 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728004542 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728004543 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 504728004544 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 504728004545 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504728004546 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504728004547 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 504728004548 B12 binding site [chemical binding]; other site 504728004549 cobalt ligand [ion binding]; other site 504728004550 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 504728004551 hydrophobic ligand binding site; other site 504728004552 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 504728004553 Glucose inhibited division protein A; Region: GIDA; pfam01134 504728004554 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14323 504728004555 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 504728004556 active site 504728004557 substrate binding site [chemical binding]; other site 504728004558 metal binding site [ion binding]; metal-binding site 504728004559 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 504728004560 active site 504728004561 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 504728004562 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 504728004563 inhibitor-cofactor binding pocket; inhibition site 504728004564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004565 catalytic residue [active] 504728004566 ribonuclease R; Region: RNase_R; TIGR02063 504728004567 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 504728004568 RNB domain; Region: RNB; pfam00773 504728004569 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 504728004570 RNA binding site [nucleotide binding]; other site 504728004571 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 504728004572 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 504728004573 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 504728004574 CoA-binding site [chemical binding]; other site 504728004575 ATP-binding [chemical binding]; other site 504728004576 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 504728004577 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728004578 putative binding site residues; other site 504728004579 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 504728004580 active site 504728004581 catalytic residues [active] 504728004582 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 504728004583 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 504728004584 RNA methyltransferase, RsmE family; Region: TIGR00046 504728004585 Predicted permeases [General function prediction only]; Region: COG0679 504728004586 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 504728004587 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 504728004588 metal binding site [ion binding]; metal-binding site 504728004589 dimer interface [polypeptide binding]; other site 504728004590 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 504728004591 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 504728004592 acyl-activating enzyme (AAE) consensus motif; other site 504728004593 putative AMP binding site [chemical binding]; other site 504728004594 putative active site [active] 504728004595 putative CoA binding site [chemical binding]; other site 504728004596 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 504728004597 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 504728004598 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728004599 catalytic residue [active] 504728004600 Transcriptional regulator; Region: Rrf2; cl17282 504728004601 Rrf2 family protein; Region: rrf2_super; TIGR00738 504728004602 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 504728004603 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 504728004604 dimer interface [polypeptide binding]; other site 504728004605 putative PBP binding regions; other site 504728004606 ABC-ATPase subunit interface; other site 504728004607 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 504728004608 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 504728004609 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504728004610 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504728004611 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504728004612 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504728004613 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504728004614 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504728004615 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 504728004616 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 504728004617 Copper resistance protein D; Region: CopD; pfam05425 504728004618 CopC domain; Region: CopC; pfam04234 504728004619 CopC domain; Region: CopC; cl01012 504728004620 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 504728004621 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 504728004622 trimer interface [polypeptide binding]; other site 504728004623 putative metal binding site [ion binding]; other site 504728004624 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 504728004625 active site 504728004626 Ap6A binding site [chemical binding]; other site 504728004627 nudix motif; other site 504728004628 metal binding site [ion binding]; metal-binding site 504728004629 Uncharacterized conserved protein [Function unknown]; Region: COG3342 504728004630 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 504728004631 Putative peptidoglycan binding domain; Region: PG_binding_2; pfam08823 504728004632 Protein of unknown function (DUF456); Region: DUF456; pfam04306 504728004633 Uncharacterized conserved protein [Function unknown]; Region: COG2928 504728004634 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 504728004635 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 504728004636 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 504728004637 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 504728004638 DNA topoisomerase I; Validated; Region: PRK06599 504728004639 active site 504728004640 interdomain interaction site; other site 504728004641 putative metal-binding site [ion binding]; other site 504728004642 nucleotide binding site [chemical binding]; other site 504728004643 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 504728004644 domain I; other site 504728004645 DNA binding groove [nucleotide binding] 504728004646 phosphate binding site [ion binding]; other site 504728004647 domain II; other site 504728004648 domain III; other site 504728004649 nucleotide binding site [chemical binding]; other site 504728004650 catalytic site [active] 504728004651 domain IV; other site 504728004652 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 504728004653 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 504728004654 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 504728004655 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 504728004656 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728004657 active site 504728004658 NTP binding site [chemical binding]; other site 504728004659 metal binding triad [ion binding]; metal-binding site 504728004660 HEPN domain; Region: HEPN; pfam05168 504728004661 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728004662 active site 504728004663 NTP binding site [chemical binding]; other site 504728004664 metal binding triad [ion binding]; metal-binding site 504728004665 antibiotic binding site [chemical binding]; other site 504728004666 HEPN domain; Region: HEPN; pfam05168 504728004667 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 504728004668 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728004669 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 504728004670 ATP binding site [chemical binding]; other site 504728004671 putative Mg++ binding site [ion binding]; other site 504728004672 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 504728004673 nucleotide binding region [chemical binding]; other site 504728004674 ATP-binding site [chemical binding]; other site 504728004675 TRCF domain; Region: TRCF; pfam03461 504728004676 Ribbon-helix-helix domain; Region: RHH_4; cl01775 504728004677 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 504728004678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 504728004679 conserved hypothetical protein; Region: TIGR03492 504728004680 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728004681 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 504728004682 active site 504728004683 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728004684 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 504728004685 fumarate hydratase; Reviewed; Region: fumC; PRK00485 504728004686 Class II fumarases; Region: Fumarase_classII; cd01362 504728004687 active site 504728004688 tetramer interface [polypeptide binding]; other site 504728004689 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 504728004690 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 504728004691 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 504728004692 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 504728004693 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728004694 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 504728004695 active site 504728004696 ribulose/triose binding site [chemical binding]; other site 504728004697 phosphate binding site [ion binding]; other site 504728004698 substrate (anthranilate) binding pocket [chemical binding]; other site 504728004699 product (indole) binding pocket [chemical binding]; other site 504728004700 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 504728004701 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 504728004702 active site 504728004703 nucleophile elbow; other site 504728004704 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 504728004705 DctM-like transporters; Region: DctM; pfam06808 504728004706 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 504728004707 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 504728004708 membrane-bound complex binding site; other site 504728004709 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 504728004710 TRAM domain; Region: TRAM; cl01282 504728004711 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 504728004712 S-adenosylmethionine binding site [chemical binding]; other site 504728004713 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 504728004714 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 504728004715 substrate binding site [chemical binding]; other site 504728004716 glutamase interaction surface [polypeptide binding]; other site 504728004717 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 504728004718 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 504728004719 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 504728004720 metal binding site [ion binding]; metal-binding site 504728004721 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 504728004722 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 504728004723 putative active site [active] 504728004724 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 504728004725 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 504728004726 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 504728004727 Transglycosylase; Region: Transgly; pfam00912 504728004728 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 504728004729 Response regulator receiver domain; Region: Response_reg; pfam00072 504728004730 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 504728004731 active site 504728004732 phosphorylation site [posttranslational modification] 504728004733 intermolecular recognition site; other site 504728004734 dimerization interface [polypeptide binding]; other site 504728004735 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 504728004736 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 504728004737 putative DNA binding site [nucleotide binding]; other site 504728004738 putative Zn2+ binding site [ion binding]; other site 504728004739 AsnC family; Region: AsnC_trans_reg; pfam01037 504728004740 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 504728004741 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 504728004742 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 504728004743 Chorismate mutase type II; Region: CM_2; cl00693 504728004744 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 504728004745 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 504728004746 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 504728004747 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728004748 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 504728004749 TM-ABC transporter signature motif; other site 504728004750 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 504728004751 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728004752 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 504728004753 TM-ABC transporter signature motif; other site 504728004754 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 504728004755 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 504728004756 S-adenosylmethionine binding site [chemical binding]; other site 504728004757 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 504728004758 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 504728004759 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 504728004760 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 504728004761 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 504728004762 dimer interface [polypeptide binding]; other site 504728004763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004764 catalytic residue [active] 504728004765 DNA repair protein RadA; Provisional; Region: PRK11823 504728004766 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 504728004767 Walker A motif; other site 504728004768 ATP binding site [chemical binding]; other site 504728004769 Walker B motif; other site 504728004770 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 504728004771 putative active site [active] 504728004772 TRAM domain; Region: TRAM; cl01282 504728004773 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 504728004774 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 504728004775 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728004776 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_4; cd08500 504728004777 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 504728004778 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 504728004779 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 504728004780 dimer interface [polypeptide binding]; other site 504728004781 conserved gate region; other site 504728004782 putative PBP binding loops; other site 504728004783 ABC-ATPase subunit interface; other site 504728004784 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728004785 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 504728004786 dimer interface [polypeptide binding]; other site 504728004787 conserved gate region; other site 504728004788 putative PBP binding loops; other site 504728004789 ABC-ATPase subunit interface; other site 504728004790 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728004791 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_4; cd08500 504728004792 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 504728004793 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728004794 DNA-binding site [nucleotide binding]; DNA binding site 504728004795 UTRA domain; Region: UTRA; pfam07702 504728004796 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 504728004797 OstA-like protein; Region: OstA; cl00844 504728004798 OstA-like protein; Region: OstA; cl00844 504728004799 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 504728004800 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728004801 Walker A/P-loop; other site 504728004802 ATP binding site [chemical binding]; other site 504728004803 Q-loop/lid; other site 504728004804 ABC transporter signature motif; other site 504728004805 Walker B; other site 504728004806 D-loop; other site 504728004807 H-loop/switch region; other site 504728004808 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 504728004809 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 504728004810 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 504728004811 ligand binding site [chemical binding]; other site 504728004812 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 504728004813 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 504728004814 nucleotide binding pocket [chemical binding]; other site 504728004815 K-X-D-G motif; other site 504728004816 catalytic site [active] 504728004817 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 504728004818 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 504728004819 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 504728004820 Dimer interface [polypeptide binding]; other site 504728004821 BRCT sequence motif; other site 504728004822 hypothetical protein; Validated; Region: PRK06840 504728004823 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 504728004824 active site 504728004825 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 504728004826 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 504728004827 acyl-activating enzyme (AAE) consensus motif; other site 504728004828 putative AMP binding site [chemical binding]; other site 504728004829 putative active site [active] 504728004830 putative CoA binding site [chemical binding]; other site 504728004831 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728004832 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 504728004833 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 504728004834 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 504728004835 dimer interaction site [polypeptide binding]; other site 504728004836 substrate-binding tunnel; other site 504728004837 active site 504728004838 catalytic site [active] 504728004839 substrate binding site [chemical binding]; other site 504728004840 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728004841 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 504728004842 ligand binding site [chemical binding]; other site 504728004843 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 504728004844 TM-ABC transporter signature motif; other site 504728004845 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 504728004846 TM-ABC transporter signature motif; other site 504728004847 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728004848 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728004849 Walker A/P-loop; other site 504728004850 ATP binding site [chemical binding]; other site 504728004851 Q-loop/lid; other site 504728004852 ABC transporter signature motif; other site 504728004853 Walker B; other site 504728004854 D-loop; other site 504728004855 H-loop/switch region; other site 504728004856 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728004857 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728004858 Walker A/P-loop; other site 504728004859 ATP binding site [chemical binding]; other site 504728004860 Q-loop/lid; other site 504728004861 ABC transporter signature motif; other site 504728004862 Walker B; other site 504728004863 D-loop; other site 504728004864 H-loop/switch region; other site 504728004865 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 504728004866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728004867 NAD(P) binding site [chemical binding]; other site 504728004868 active site 504728004869 DNA primase; Validated; Region: dnaG; PRK05667 504728004870 CHC2 zinc finger; Region: zf-CHC2; pfam01807 504728004871 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 504728004872 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 504728004873 active site 504728004874 metal binding site [ion binding]; metal-binding site 504728004875 interdomain interaction site; other site 504728004876 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 504728004877 cyclase homology domain; Region: CHD; cd07302 504728004878 nucleotidyl binding site; other site 504728004879 metal binding site [ion binding]; metal-binding site 504728004880 dimer interface [polypeptide binding]; other site 504728004881 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 504728004882 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504728004883 Walker A motif; other site 504728004884 ATP binding site [chemical binding]; other site 504728004885 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 504728004886 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 504728004887 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 504728004888 Surface antigen; Region: Bac_surface_Ag; pfam01103 504728004889 Family of unknown function (DUF490); Region: DUF490; pfam04357 504728004890 acylphosphatase; Provisional; Region: PRK14433 504728004891 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 504728004892 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 504728004893 HflX GTPase family; Region: HflX; cd01878 504728004894 G1 box; other site 504728004895 GTP/Mg2+ binding site [chemical binding]; other site 504728004896 Switch I region; other site 504728004897 G2 box; other site 504728004898 G3 box; other site 504728004899 Switch II region; other site 504728004900 G4 box; other site 504728004901 G5 box; other site 504728004902 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 504728004903 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 504728004904 motif II; other site 504728004905 Uncharacterized conserved protein [Function unknown]; Region: COG1434 504728004906 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 504728004907 putative active site [active] 504728004908 DivIVA protein; Region: DivIVA; pfam05103 504728004909 DivIVA domain; Region: DivI1A_domain; TIGR03544 504728004910 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 504728004911 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 504728004912 putative ligand binding site [chemical binding]; other site 504728004913 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728004914 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 504728004915 TM-ABC transporter signature motif; other site 504728004916 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728004917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728004918 Walker A/P-loop; other site 504728004919 ATP binding site [chemical binding]; other site 504728004920 Q-loop/lid; other site 504728004921 ABC transporter signature motif; other site 504728004922 Walker B; other site 504728004923 D-loop; other site 504728004924 H-loop/switch region; other site 504728004925 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728004926 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728004927 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728004928 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 504728004929 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 504728004930 PYR/PP interface [polypeptide binding]; other site 504728004931 dimer interface [polypeptide binding]; other site 504728004932 TPP binding site [chemical binding]; other site 504728004933 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 504728004934 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 504728004935 TPP-binding site [chemical binding]; other site 504728004936 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 504728004937 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728004938 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 504728004939 substrate binding site [chemical binding]; other site 504728004940 ATP binding site [chemical binding]; other site 504728004941 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 504728004942 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 504728004943 DNA interaction; other site 504728004944 Metal-binding active site; metal-binding site 504728004945 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728004946 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728004947 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728004948 KduI/IolB family; Region: KduI; pfam04962 504728004949 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 504728004950 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 504728004951 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 504728004952 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 504728004953 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504728004954 catalytic residue [active] 504728004955 purine nucleoside phosphorylase; Provisional; Region: PRK08202 504728004956 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 504728004957 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 504728004958 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 504728004959 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 504728004960 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 504728004961 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 504728004962 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 504728004963 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 504728004964 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 504728004965 G-loop; other site 504728004966 DNA binding site [nucleotide binding] 504728004967 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 504728004968 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 504728004969 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 504728004970 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 504728004971 RPB10 interaction site [polypeptide binding]; other site 504728004972 RPB1 interaction site [polypeptide binding]; other site 504728004973 RPB11 interaction site [polypeptide binding]; other site 504728004974 RPB3 interaction site [polypeptide binding]; other site 504728004975 RPB12 interaction site [polypeptide binding]; other site 504728004976 seryl-tRNA synthetase; Provisional; Region: PRK05431 504728004977 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 504728004978 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 504728004979 dimer interface [polypeptide binding]; other site 504728004980 active site 504728004981 motif 1; other site 504728004982 motif 2; other site 504728004983 motif 3; other site 504728004984 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 504728004985 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 504728004986 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 504728004987 homodimer interface [polypeptide binding]; other site 504728004988 substrate-cofactor binding pocket; other site 504728004989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004990 catalytic residue [active] 504728004991 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 504728004992 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 504728004993 glycine dehydrogenase; Provisional; Region: PRK05367 504728004994 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 504728004995 tetramer interface [polypeptide binding]; other site 504728004996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004997 catalytic residue [active] 504728004998 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 504728004999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728005000 tetramer interface [polypeptide binding]; other site 504728005001 catalytic residue [active] 504728005002 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 504728005003 lipoyl attachment site [posttranslational modification]; other site 504728005004 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 504728005005 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 504728005006 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 504728005007 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 504728005008 G1 box; other site 504728005009 GTP/Mg2+ binding site [chemical binding]; other site 504728005010 G2 box; other site 504728005011 Switch I region; other site 504728005012 G3 box; other site 504728005013 Switch II region; other site 504728005014 G4 box; other site 504728005015 G5 box; other site 504728005016 Roadblock/LC7 domain; Region: Robl_LC7; pfam03259 504728005017 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728005018 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504728005019 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728005020 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 504728005021 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 504728005022 FeS/SAM binding site; other site 504728005023 HemN C-terminal domain; Region: HemN_C; pfam06969 504728005024 Protein kinase domain; Region: Pkinase; pfam00069 504728005025 Catalytic domain of Protein Kinases; Region: PKc; cd00180 504728005026 active site 504728005027 ATP binding site [chemical binding]; other site 504728005028 substrate binding site [chemical binding]; other site 504728005029 activation loop (A-loop); other site 504728005030 hypothetical protein; Provisional; Region: PRK10279 504728005031 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 504728005032 active site 504728005033 nucleophile elbow; other site 504728005034 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 504728005035 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 504728005036 Catalytic site [active] 504728005037 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 504728005038 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 504728005039 active site 504728005040 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 504728005041 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 504728005042 Walker A motif; other site 504728005043 ATP binding site [chemical binding]; other site 504728005044 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 504728005045 Walker B motif; other site 504728005046 arginine finger; other site 504728005047 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 504728005048 Tetratricopeptide repeat; Region: TPR_16; pfam13432 504728005049 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 504728005050 binding surface 504728005051 TPR motif; other site 504728005052 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 504728005053 TPR motif; other site 504728005054 binding surface 504728005055 TPR repeat; Region: TPR_11; pfam13414 504728005056 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 504728005057 TPR motif; other site 504728005058 binding surface 504728005059 TPR repeat; Region: TPR_11; pfam13414 504728005060 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 504728005061 binding surface 504728005062 TPR motif; other site 504728005063 TPR repeat; Region: TPR_11; pfam13414 504728005064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2380 504728005065 HerA helicase [Replication, recombination, and repair]; Region: COG0433 504728005066 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 504728005067 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1; cd06118 504728005068 dimer interface [polypeptide binding]; other site 504728005069 Citrate synthase; Region: Citrate_synt; pfam00285 504728005070 active site 504728005071 coenzyme A binding site [chemical binding]; other site 504728005072 citrylCoA binding site [chemical binding]; other site 504728005073 oxalacetate/citrate binding site [chemical binding]; other site 504728005074 catalytic triad [active] 504728005075 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 504728005076 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 504728005077 ATP binding site [chemical binding]; other site 504728005078 substrate interface [chemical binding]; other site 504728005079 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 504728005080 MPN+ (JAMM) motif; other site 504728005081 Zinc-binding site [ion binding]; other site 504728005082 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 504728005083 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 504728005084 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728005085 catalytic residues [active] 504728005086 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 504728005087 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728005088 putative substrate translocation pore; other site 504728005089 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 504728005090 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728005091 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 504728005092 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 504728005093 ATP binding site [chemical binding]; other site 504728005094 putative Mg++ binding site [ion binding]; other site 504728005095 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 504728005096 nucleotide binding region [chemical binding]; other site 504728005097 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 504728005098 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728005099 active site 504728005100 NTP binding site [chemical binding]; other site 504728005101 metal binding triad [ion binding]; metal-binding site 504728005102 antibiotic binding site [chemical binding]; other site 504728005103 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 504728005104 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 504728005105 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 504728005106 GTP/Mg2+ binding site [chemical binding]; other site 504728005107 G5 box; other site 504728005108 trmE is a tRNA modification GTPase; Region: trmE; cd04164 504728005109 G1 box; other site 504728005110 G1 box; other site 504728005111 GTP/Mg2+ binding site [chemical binding]; other site 504728005112 Switch I region; other site 504728005113 Switch I region; other site 504728005114 G2 box; other site 504728005115 G2 box; other site 504728005116 Switch II region; other site 504728005117 G3 box; other site 504728005118 G4 box; other site 504728005119 G5 box; other site 504728005120 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 504728005121 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 504728005122 tyrosine decarboxylase; Region: PLN02880 504728005123 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 504728005124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728005125 catalytic residue [active] 504728005126 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 504728005127 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 504728005128 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728005129 active site 504728005130 catalytic residues [active] 504728005131 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 504728005132 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 504728005133 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 504728005134 active site 504728005135 octamer interface [polypeptide binding]; other site 504728005136 Uncharacterized conserved protein [Function unknown]; Region: COG3375 504728005137 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 504728005138 active site 504728005139 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 504728005140 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 504728005141 Cl- selectivity filter; other site 504728005142 Cl- binding residues [ion binding]; other site 504728005143 pore gating glutamate residue; other site 504728005144 dimer interface [polypeptide binding]; other site 504728005145 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 504728005146 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 504728005147 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 504728005148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728005149 catalytic residue [active] 504728005150 hypothetical protein; Provisional; Region: PRK02487 504728005151 putative oxidoreductase; Provisional; Region: PRK11579 504728005152 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728005153 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728005154 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 504728005155 active site 504728005156 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 504728005157 Family description; Region: VCBS; pfam13517 504728005158 Family description; Region: VCBS; pfam13517 504728005159 Family description; Region: VCBS; pfam13517 504728005160 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 504728005161 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 504728005162 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 504728005163 putative ligand binding site [chemical binding]; other site 504728005164 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 504728005165 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728005166 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 504728005167 TM-ABC transporter signature motif; other site 504728005168 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728005169 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728005170 Walker A/P-loop; other site 504728005171 ATP binding site [chemical binding]; other site 504728005172 Q-loop/lid; other site 504728005173 ABC transporter signature motif; other site 504728005174 Walker B; other site 504728005175 D-loop; other site 504728005176 H-loop/switch region; other site 504728005177 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728005178 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728005179 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional; Region: PRK14703 504728005180 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728005181 active site 504728005182 HIGH motif; other site 504728005183 nucleotide binding site [chemical binding]; other site 504728005184 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728005185 active site 504728005186 KMSKS motif; other site 504728005187 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 504728005188 GatB domain; Region: GatB_Yqey; smart00845 504728005189 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 504728005190 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 504728005191 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 504728005192 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 504728005193 Caa3-Type Cytochrome Oxidase subunit 4 interacts with cyt c subunits I/III; Region: Caa3-IV; cd12222 504728005194 dimer interface [polypeptide binding]; other site 504728005195 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728005196 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 504728005197 active site 504728005198 metal binding site [ion binding]; metal-binding site 504728005199 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 504728005200 DNA polymerase III subunit delta'; Validated; Region: PRK08485 504728005201 PSP1 C-terminal conserved region; Region: PSP1; cl00770 504728005202 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 504728005203 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 504728005204 Substrate binding site; other site 504728005205 Mg++ binding site; other site 504728005206 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 504728005207 active site 504728005208 substrate binding site [chemical binding]; other site 504728005209 CoA binding site [chemical binding]; other site 504728005210 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 504728005211 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 504728005212 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 504728005213 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 504728005214 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728005215 catalytic residue [active] 504728005216 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 504728005217 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 504728005218 NAD binding site [chemical binding]; other site 504728005219 homodimer interface [polypeptide binding]; other site 504728005220 active site 504728005221 putative substrate binding site [chemical binding]; other site 504728005222 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 504728005223 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 504728005224 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 504728005225 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 504728005226 lipoyl synthase; Provisional; Region: PRK05481 504728005227 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 504728005228 FeS/SAM binding site; other site 504728005229 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 504728005230 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_6; cd06154 504728005231 homotrimer interaction site [polypeptide binding]; other site 504728005232 putative active site [active] 504728005233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 504728005234 MOSC domain; Region: MOSC; pfam03473 504728005235 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 504728005236 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 504728005237 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 504728005238 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 504728005239 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504728005240 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 504728005241 dimer interface [polypeptide binding]; other site 504728005242 ssDNA binding site [nucleotide binding]; other site 504728005243 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728005244 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504728005245 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 504728005246 dimer interface [polypeptide binding]; other site 504728005247 ssDNA binding site [nucleotide binding]; other site 504728005248 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728005249 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 504728005250 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 504728005251 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504728005252 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 504728005253 rRNA interaction site [nucleotide binding]; other site 504728005254 S8 interaction site; other site 504728005255 putative laminin-1 binding site; other site 504728005256 elongation factor Ts; Reviewed; Region: tsf; PRK12332 504728005257 UBA/TS-N domain; Region: UBA; pfam00627 504728005258 Elongation factor TS; Region: EF_TS; pfam00889 504728005259 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 504728005260 putative nucleotide binding site [chemical binding]; other site 504728005261 uridine monophosphate binding site [chemical binding]; other site 504728005262 homohexameric interface [polypeptide binding]; other site 504728005263 ribosome recycling factor; Reviewed; Region: frr; PRK00083 504728005264 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 504728005265 hinge region; other site 504728005266 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 504728005267 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 504728005268 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 504728005269 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 504728005270 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 504728005271 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 504728005272 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 504728005273 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 504728005274 active site 504728005275 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 504728005276 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 504728005277 putative substrate binding region [chemical binding]; other site 504728005278 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 504728005279 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 504728005280 active site 504728005281 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 504728005282 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 504728005283 FeS/SAM binding site; other site 504728005284 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 504728005285 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 504728005286 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 504728005287 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728005288 Walker A/P-loop; other site 504728005289 ATP binding site [chemical binding]; other site 504728005290 Q-loop/lid; other site 504728005291 ABC transporter signature motif; other site 504728005292 Walker B; other site 504728005293 D-loop; other site 504728005294 H-loop/switch region; other site 504728005295 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 504728005296 ABC-2 type transporter; Region: ABC2_membrane; cl17235 504728005297 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 504728005298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728005299 Walker A/P-loop; other site 504728005300 ATP binding site [chemical binding]; other site 504728005301 Q-loop/lid; other site 504728005302 ABC transporter signature motif; other site 504728005303 Walker B; other site 504728005304 D-loop; other site 504728005305 H-loop/switch region; other site 504728005306 Cupin domain; Region: Cupin_2; pfam07883 504728005307 enoyl-CoA hydratase; Provisional; Region: PRK05862 504728005308 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 504728005309 substrate binding site [chemical binding]; other site 504728005310 oxyanion hole (OAH) forming residues; other site 504728005311 trimer interface [polypeptide binding]; other site 504728005312 enoyl-CoA hydratase; Provisional; Region: PRK06688 504728005313 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 504728005314 substrate binding site [chemical binding]; other site 504728005315 oxyanion hole (OAH) forming residues; other site 504728005316 trimer interface [polypeptide binding]; other site 504728005317 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14603 504728005318 RuvA N terminal domain; Region: RuvA_N; pfam01330 504728005319 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 504728005320 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 504728005321 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 504728005322 motif II; other site 504728005323 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 504728005324 heme-binding site [chemical binding]; other site 504728005325 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 504728005326 heme-binding site [chemical binding]; other site 504728005327 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 504728005328 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 504728005329 active site 504728005330 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 504728005331 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 504728005332 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 504728005333 active site 504728005334 FMN binding site [chemical binding]; other site 504728005335 substrate binding site [chemical binding]; other site 504728005336 3Fe-4S cluster binding site [ion binding]; other site 504728005337 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 504728005338 domain_subunit interface; other site 504728005339 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 504728005340 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 504728005341 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 504728005342 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 504728005343 active site 504728005344 HIGH motif; other site 504728005345 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 504728005346 KMSKS motif; other site 504728005347 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 504728005348 tRNA binding surface [nucleotide binding]; other site 504728005349 anticodon binding site; other site 504728005350 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 504728005351 hydrophobic ligand binding site; other site 504728005352 DDE superfamily endonuclease; Region: DDE_3; pfam13358 504728005353 Homeodomain-like domain; Region: HTH_23; pfam13384 504728005354 Winged helix-turn helix; Region: HTH_29; pfam13551 504728005355 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 504728005356 Domain of unknown function DUF21; Region: DUF21; pfam01595 504728005357 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 504728005358 Transporter associated domain; Region: CorC_HlyC; smart01091 504728005359 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 504728005360 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 504728005361 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 504728005362 PhoH-like protein; Region: PhoH; pfam02562 504728005363 hypothetical protein; Provisional; Region: PRK13665 504728005364 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 504728005365 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 504728005366 dimer interface [polypeptide binding]; other site 504728005367 active site residues [active] 504728005368 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 504728005369 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 504728005370 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 504728005371 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 504728005372 shikimate binding site; other site 504728005373 NAD(P) binding site [chemical binding]; other site 504728005374 Uncharacterized conserved protein [Function unknown]; Region: COG1739 504728005375 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 504728005376 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 504728005377 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 504728005378 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 504728005379 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 504728005380 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 504728005381 RNase E interface [polypeptide binding]; other site 504728005382 trimer interface [polypeptide binding]; other site 504728005383 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 504728005384 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 504728005385 RNase E interface [polypeptide binding]; other site 504728005386 trimer interface [polypeptide binding]; other site 504728005387 active site 504728005388 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 504728005389 nucleic acid binding region [nucleotide binding]; other site 504728005390 G-X-X-G motif; other site 504728005391 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 504728005392 RNA binding site [nucleotide binding]; other site 504728005393 domain interface; other site 504728005394 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 504728005395 16S/18S rRNA binding site [nucleotide binding]; other site 504728005396 S13e-L30e interaction site [polypeptide binding]; other site 504728005397 25S rRNA binding site [nucleotide binding]; other site 504728005398 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 504728005399 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728005400 putative substrate translocation pore; other site 504728005401 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 504728005402 Putative D-pathway homolog; other site 504728005403 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 504728005404 Low-spin heme binding site [chemical binding]; other site 504728005405 Subunit I/II interface [polypeptide binding]; other site 504728005406 Putative Q-pathway; other site 504728005407 Putative alternate electron transfer pathway; other site 504728005408 Putative water exit pathway; other site 504728005409 Binuclear center (active site) [active] 504728005410 Putative K-pathway homolog; other site 504728005411 Putative proton exit pathway; other site 504728005412 Subunit I/IIa interface [polypeptide binding]; other site 504728005413 Electron transfer pathway; other site 504728005414 Cytochrome C oxidase subunit II, transmembrane; Region: COX2-transmemb; pfam09125 504728005415 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 504728005416 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 504728005417 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 504728005418 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 504728005419 TPP-binding site [chemical binding]; other site 504728005420 dimer interface [polypeptide binding]; other site 504728005421 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 504728005422 PYR/PP interface [polypeptide binding]; other site 504728005423 dimer interface [polypeptide binding]; other site 504728005424 TPP binding site [chemical binding]; other site 504728005425 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504728005426 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 504728005427 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 504728005428 active site 504728005429 catalytic site [active] 504728005430 Uncharacterized conserved protein [Function unknown]; Region: COG3743 504728005431 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 504728005432 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 504728005433 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 504728005434 active site 504728005435 catalytic motif [active] 504728005436 Zn binding site [ion binding]; other site 504728005437 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 504728005438 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 504728005439 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504728005440 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 504728005441 GAF domain; Region: GAF_2; pfam13185 504728005442 Histidine kinase; Region: HisKA_3; pfam07730 504728005443 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 504728005444 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 504728005445 ATP binding site [chemical binding]; other site 504728005446 Mg2+ binding site [ion binding]; other site 504728005447 G-X-G motif; other site 504728005448 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 504728005449 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 504728005450 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 504728005451 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 504728005452 classical (c) SDRs; Region: SDR_c; cd05233 504728005453 NAD(P) binding site [chemical binding]; other site 504728005454 active site 504728005455 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 504728005456 tartrate dehydrogenase; Region: TTC; TIGR02089 504728005457 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 504728005458 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 504728005459 substrate binding site [chemical binding]; other site 504728005460 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 504728005461 putative active site [active] 504728005462 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 504728005463 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 504728005464 substrate binding site [chemical binding]; other site 504728005465 ligand binding site [chemical binding]; other site 504728005466 Phosphotransferase enzyme family; Region: APH; pfam01636 504728005467 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 504728005468 active site 504728005469 substrate binding site [chemical binding]; other site 504728005470 ATP binding site [chemical binding]; other site 504728005471 Protein of unknown function (DUF1679); Region: DUF1679; pfam07914 504728005472 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14334 504728005473 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 504728005474 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 504728005475 FeS/SAM binding site; other site 504728005476 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504728005477 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 504728005478 thymidylate synthase; Reviewed; Region: thyA; PRK01827 504728005479 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 504728005480 dimerization interface [polypeptide binding]; other site 504728005481 active site 504728005482 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 504728005483 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 504728005484 folate binding site [chemical binding]; other site 504728005485 NADP+ binding site [chemical binding]; other site 504728005486 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 504728005487 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 504728005488 Clp amino terminal domain; Region: Clp_N; pfam02861 504728005489 Clp amino terminal domain; Region: Clp_N; pfam02861 504728005490 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 504728005491 Walker A motif; other site 504728005492 ATP binding site [chemical binding]; other site 504728005493 Walker B motif; other site 504728005494 arginine finger; other site 504728005495 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 504728005496 Walker A motif; other site 504728005497 ATP binding site [chemical binding]; other site 504728005498 Walker B motif; other site 504728005499 arginine finger; other site 504728005500 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 504728005501 Transcriptional regulators [Transcription]; Region: MarR; COG1846 504728005502 MarR family; Region: MarR_2; pfam12802 504728005503 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 504728005504 putative active site [active] 504728005505 glycyl-tRNA synthetase; Provisional; Region: PRK04173 504728005506 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 504728005507 motif 1; other site 504728005508 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 504728005509 dimer interface [polypeptide binding]; other site 504728005510 active site 504728005511 motif 2; other site 504728005512 motif 3; other site 504728005513 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 504728005514 anticodon binding site; other site 504728005515 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728005516 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 504728005517 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728005518 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 504728005519 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728005520 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728005521 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728005522 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 504728005523 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 504728005524 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 504728005525 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728005526 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728005527 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 504728005528 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728005529 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 504728005530 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 504728005531 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 504728005532 4Fe-4S binding domain; Region: Fer4; pfam00037 504728005533 4Fe-4S binding domain; Region: Fer4; pfam00037 504728005534 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 504728005535 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 504728005536 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 504728005537 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 504728005538 catalytic loop [active] 504728005539 iron binding site [ion binding]; other site 504728005540 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 504728005541 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 504728005542 molybdopterin cofactor binding site; other site 504728005543 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 504728005544 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 504728005545 SLBB domain; Region: SLBB; pfam10531 504728005546 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 504728005547 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 504728005548 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 504728005549 putative dimer interface [polypeptide binding]; other site 504728005550 [2Fe-2S] cluster binding site [ion binding]; other site 504728005551 NADH dehydrogenase subunit D; Validated; Region: PRK06075 504728005552 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 504728005553 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 504728005554 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 504728005555 NADH dehydrogenase subunit B; Validated; Region: PRK06411 504728005556 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 504728005557 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728005558 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 504728005559 acyl-activating enzyme (AAE) consensus motif; other site 504728005560 active site 504728005561 CoA binding site [chemical binding]; other site 504728005562 AMP binding site [chemical binding]; other site 504728005563 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 504728005564 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 504728005565 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 504728005566 allantoate amidohydrolase; Reviewed; Region: PRK09290 504728005567 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 504728005568 active site 504728005569 metal binding site [ion binding]; metal-binding site 504728005570 dimer interface [polypeptide binding]; other site 504728005571 NMT1/THI5 like; Region: NMT1; pfam09084 504728005572 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 504728005573 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504728005574 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 504728005575 dimer interface [polypeptide binding]; other site 504728005576 conserved gate region; other site 504728005577 putative PBP binding loops; other site 504728005578 ABC-ATPase subunit interface; other site 504728005579 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504728005580 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 504728005581 dimer interface [polypeptide binding]; other site 504728005582 conserved gate region; other site 504728005583 putative PBP binding loops; other site 504728005584 ABC-ATPase subunit interface; other site 504728005585 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728005586 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504728005587 Walker A/P-loop; other site 504728005588 ATP binding site [chemical binding]; other site 504728005589 Q-loop/lid; other site 504728005590 ABC transporter signature motif; other site 504728005591 Walker B; other site 504728005592 D-loop; other site 504728005593 H-loop/switch region; other site 504728005594 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 504728005595 phenylhydantoinase; Validated; Region: PRK08323 504728005596 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 504728005597 tetramer interface [polypeptide binding]; other site 504728005598 active site 504728005599 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 504728005600 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 504728005601 homodimer interface [polypeptide binding]; other site 504728005602 active site 504728005603 FMN binding site [chemical binding]; other site 504728005604 substrate binding site [chemical binding]; other site 504728005605 4Fe-4S binding domain; Region: Fer4; cl02805 504728005606 4Fe-4S binding domain; Region: Fer4; pfam00037 504728005607 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 504728005608 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 504728005609 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728005610 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 504728005611 Found in ATP-dependent protease La (LON); Region: LON; smart00464 504728005612 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 504728005613 Walker A motif; other site 504728005614 ATP binding site [chemical binding]; other site 504728005615 Walker B motif; other site 504728005616 arginine finger; other site 504728005617 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 504728005618 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 504728005619 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 504728005620 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 504728005621 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 504728005622 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 504728005623 ligand binding site [chemical binding]; other site 504728005624 homodimer interface [polypeptide binding]; other site 504728005625 NAD(P) binding site [chemical binding]; other site 504728005626 trimer interface B [polypeptide binding]; other site 504728005627 trimer interface A [polypeptide binding]; other site 504728005628 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504728005629 classical (c) SDRs; Region: SDR_c; cd05233 504728005630 NAD(P) binding site [chemical binding]; other site 504728005631 active site 504728005632 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 504728005633 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 504728005634 active site 504728005635 catalytic tetrad [active] 504728005636 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 504728005637 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 504728005638 active site 504728005639 substrate binding site [chemical binding]; other site 504728005640 metal binding site [ion binding]; metal-binding site 504728005641 ZU5 domain; Region: ZU5; cl02517 504728005642 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 504728005643 FMN binding site [chemical binding]; other site 504728005644 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 504728005645 dimer interface [polypeptide binding]; other site 504728005646 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 504728005647 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 504728005648 active site 504728005649 Phospholipid methyltransferase; Region: PEMT; cl17370 504728005650 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 504728005651 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 504728005652 active site 504728005653 catalytic residues [active] 504728005654 metal binding site [ion binding]; metal-binding site 504728005655 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 504728005656 2-isopropylmalate synthase; Validated; Region: PRK00915 504728005657 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 504728005658 active site 504728005659 catalytic residues [active] 504728005660 metal binding site [ion binding]; metal-binding site 504728005661 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 504728005662 ketol-acid reductoisomerase; Provisional; Region: PRK05479 504728005663 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 504728005664 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 504728005665 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 504728005666 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 504728005667 putative valine binding site [chemical binding]; other site 504728005668 dimer interface [polypeptide binding]; other site 504728005669 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 504728005670 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 504728005671 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 504728005672 PYR/PP interface [polypeptide binding]; other site 504728005673 dimer interface [polypeptide binding]; other site 504728005674 TPP binding site [chemical binding]; other site 504728005675 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 504728005676 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 504728005677 TPP-binding site [chemical binding]; other site 504728005678 dimer interface [polypeptide binding]; other site 504728005679 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 504728005680 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 504728005681 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504728005682 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504728005683 PGAP1-like protein; Region: PGAP1; pfam07819 504728005684 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 504728005685 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 504728005686 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 504728005687 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 504728005688 molybdopterin cofactor binding site; other site 504728005689 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 504728005690 molybdopterin cofactor binding site; other site 504728005691 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 504728005692 Protein of unknown function (DUF503); Region: DUF503; pfam04456 504728005693 putative acyltransferase; Provisional; Region: PRK05790 504728005694 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 504728005695 dimer interface [polypeptide binding]; other site 504728005696 active site 504728005697 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 504728005698 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 504728005699 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728005700 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728005701 Walker A/P-loop; other site 504728005702 ATP binding site [chemical binding]; other site 504728005703 Q-loop/lid; other site 504728005704 ABC transporter signature motif; other site 504728005705 Walker B; other site 504728005706 D-loop; other site 504728005707 H-loop/switch region; other site 504728005708 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 504728005709 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 504728005710 dimer interface [polypeptide binding]; other site 504728005711 conserved gate region; other site 504728005712 putative PBP binding loops; other site 504728005713 ABC-ATPase subunit interface; other site 504728005714 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 504728005715 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728005716 Predicted transcriptional regulators [Transcription]; Region: COG1695 504728005717 Transcriptional regulator PadR-like family; Region: PadR; cl17335 504728005718 Cytochrome c; Region: Cytochrom_C; pfam00034 504728005719 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 504728005720 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504728005721 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 504728005722 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728005723 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728005724 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 504728005725 dimer interface [polypeptide binding]; other site 504728005726 conserved gate region; other site 504728005727 putative PBP binding loops; other site 504728005728 ABC-ATPase subunit interface; other site 504728005729 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728005730 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 504728005731 dimer interface [polypeptide binding]; other site 504728005732 conserved gate region; other site 504728005733 putative PBP binding loops; other site 504728005734 ABC-ATPase subunit interface; other site 504728005735 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728005736 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728005737 Walker A/P-loop; other site 504728005738 ATP binding site [chemical binding]; other site 504728005739 Q-loop/lid; other site 504728005740 ABC transporter signature motif; other site 504728005741 Walker B; other site 504728005742 D-loop; other site 504728005743 H-loop/switch region; other site 504728005744 TOBE domain; Region: TOBE_2; pfam08402 504728005745 Sm and related proteins; Region: Sm_like; cl00259 504728005746 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 504728005747 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 504728005748 putative RNA binding site [nucleotide binding]; other site 504728005749 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 504728005750 NusA N-terminal domain; Region: NusA_N; pfam08529 504728005751 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 504728005752 RNA binding site [nucleotide binding]; other site 504728005753 homodimer interface [polypeptide binding]; other site 504728005754 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 504728005755 G-X-X-G motif; other site 504728005756 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 504728005757 G-X-X-G motif; other site 504728005758 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 504728005759 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 504728005760 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 504728005761 G1 box; other site 504728005762 putative GEF interaction site [polypeptide binding]; other site 504728005763 GTP/Mg2+ binding site [chemical binding]; other site 504728005764 Switch I region; other site 504728005765 G2 box; other site 504728005766 G3 box; other site 504728005767 Switch II region; other site 504728005768 G4 box; other site 504728005769 G5 box; other site 504728005770 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 504728005771 Translation-initiation factor 2; Region: IF-2; pfam11987 504728005772 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 504728005773 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 504728005774 Protein export membrane protein; Region: SecD_SecF; cl14618 504728005775 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 504728005776 Protein export membrane protein; Region: SecD_SecF; pfam02355 504728005777 GMP synthase; Reviewed; Region: guaA; PRK00074 504728005778 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 504728005779 AMP/PPi binding site [chemical binding]; other site 504728005780 candidate oxyanion hole; other site 504728005781 catalytic triad [active] 504728005782 potential glutamine specificity residues [chemical binding]; other site 504728005783 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 504728005784 ATP Binding subdomain [chemical binding]; other site 504728005785 Ligand Binding sites [chemical binding]; other site 504728005786 Dimerization subdomain; other site 504728005787 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 504728005788 Fe-S cluster binding site [ion binding]; other site 504728005789 active site 504728005790 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 504728005791 EamA-like transporter family; Region: EamA; pfam00892 504728005792 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 504728005793 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 504728005794 purine monophosphate binding site [chemical binding]; other site 504728005795 dimer interface [polypeptide binding]; other site 504728005796 putative catalytic residues [active] 504728005797 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 504728005798 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 504728005799 Yqey-like protein; Region: YqeY; cl17540 504728005800 Baseplate J-like protein; Region: Baseplate_J; pfam04865 504728005801 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 504728005802 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 504728005803 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 504728005804 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 504728005805 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 504728005806 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 504728005807 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 504728005808 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 504728005809 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 504728005810 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 504728005811 Protein of unknown function (DUF935); Region: DUF935; pfam06074 504728005812 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 504728005813 Terminase-like family; Region: Terminase_6; pfam03237 504728005814 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 504728005815 putative DNA binding site [nucleotide binding]; other site 504728005816 putative Zn2+ binding site [ion binding]; other site 504728005817 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 504728005818 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 504728005819 AAA domain; Region: AAA_22; pfam13401 504728005820 Walker A motif; other site 504728005821 ATP binding site [chemical binding]; other site 504728005822 Walker B motif; other site 504728005823 Integrase core domain; Region: rve; pfam00665 504728005824 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728005825 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 504728005826 Catalytic site [active] 504728005827 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728005828 cell division protein MraZ; Reviewed; Region: PRK00326 504728005829 MraZ protein; Region: MraZ; pfam02381 504728005830 MraZ protein; Region: MraZ; pfam02381 504728005831 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 504728005832 MraW methylase family; Region: Methyltransf_5; cl17771 504728005833 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 504728005834 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 504728005835 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 504728005836 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728005837 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504728005838 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 504728005839 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 504728005840 Mg++ binding site [ion binding]; other site 504728005841 putative catalytic motif [active] 504728005842 putative substrate binding site [chemical binding]; other site 504728005843 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 504728005844 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728005845 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 504728005846 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 504728005847 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 504728005848 active site 504728005849 homodimer interface [polypeptide binding]; other site 504728005850 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 504728005851 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 504728005852 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728005853 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504728005854 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: PRK14651 504728005855 FAD binding domain; Region: FAD_binding_4; pfam01565 504728005856 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 504728005857 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 504728005858 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 504728005859 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 504728005860 nucleotide binding site [chemical binding]; other site 504728005861 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 504728005862 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728005863 Cell division protein FtsA; Region: FtsA; pfam14450 504728005864 cell division protein FtsZ; Validated; Region: PRK09330 504728005865 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 504728005866 nucleotide binding site [chemical binding]; other site 504728005867 SulA interaction site; other site 504728005868 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 504728005869 active site 504728005870 putative DNA-binding cleft [nucleotide binding]; other site 504728005871 dimer interface [polypeptide binding]; other site 504728005872 Protein of unknown function (DUF454); Region: DUF454; cl01063 504728005873 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 504728005874 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728005875 Chain length determinant protein; Region: Wzz; cl15801 504728005876 O-Antigen ligase; Region: Wzy_C; pfam04932 504728005877 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 504728005878 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 504728005879 Bacterial sugar transferase; Region: Bac_transf; pfam02397 504728005880 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 504728005881 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504728005882 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 504728005883 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 504728005884 active site 504728005885 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 504728005886 O-Antigen ligase; Region: Wzy_C; pfam04932 504728005887 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728005888 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 504728005889 Probable Catalytic site; other site 504728005890 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 504728005891 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728005892 UDP-galactopyranose mutase; Region: GLF; pfam03275 504728005893 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 504728005894 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 504728005895 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 504728005896 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 504728005897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728005898 NAD(P) binding site [chemical binding]; other site 504728005899 active site 504728005900 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 504728005901 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 504728005902 NAD binding site [chemical binding]; other site 504728005903 substrate binding site [chemical binding]; other site 504728005904 homodimer interface [polypeptide binding]; other site 504728005905 active site 504728005906 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 504728005907 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728005908 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 504728005909 Probable Catalytic site; other site 504728005910 metal-binding site 504728005911 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 504728005912 putative active site [active] 504728005913 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 504728005914 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 504728005915 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 504728005916 substrate binding site; other site 504728005917 metal-binding site 504728005918 Oligomer interface; other site 504728005919 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 504728005920 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 504728005921 Protein of unknown function (DUF2847); Region: DUF2847; cl17683 504728005922 Uncharacterized conserved protein [Function unknown]; Region: COG0398 504728005923 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 504728005924 NAD-dependent deacetylase; Provisional; Region: PRK00481 504728005925 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 504728005926 NAD+ binding site [chemical binding]; other site 504728005927 substrate binding site [chemical binding]; other site 504728005928 Zn binding site [ion binding]; other site 504728005929 Uncharacterized conserved protein [Function unknown]; Region: COG0062 504728005930 putative carbohydrate kinase; Provisional; Region: PRK10565 504728005931 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 504728005932 putative substrate binding site [chemical binding]; other site 504728005933 putative ATP binding site [chemical binding]; other site 504728005934 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 504728005935 thiamine phosphate binding site [chemical binding]; other site 504728005936 active site 504728005937 pyrophosphate binding site [ion binding]; other site 504728005938 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 504728005939 thiS-thiF/thiG interaction site; other site 504728005940 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 504728005941 ThiS interaction site; other site 504728005942 putative active site [active] 504728005943 tetramer interface [polypeptide binding]; other site 504728005944 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 504728005945 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 504728005946 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 504728005947 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 504728005948 dimer interface [polypeptide binding]; other site 504728005949 substrate binding site [chemical binding]; other site 504728005950 ATP binding site [chemical binding]; other site 504728005951 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 504728005952 Flavoprotein; Region: Flavoprotein; pfam02441 504728005953 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 504728005954 pantothenate kinase; Reviewed; Region: PRK13318 504728005955 homoserine kinase; Provisional; Region: PRK01212 504728005956 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728005957 phosphoglucomutase; Validated; Region: PRK07564 504728005958 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 504728005959 active site 504728005960 substrate binding site [chemical binding]; other site 504728005961 metal binding site [ion binding]; metal-binding site 504728005962 Predicted dehydrogenase [General function prediction only]; Region: COG0579 504728005963 hydroxyglutarate oxidase; Provisional; Region: PRK11728 504728005964 Mechanosensitive ion channel; Region: MS_channel; pfam00924 504728005965 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 504728005966 putative phosphate acyltransferase; Provisional; Region: PRK05331 504728005967 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728005968 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728005969 DNA binding site [nucleotide binding] 504728005970 domain linker motif; other site 504728005971 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 504728005972 dimerization interface [polypeptide binding]; other site 504728005973 ligand binding site [chemical binding]; other site 504728005974 ribulokinase; Provisional; Region: PRK04123 504728005975 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728005976 nucleotide binding site [chemical binding]; other site 504728005977 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728005978 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728005979 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 504728005980 dimer interface [polypeptide binding]; other site 504728005981 conserved gate region; other site 504728005982 putative PBP binding loops; other site 504728005983 ABC-ATPase subunit interface; other site 504728005984 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728005985 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 504728005986 dimer interface [polypeptide binding]; other site 504728005987 conserved gate region; other site 504728005988 putative PBP binding loops; other site 504728005989 ABC-ATPase subunit interface; other site 504728005990 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 504728005991 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 504728005992 putative NAD(P) binding site [chemical binding]; other site 504728005993 catalytic Zn binding site [ion binding]; other site 504728005994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728005995 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 504728005996 NAD(P) binding site [chemical binding]; other site 504728005997 active site 504728005998 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 504728005999 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 504728006000 NAD(P) binding site [chemical binding]; other site 504728006001 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 504728006002 Cytochrome P450; Region: p450; cl12078 504728006003 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 504728006004 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728006005 catalytic residues [active] 504728006006 Domain of unknown function (DUF309); Region: DUF309; pfam03745 504728006007 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 504728006008 iron-sulfur cluster [ion binding]; other site 504728006009 [2Fe-2S] cluster binding site [ion binding]; other site 504728006010 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 504728006011 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 504728006012 active site 504728006013 dimer interface [polypeptide binding]; other site 504728006014 L-asparaginase II; Region: Asparaginase_II; pfam06089 504728006015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 504728006016 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 504728006017 active site 504728006018 dimer interface [polypeptide binding]; other site 504728006019 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 504728006020 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 504728006021 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 504728006022 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 504728006023 putative active site [active] 504728006024 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 504728006025 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 504728006026 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 504728006027 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 504728006028 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504728006029 Bacterial transcriptional regulator; Region: IclR; pfam01614 504728006030 deoxyhypusine synthase; Region: dhys; TIGR00321 504728006031 Deoxyhypusine synthase; Region: DS; cl00826 504728006032 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 504728006033 heme-binding site [chemical binding]; other site 504728006034 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 504728006035 GTPase Era; Reviewed; Region: era; PRK00089 504728006036 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 504728006037 G1 box; other site 504728006038 GTP/Mg2+ binding site [chemical binding]; other site 504728006039 Switch I region; other site 504728006040 G2 box; other site 504728006041 Switch II region; other site 504728006042 G3 box; other site 504728006043 G4 box; other site 504728006044 G5 box; other site 504728006045 KH domain; Region: KH_2; pfam07650 504728006046 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 504728006047 DNA protecting protein DprA; Region: dprA; TIGR00732 504728006048 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 504728006049 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 504728006050 FMN binding site [chemical binding]; other site 504728006051 active site 504728006052 catalytic residues [active] 504728006053 substrate binding site [chemical binding]; other site 504728006054 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 504728006055 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 504728006056 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 504728006057 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 504728006058 active site 504728006059 Zn binding site [ion binding]; other site 504728006060 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 504728006061 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 504728006062 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 504728006063 trimer interface [polypeptide binding]; other site 504728006064 active site 504728006065 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 504728006066 catalytic site [active] 504728006067 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728006068 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 504728006069 dimer interface [polypeptide binding]; other site 504728006070 conserved gate region; other site 504728006071 putative PBP binding loops; other site 504728006072 ABC-ATPase subunit interface; other site 504728006073 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 504728006074 dimer interface [polypeptide binding]; other site 504728006075 conserved gate region; other site 504728006076 putative PBP binding loops; other site 504728006077 ABC-ATPase subunit interface; other site 504728006078 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728006079 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728006080 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 504728006081 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 504728006082 effector binding site; other site 504728006083 dimer interface [polypeptide binding]; other site 504728006084 active site 504728006085 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 504728006086 TSCPD domain; Region: TSCPD; pfam12637 504728006087 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 504728006088 active site 504728006089 homodimer interface [polypeptide binding]; other site 504728006090 catalytic site [active] 504728006091 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 504728006092 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 504728006093 catalytic site [active] 504728006094 G-X2-G-X-G-K; other site 504728006095 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 504728006096 Arginine repressor [Transcription]; Region: ArgR; COG1438 504728006097 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 504728006098 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 504728006099 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 504728006100 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 504728006101 Walker A/P-loop; other site 504728006102 ATP binding site [chemical binding]; other site 504728006103 Q-loop/lid; other site 504728006104 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 504728006105 ABC transporter signature motif; other site 504728006106 Walker B; other site 504728006107 D-loop; other site 504728006108 H-loop/switch region; other site 504728006109 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 504728006110 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 504728006111 elongation factor G; Reviewed; Region: PRK12740 504728006112 G1 box; other site 504728006113 putative GEF interaction site [polypeptide binding]; other site 504728006114 GTP/Mg2+ binding site [chemical binding]; other site 504728006115 Switch I region; other site 504728006116 G2 box; other site 504728006117 G3 box; other site 504728006118 Switch II region; other site 504728006119 G4 box; other site 504728006120 G5 box; other site 504728006121 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 504728006122 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 504728006123 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 504728006124 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728006125 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 504728006126 CoenzymeA binding site [chemical binding]; other site 504728006127 subunit interaction site [polypeptide binding]; other site 504728006128 PHB binding site; other site 504728006129 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 504728006130 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 504728006131 prephenate dehydrogenase; Validated; Region: PRK06545 504728006132 prephenate dehydrogenase; Validated; Region: PRK08507 504728006133 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 504728006134 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 504728006135 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728006136 putative active site [active] 504728006137 putative metal binding site [ion binding]; other site 504728006138 SecA DEAD-like domain; Region: SecA_DEAD; smart00957 504728006139 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 504728006140 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 504728006141 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728006142 UGMP family protein; Validated; Region: PRK09604 504728006143 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 504728006144 MoxR-like ATPases [General function prediction only]; Region: COG0714 504728006145 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 504728006146 Walker A motif; other site 504728006147 ATP binding site [chemical binding]; other site 504728006148 Walker B motif; other site 504728006149 arginine finger; other site 504728006150 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 504728006151 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 504728006152 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504728006153 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504728006154 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 504728006155 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504728006156 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 504728006157 active site 504728006158 FMN binding site [chemical binding]; other site 504728006159 substrate binding site [chemical binding]; other site 504728006160 homotetramer interface [polypeptide binding]; other site 504728006161 catalytic residue [active] 504728006162 short chain dehydrogenase; Provisional; Region: PRK08265 504728006163 classical (c) SDRs; Region: SDR_c; cd05233 504728006164 NAD(P) binding site [chemical binding]; other site 504728006165 active site 504728006166 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 504728006167 MarR family; Region: MarR; pfam01047 504728006168 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 504728006169 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 504728006170 substrate binding site [chemical binding]; other site 504728006171 oxyanion hole (OAH) forming residues; other site 504728006172 trimer interface [polypeptide binding]; other site 504728006173 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728006174 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 504728006175 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728006176 active site 504728006177 2-aminobenzoate-CoA ligase (ABCL); Region: ABCL; cd05958 504728006178 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 504728006179 putative dimer interface [polypeptide binding]; other site 504728006180 acyl-activating enzyme (AAE) consensus motif; other site 504728006181 putative active site [active] 504728006182 putative AMP binding site [chemical binding]; other site 504728006183 putative CoA binding site [chemical binding]; other site 504728006184 putative chemical substrate binding site [chemical binding]; other site 504728006185 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 504728006186 homotrimer interaction site [polypeptide binding]; other site 504728006187 putative active site [active] 504728006188 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 504728006189 kynureninase; Region: kynureninase; TIGR01814 504728006190 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728006191 catalytic residue [active] 504728006192 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 504728006193 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728006194 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 504728006195 putative ligand binding site [chemical binding]; other site 504728006196 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 504728006197 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728006198 TM-ABC transporter signature motif; other site 504728006199 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728006200 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 504728006201 TM-ABC transporter signature motif; other site 504728006202 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728006203 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728006204 Walker A/P-loop; other site 504728006205 ATP binding site [chemical binding]; other site 504728006206 Q-loop/lid; other site 504728006207 ABC transporter signature motif; other site 504728006208 Walker B; other site 504728006209 D-loop; other site 504728006210 H-loop/switch region; other site 504728006211 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728006212 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728006213 Walker A/P-loop; other site 504728006214 ATP binding site [chemical binding]; other site 504728006215 Q-loop/lid; other site 504728006216 ABC transporter signature motif; other site 504728006217 Walker B; other site 504728006218 D-loop; other site 504728006219 H-loop/switch region; other site 504728006220 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504728006221 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 504728006222 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 504728006223 active site 504728006224 PHP Thumb interface [polypeptide binding]; other site 504728006225 metal binding site [ion binding]; metal-binding site 504728006226 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 504728006227 generic binding surface II; other site 504728006228 generic binding surface I; other site 504728006229 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 504728006230 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 504728006231 putative dimer interface [polypeptide binding]; other site 504728006232 putative anticodon binding site; other site 504728006233 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 504728006234 homodimer interface [polypeptide binding]; other site 504728006235 motif 1; other site 504728006236 motif 2; other site 504728006237 active site 504728006238 motif 3; other site 504728006239 2-phosphosulfolactate phosphatase; Provisional; Region: PRK14100 504728006240 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 504728006241 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 504728006242 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 504728006243 ligand binding site [chemical binding]; other site 504728006244 flexible hinge region; other site 504728006245 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 504728006246 putative switch regulator; other site 504728006247 non-specific DNA interactions [nucleotide binding]; other site 504728006248 DNA binding site [nucleotide binding] 504728006249 sequence specific DNA binding site [nucleotide binding]; other site 504728006250 putative cAMP binding site [chemical binding]; other site 504728006251 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728006252 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728006253 Walker A/P-loop; other site 504728006254 ATP binding site [chemical binding]; other site 504728006255 Q-loop/lid; other site 504728006256 ABC transporter signature motif; other site 504728006257 Walker B; other site 504728006258 D-loop; other site 504728006259 H-loop/switch region; other site 504728006260 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 504728006261 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728006262 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 504728006263 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 504728006264 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 504728006265 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 504728006266 2-phosphosulfolactate phosphatase; Provisional; Region: PRK14100 504728006267 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 504728006268 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 504728006269 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 504728006270 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504728006271 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504728006272 Uncharacterized conserved protein [Function unknown]; Region: COG2947 504728006273 FAD binding domain; Region: FAD_binding_4; pfam01565 504728006274 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 504728006275 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 504728006276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728006277 NAD(P) binding site [chemical binding]; other site 504728006278 active site 504728006279 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 504728006280 CoA-transferase family III; Region: CoA_transf_3; pfam02515 504728006281 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 504728006282 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 504728006283 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 504728006284 active site 504728006285 Pectinacetylesterase; Region: PAE; pfam03283 504728006286 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728006287 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 504728006288 FtsX-like permease family; Region: FtsX; pfam02687 504728006289 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728006290 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728006291 Walker A/P-loop; other site 504728006292 ATP binding site [chemical binding]; other site 504728006293 Q-loop/lid; other site 504728006294 ABC transporter signature motif; other site 504728006295 Walker B; other site 504728006296 D-loop; other site 504728006297 H-loop/switch region; other site 504728006298 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504728006299 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504728006300 HlyD family secretion protein; Region: HlyD_3; pfam13437 504728006301 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728006302 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728006303 Walker A/P-loop; other site 504728006304 ATP binding site [chemical binding]; other site 504728006305 Q-loop/lid; other site 504728006306 ABC transporter signature motif; other site 504728006307 Walker B; other site 504728006308 D-loop; other site 504728006309 H-loop/switch region; other site 504728006310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728006311 DNA-binding site [nucleotide binding]; DNA binding site 504728006312 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 504728006313 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 504728006314 active site 504728006315 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 504728006316 active site 504728006317 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 504728006318 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728006319 active site 504728006320 metal binding site [ion binding]; metal-binding site 504728006321 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 504728006322 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 504728006323 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 504728006324 active site 504728006325 catalytic tetrad [active] 504728006326 monogalactosyldiacylglycerol synthase; Region: PLN02605 504728006327 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 504728006328 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 504728006329 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504728006330 FAD binding domain; Region: FAD_binding_4; pfam01565 504728006331 YceI-like domain; Region: YceI; pfam04264 504728006332 short chain dehydrogenase; Provisional; Region: PRK08219 504728006333 Tthb094 and related proteins, classical (c) SDRs; Region: Tthb094_like_SDR_c; cd11730 504728006334 NAD(P) binding site [chemical binding]; other site 504728006335 putative active site [active] 504728006336 Putative addiction module component; Region: Unstab_antitox; cl09921 504728006337 PAS domain S-box; Region: sensory_box; TIGR00229 504728006338 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 504728006339 putative active site [active] 504728006340 heme pocket [chemical binding]; other site 504728006341 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728006342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728006343 metal binding site [ion binding]; metal-binding site 504728006344 active site 504728006345 I-site; other site 504728006346 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 504728006347 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 504728006348 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 504728006349 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728006350 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504728006351 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 504728006352 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 504728006353 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 504728006354 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 504728006355 Fasciclin domain; Region: Fasciclin; pfam02469 504728006356 Domain of unknown function DUF59; Region: DUF59; pfam01883 504728006357 antiporter inner membrane protein; Provisional; Region: PRK11670 504728006358 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 504728006359 Predicted transcriptional regulator [Transcription]; Region: COG2345 504728006360 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 504728006361 putative DNA binding site [nucleotide binding]; other site 504728006362 putative Zn2+ binding site [ion binding]; other site 504728006363 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 504728006364 PAS domain; Region: PAS_9; pfam13426 504728006365 putative active site [active] 504728006366 heme pocket [chemical binding]; other site 504728006367 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728006368 GAF domain; Region: GAF; cl17456 504728006369 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728006370 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 504728006371 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 504728006372 GAF domain; Region: GAF_2; pfam13185 504728006373 GAF domain; Region: GAF_3; pfam13492 504728006374 GAF domain; Region: GAF; cl17456 504728006375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728006376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728006377 metal binding site [ion binding]; metal-binding site 504728006378 active site 504728006379 I-site; other site 504728006380 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 504728006381 Family description; Region: UvrD_C_2; pfam13538 504728006382 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 504728006383 Predicted ATPase [General function prediction only]; Region: COG4637 504728006384 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728006385 Walker A/P-loop; other site 504728006386 ATP binding site [chemical binding]; other site 504728006387 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 504728006388 Catalytic domain of Protein Kinases; Region: PKc; cd00180 504728006389 active site 504728006390 ATP binding site [chemical binding]; other site 504728006391 substrate binding site [chemical binding]; other site 504728006392 activation loop (A-loop); other site 504728006393 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 504728006394 PQQ-like domain; Region: PQQ_2; pfam13360 504728006395 Trp docking motif [polypeptide binding]; other site 504728006396 active site 504728006397 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 504728006398 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 504728006399 putative active site [active] 504728006400 substrate binding site [chemical binding]; other site 504728006401 putative cosubstrate binding site; other site 504728006402 catalytic site [active] 504728006403 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 504728006404 substrate binding site [chemical binding]; other site 504728006405 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 504728006406 active site 504728006407 catalytic residues [active] 504728006408 metal binding site [ion binding]; metal-binding site 504728006409 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 504728006410 EamA-like transporter family; Region: EamA; pfam00892 504728006411 EamA-like transporter family; Region: EamA; pfam00892 504728006412 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 504728006413 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 504728006414 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504728006415 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504728006416 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504728006417 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504728006418 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504728006419 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504728006420 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 504728006421 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 504728006422 generic binding surface II; other site 504728006423 ssDNA binding site; other site 504728006424 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 504728006425 ATP binding site [chemical binding]; other site 504728006426 putative Mg++ binding site [ion binding]; other site 504728006427 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 504728006428 nucleotide binding region [chemical binding]; other site 504728006429 ATP-binding site [chemical binding]; other site 504728006430 Beta-lactamase; Region: Beta-lactamase; pfam00144 504728006431 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 504728006432 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 504728006433 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 504728006434 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 504728006435 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 504728006436 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728006437 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728006438 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 504728006439 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728006440 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728006441 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 504728006442 DNA Polymerase alpha zinc finger; Region: zf-DNA_Pol; pfam08996 504728006443 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 504728006444 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 504728006445 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 504728006446 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 504728006447 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 504728006448 dimer interface [polypeptide binding]; other site 504728006449 conserved gate region; other site 504728006450 ABC-ATPase subunit interface; other site 504728006451 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 504728006452 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 504728006453 Walker A/P-loop; other site 504728006454 ATP binding site [chemical binding]; other site 504728006455 Q-loop/lid; other site 504728006456 ABC transporter signature motif; other site 504728006457 Walker B; other site 504728006458 D-loop; other site 504728006459 H-loop/switch region; other site 504728006460 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 504728006461 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 504728006462 substrate binding pocket [chemical binding]; other site 504728006463 membrane-bound complex binding site; other site 504728006464 hinge residues; other site 504728006465 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 504728006466 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 504728006467 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 504728006468 motif II; other site 504728006469 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728006470 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 504728006471 active site 504728006472 metal binding site [ion binding]; metal-binding site 504728006473 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 504728006474 Predicted permeases [General function prediction only]; Region: COG0795 504728006475 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 504728006476 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 504728006477 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 504728006478 inhibitor-cofactor binding pocket; inhibition site 504728006479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728006480 catalytic residue [active] 504728006481 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 504728006482 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 504728006483 active site 504728006484 Zn binding site [ion binding]; other site 504728006485 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 504728006486 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 504728006487 Probable transposase; Region: OrfB_IS605; pfam01385 504728006488 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 504728006489 Transposase IS200 like; Region: Y1_Tnp; pfam01797 504728006490 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 504728006491 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 504728006492 Walker A motif; other site 504728006493 ATP binding site [chemical binding]; other site 504728006494 Walker B motif; other site 504728006495 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 504728006496 active site 504728006497 Protein of unknown function (DUF3248); Region: DUF3248; pfam11609 504728006498 Protein of unknown function (DUF3809); Region: DUF3809; pfam12723 504728006499 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 504728006500 metal-dependent hydrolase; Provisional; Region: PRK00685 504728006501 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 504728006502 Catalytic domain of Protein Kinases; Region: PKc; cd00180 504728006503 active site 504728006504 ATP binding site [chemical binding]; other site 504728006505 substrate binding site [chemical binding]; other site 504728006506 activation loop (A-loop); other site 504728006507 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 504728006508 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 504728006509 Uncharacterized acyl-CoA synthetase subfamily similar to Acetoacetyl-CoA synthetase; Region: AACS_like; cd05968 504728006510 acyl-activating enzyme (AAE) consensus motif; other site 504728006511 putative AMP binding site [chemical binding]; other site 504728006512 putative active site [active] 504728006513 putative CoA binding site [chemical binding]; other site 504728006514 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 504728006515 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 504728006516 Walker A motif; other site 504728006517 ATP binding site [chemical binding]; other site 504728006518 Walker B motif; other site 504728006519 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 504728006520 GTPase CgtA; Reviewed; Region: obgE; PRK12297 504728006521 GTP1/OBG; Region: GTP1_OBG; pfam01018 504728006522 Obg GTPase; Region: Obg; cd01898 504728006523 G1 box; other site 504728006524 GTP/Mg2+ binding site [chemical binding]; other site 504728006525 Switch I region; other site 504728006526 G2 box; other site 504728006527 G3 box; other site 504728006528 Switch II region; other site 504728006529 G4 box; other site 504728006530 G5 box; other site 504728006531 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 504728006532 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 504728006533 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 504728006534 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728006535 Zn2+ binding site [ion binding]; other site 504728006536 Mg2+ binding site [ion binding]; other site 504728006537 Transcriptional regulator [Transcription]; Region: LytR; COG1316 504728006538 lysine biosynthesis protein LysW; Region: lysW; TIGR01206 504728006539 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 504728006540 intersubunit interface [polypeptide binding]; other site 504728006541 active site 504728006542 catalytic residue [active] 504728006543 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 504728006544 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 504728006545 NAD(P) binding site [chemical binding]; other site 504728006546 catalytic residues [active] 504728006547 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 504728006548 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 504728006549 NAD(P) binding site [chemical binding]; other site 504728006550 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 504728006551 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 504728006552 ligand binding site [chemical binding]; other site 504728006553 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 504728006554 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 504728006555 DNA binding site [nucleotide binding] 504728006556 active site 504728006557 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728006558 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 504728006559 PLD-like domain; Region: PLDc_2; pfam13091 504728006560 putative active site [active] 504728006561 catalytic site [active] 504728006562 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 504728006563 PLD-like domain; Region: PLDc_2; pfam13091 504728006564 putative active site [active] 504728006565 catalytic site [active] 504728006566 Maf-like protein; Region: Maf; pfam02545 504728006567 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 504728006568 active site 504728006569 dimer interface [polypeptide binding]; other site 504728006570 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 504728006571 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 504728006572 HIGH motif; other site 504728006573 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 504728006574 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 504728006575 active site 504728006576 KMSKS motif; other site 504728006577 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 504728006578 tRNA binding surface [nucleotide binding]; other site 504728006579 anticodon binding site; other site 504728006580 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 504728006581 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728006582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728006583 metal binding site [ion binding]; metal-binding site 504728006584 active site 504728006585 I-site; other site 504728006586 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 504728006587 DNA photolyase; Region: DNA_photolyase; pfam00875 504728006588 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728006589 Acyltransferase family; Region: Acyl_transf_3; pfam01757 504728006590 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 504728006591 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 504728006592 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 504728006593 active site 504728006594 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504728006595 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 504728006596 Found in ATP-dependent protease La (LON); Region: LON; smart00464 504728006597 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 504728006598 Walker A motif; other site 504728006599 ATP binding site [chemical binding]; other site 504728006600 Walker B motif; other site 504728006601 arginine finger; other site 504728006602 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 504728006603 Protein of unknown function (DUF1517); Region: DUF1517; pfam07466 504728006604 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 504728006605 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 504728006606 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 504728006607 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 504728006608 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504728006609 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 504728006610 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728006611 putative catalytic residue [active] 504728006612 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 504728006613 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 504728006614 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728006615 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728006616 active site 504728006617 metal binding site [ion binding]; metal-binding site 504728006618 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 504728006619 putative active site [active] 504728006620 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 504728006621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728006622 NAD(P) binding site [chemical binding]; other site 504728006623 active site 504728006624 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 504728006625 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 504728006626 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 504728006627 Predicted membrane protein [Function unknown]; Region: COG4907 504728006628 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 504728006629 Protein of unknown function (DUF433); Region: DUF433; pfam04255 504728006630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 504728006631 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 504728006632 active site 504728006633 catalytic residues [active] 504728006634 metal binding site [ion binding]; metal-binding site 504728006635 FUN14 family; Region: FUN14; pfam04930 504728006636 short chain dehydrogenase; Provisional; Region: PRK07677 504728006637 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 504728006638 NAD(P) binding site [chemical binding]; other site 504728006639 substrate binding site [chemical binding]; other site 504728006640 homotetramer interface [polypeptide binding]; other site 504728006641 active site 504728006642 homodimer interface [polypeptide binding]; other site 504728006643 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 504728006644 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 504728006645 dimer interface [polypeptide binding]; other site 504728006646 active site 504728006647 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 504728006648 homotrimer interaction site [polypeptide binding]; other site 504728006649 zinc binding site [ion binding]; other site 504728006650 CDP-binding sites; other site 504728006651 Predicted membrane protein [Function unknown]; Region: COG2860 504728006652 UPF0126 domain; Region: UPF0126; pfam03458 504728006653 UPF0126 domain; Region: UPF0126; pfam03458 504728006654 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 504728006655 MgtE intracellular N domain; Region: MgtE_N; cl15244 504728006656 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 504728006657 YwiC-like protein; Region: YwiC; pfam14256 504728006658 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 504728006659 putative PBP binding loops; other site 504728006660 ABC-ATPase subunit interface; other site 504728006661 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 504728006662 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 504728006663 dimer interface [polypeptide binding]; other site 504728006664 conserved gate region; other site 504728006665 putative PBP binding loops; other site 504728006666 ABC-ATPase subunit interface; other site 504728006667 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728006668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728006669 Walker A/P-loop; other site 504728006670 ATP binding site [chemical binding]; other site 504728006671 Q-loop/lid; other site 504728006672 ABC transporter signature motif; other site 504728006673 Walker B; other site 504728006674 D-loop; other site 504728006675 H-loop/switch region; other site 504728006676 TOBE domain; Region: TOBE_2; pfam08402 504728006677 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 504728006678 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 504728006679 dimerization interface 3.5A [polypeptide binding]; other site 504728006680 active site 504728006681 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 504728006682 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 504728006683 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 504728006684 putative PBP binding loops; other site 504728006685 dimer interface [polypeptide binding]; other site 504728006686 ABC-ATPase subunit interface; other site 504728006687 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728006688 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 504728006689 dimer interface [polypeptide binding]; other site 504728006690 conserved gate region; other site 504728006691 putative PBP binding loops; other site 504728006692 ABC-ATPase subunit interface; other site 504728006693 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728006694 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 504728006695 peptide binding site [polypeptide binding]; other site 504728006696 dimer interface [polypeptide binding]; other site 504728006697 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 504728006698 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 504728006699 Metallopeptidase family M24; Region: Peptidase_M24; pfam00557 504728006700 active site 504728006701 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 504728006702 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 504728006703 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728006704 active site 504728006705 Transcriptional regulator [Transcription]; Region: LytR; COG1316 504728006706 HD supefamily hydrolase [General function prediction only]; Region: COG3294 504728006707 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 504728006708 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 504728006709 substrate binding site [chemical binding]; other site 504728006710 oxyanion hole (OAH) forming residues; other site 504728006711 trimer interface [polypeptide binding]; other site 504728006712 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 504728006713 5'-3' exonuclease; Region: 53EXOc; smart00475 504728006714 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 504728006715 active site 504728006716 metal binding site 1 [ion binding]; metal-binding site 504728006717 putative 5' ssDNA interaction site; other site 504728006718 metal binding site 3; metal-binding site 504728006719 metal binding site 2 [ion binding]; metal-binding site 504728006720 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 504728006721 putative DNA binding site [nucleotide binding]; other site 504728006722 putative metal binding site [ion binding]; other site 504728006723 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 504728006724 active site 504728006725 catalytic site [active] 504728006726 substrate binding site [chemical binding]; other site 504728006727 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 504728006728 active site 504728006729 DNA binding site [nucleotide binding] 504728006730 catalytic site [active] 504728006731 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 504728006732 protein-splicing catalytic site; other site 504728006733 thioester formation/cholesterol transfer; other site 504728006734 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 504728006735 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 504728006736 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 504728006737 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 504728006738 Dimer interface [polypeptide binding]; other site 504728006739 anticodon binding site; other site 504728006740 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 504728006741 homodimer interface [polypeptide binding]; other site 504728006742 motif 1; other site 504728006743 motif 2; other site 504728006744 active site 504728006745 motif 3; other site 504728006746 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 504728006747 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 504728006748 putative di-iron ligands [ion binding]; other site 504728006749 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 504728006750 DNA-binding site [nucleotide binding]; DNA binding site 504728006751 RNA-binding motif; other site 504728006752 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 504728006753 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 504728006754 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 504728006755 motif II; other site 504728006756 adenylosuccinate lyase; Provisional; Region: PRK07492 504728006757 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 504728006758 tetramer interface [polypeptide binding]; other site 504728006759 active site 504728006760 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 504728006761 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 504728006762 ATP binding site [chemical binding]; other site 504728006763 active site 504728006764 substrate binding site [chemical binding]; other site 504728006765 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 504728006766 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 504728006767 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 504728006768 putative active site [active] 504728006769 catalytic triad [active] 504728006770 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 504728006771 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 504728006772 motif II; other site 504728006773 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 504728006774 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 504728006775 dimerization interface [polypeptide binding]; other site 504728006776 ATP binding site [chemical binding]; other site 504728006777 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 504728006778 dimerization interface [polypeptide binding]; other site 504728006779 ATP binding site [chemical binding]; other site 504728006780 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 504728006781 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 504728006782 active site 504728006783 tetramer interface [polypeptide binding]; other site 504728006784 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728006785 active site 504728006786 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 504728006787 dimer interface [polypeptide binding]; other site 504728006788 FMN binding site [chemical binding]; other site 504728006789 NADPH bind site [chemical binding]; other site 504728006790 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 504728006791 dimer interface [polypeptide binding]; other site 504728006792 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728006793 ligand binding site [chemical binding]; other site 504728006794 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 504728006795 dimer interface [polypeptide binding]; other site 504728006796 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728006797 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 504728006798 dimer interface [polypeptide binding]; other site 504728006799 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 504728006800 non-specific DNA binding site [nucleotide binding]; other site 504728006801 salt bridge; other site 504728006802 sequence-specific DNA binding site [nucleotide binding]; other site 504728006803 RibD C-terminal domain; Region: RibD_C; cl17279 504728006804 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 504728006805 RibD C-terminal domain; Region: RibD_C; cl17279 504728006806 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 504728006807 Domain of unknown function (DUF955); Region: DUF955; cl01076 504728006808 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_37; cd04696 504728006809 nudix motif; other site 504728006810 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 504728006811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728006812 NAD(P) binding site [chemical binding]; other site 504728006813 active site 504728006814 putative GTP cyclohydrolase; Provisional; Region: PRK13674 504728006815 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 504728006816 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 504728006817 trimerization site [polypeptide binding]; other site 504728006818 active site 504728006819 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 504728006820 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 504728006821 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728006822 catalytic residue [active] 504728006823 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728006824 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728006825 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 504728006826 putative substrate translocation pore; other site 504728006827 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 504728006828 active site 504728006829 catalytic triad [active] 504728006830 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 504728006831 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 504728006832 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 504728006833 tetramer interface [polypeptide binding]; other site 504728006834 TPP-binding site [chemical binding]; other site 504728006835 heterodimer interface [polypeptide binding]; other site 504728006836 phosphorylation loop region [posttranslational modification] 504728006837 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 504728006838 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 504728006839 alpha subunit interface [polypeptide binding]; other site 504728006840 TPP binding site [chemical binding]; other site 504728006841 heterodimer interface [polypeptide binding]; other site 504728006842 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504728006843 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 504728006844 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 504728006845 E3 interaction surface; other site 504728006846 lipoyl attachment site [posttranslational modification]; other site 504728006847 e3 binding domain; Region: E3_binding; pfam02817 504728006848 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 504728006849 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 504728006850 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 504728006851 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504728006852 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 504728006853 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 504728006854 Protein of unknown function (DUF420); Region: DUF420; pfam04238 504728006855 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 504728006856 inhibitor site; inhibition site 504728006857 active site 504728006858 dimer interface [polypeptide binding]; other site 504728006859 catalytic residue [active] 504728006860 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728006861 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728006862 Walker A/P-loop; other site 504728006863 ATP binding site [chemical binding]; other site 504728006864 Q-loop/lid; other site 504728006865 ABC transporter signature motif; other site 504728006866 Walker B; other site 504728006867 D-loop; other site 504728006868 H-loop/switch region; other site 504728006869 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 504728006870 active sites [active] 504728006871 tetramer interface [polypeptide binding]; other site 504728006872 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 504728006873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728006874 DNA-binding site [nucleotide binding]; DNA binding site 504728006875 UTRA domain; Region: UTRA; pfam07702 504728006876 urocanate hydratase; Provisional; Region: PRK05414 504728006877 imidazolonepropionase; Validated; Region: PRK09356 504728006878 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 504728006879 active site 504728006880 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 504728006881 endonuclease III; Region: ENDO3c; smart00478 504728006882 minor groove reading motif; other site 504728006883 helix-hairpin-helix signature motif; other site 504728006884 substrate binding pocket [chemical binding]; other site 504728006885 active site 504728006886 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 504728006887 trimer interface [polypeptide binding]; other site 504728006888 dimer interface [polypeptide binding]; other site 504728006889 putative active site [active] 504728006890 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728006891 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728006892 Walker A/P-loop; other site 504728006893 ATP binding site [chemical binding]; other site 504728006894 Q-loop/lid; other site 504728006895 ABC transporter signature motif; other site 504728006896 Walker B; other site 504728006897 D-loop; other site 504728006898 H-loop/switch region; other site 504728006899 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 504728006900 histidinol-phosphatase; Provisional; Region: PRK07328 504728006901 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 504728006902 active site 504728006903 dimer interface [polypeptide binding]; other site 504728006904 hypothetical protein; Provisional; Region: PRK08609 504728006905 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 504728006906 metal binding triad [ion binding]; metal-binding site 504728006907 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 504728006908 active site 504728006909 FOG: CBS domain [General function prediction only]; Region: COG0517 504728006910 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 504728006911 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 504728006912 dimer interface [polypeptide binding]; other site 504728006913 putative tRNA-binding site [nucleotide binding]; other site 504728006914 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 504728006915 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 504728006916 Predicted permeases [General function prediction only]; Region: COG0795 504728006917 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 504728006918 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 504728006919 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 504728006920 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728006921 dimer interface [polypeptide binding]; other site 504728006922 substrate binding site [chemical binding]; other site 504728006923 metal binding site [ion binding]; metal-binding site 504728006924 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 504728006925 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 504728006926 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 504728006927 classical (c) SDRs; Region: SDR_c; cd05233 504728006928 NAD(P) binding site [chemical binding]; other site 504728006929 active site 504728006930 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 504728006931 Part of AAA domain; Region: AAA_19; pfam13245 504728006932 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 504728006933 Family description; Region: UvrD_C_2; pfam13538 504728006934 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 504728006935 Fic/DOC family; Region: Fic; cl00960 504728006936 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 504728006937 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 504728006938 homodimer interface [polypeptide binding]; other site 504728006939 substrate-cofactor binding pocket; other site 504728006940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728006941 catalytic residue [active] 504728006942 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 504728006943 Stage II sporulation protein; Region: SpoIID; pfam08486 504728006944 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 504728006945 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 504728006946 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504728006947 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 504728006948 motif II; other site 504728006949 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 504728006950 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 504728006951 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 504728006952 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 504728006953 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 504728006954 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 504728006955 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 504728006956 ATP-binding site [chemical binding]; other site 504728006957 Sugar specificity; other site 504728006958 Pyrimidine base specificity; other site 504728006959 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728006960 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 504728006961 putative substrate binding site [chemical binding]; other site 504728006962 putative ATP binding site [chemical binding]; other site 504728006963 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 504728006964 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 504728006965 Walker A/P-loop; other site 504728006966 ATP binding site [chemical binding]; other site 504728006967 Q-loop/lid; other site 504728006968 ABC transporter signature motif; other site 504728006969 Walker B; other site 504728006970 D-loop; other site 504728006971 H-loop/switch region; other site 504728006972 TOBE domain; Region: TOBE; pfam03459 504728006973 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 504728006974 4Fe-4S binding domain; Region: Fer4; cl02805 504728006975 Cysteine-rich domain; Region: CCG; pfam02754 504728006976 Cysteine-rich domain; Region: CCG; pfam02754 504728006977 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 504728006978 Divergent PAP2 family; Region: DUF212; pfam02681 504728006979 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14173 504728006980 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 504728006981 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 504728006982 homodimer interface [polypeptide binding]; other site 504728006983 NADP binding site [chemical binding]; other site 504728006984 substrate binding site [chemical binding]; other site 504728006985 transcription antitermination factor NusB; Region: nusB; TIGR01951 504728006986 putative RNA binding site [nucleotide binding]; other site 504728006987 Asp23 family; Region: Asp23; cl00574 504728006988 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728006989 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 504728006990 TM-ABC transporter signature motif; other site 504728006991 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 504728006992 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 504728006993 acyl-activating enzyme (AAE) consensus motif; other site 504728006994 putative AMP binding site [chemical binding]; other site 504728006995 putative active site [active] 504728006996 putative CoA binding site [chemical binding]; other site 504728006997 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728006998 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728006999 Walker A/P-loop; other site 504728007000 ATP binding site [chemical binding]; other site 504728007001 Q-loop/lid; other site 504728007002 ABC transporter signature motif; other site 504728007003 Walker B; other site 504728007004 D-loop; other site 504728007005 H-loop/switch region; other site 504728007006 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728007007 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728007008 Walker A/P-loop; other site 504728007009 ATP binding site [chemical binding]; other site 504728007010 Q-loop/lid; other site 504728007011 ABC transporter signature motif; other site 504728007012 Walker B; other site 504728007013 D-loop; other site 504728007014 H-loop/switch region; other site 504728007015 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 504728007016 TM-ABC transporter signature motif; other site 504728007017 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728007018 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504728007019 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 504728007020 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 504728007021 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728007022 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 504728007023 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 504728007024 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728007025 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 504728007026 active site 504728007027 metal binding site [ion binding]; metal-binding site 504728007028 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 504728007029 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728007030 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 504728007031 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 504728007032 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728007033 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728007034 DNA polymerase III, delta subunit; Region: holA; TIGR01128 504728007035 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 504728007036 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 504728007037 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 504728007038 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 504728007039 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 504728007040 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 504728007041 H+ Antiporter protein; Region: 2A0121; TIGR00900 504728007042 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 504728007043 putative substrate translocation pore; other site 504728007044 Phosphotransferase enzyme family; Region: APH; pfam01636 504728007045 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 504728007046 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728007047 active site 504728007048 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 504728007049 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 504728007050 Mg++ binding site [ion binding]; other site 504728007051 putative catalytic motif [active] 504728007052 substrate binding site [chemical binding]; other site 504728007053 NADH-quinone oxidoreductase chain 15; Region: NADH_Oxid_Nqo15; pfam11497 504728007054 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 504728007055 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 504728007056 GIY-YIG motif/motif A; other site 504728007057 active site 504728007058 catalytic site [active] 504728007059 putative DNA binding site [nucleotide binding]; other site 504728007060 metal binding site [ion binding]; metal-binding site 504728007061 UvrB/uvrC motif; Region: UVR; pfam02151 504728007062 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 504728007063 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 504728007064 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728007065 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 504728007066 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 504728007067 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 504728007068 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 504728007069 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 504728007070 threonine synthase; Validated; Region: PRK09225 504728007071 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728007072 catalytic residue [active] 504728007073 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 504728007074 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 504728007075 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 504728007076 aspartate aminotransferase; Provisional; Region: PRK05764 504728007077 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 504728007078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728007079 homodimer interface [polypeptide binding]; other site 504728007080 catalytic residue [active] 504728007081 Protein of unknown function (DUF402); Region: DUF402; pfam04167 504728007082 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 504728007083 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 504728007084 Phenylacetic acid degradation B; Region: PaaB; cl01371 504728007085 Phenylacetic acid degradation B; Region: PaaB; cl01371 504728007086 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 504728007087 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 504728007088 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 504728007089 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504728007090 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 504728007091 ABC-ATPase subunit interface; other site 504728007092 dimer interface [polypeptide binding]; other site 504728007093 putative PBP binding regions; other site 504728007094 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 504728007095 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728007096 siderophore binding site; other site 504728007097 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504728007098 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504728007099 Walker A/P-loop; other site 504728007100 ATP binding site [chemical binding]; other site 504728007101 Q-loop/lid; other site 504728007102 ABC transporter signature motif; other site 504728007103 Walker B; other site 504728007104 D-loop; other site 504728007105 H-loop/switch region; other site 504728007106 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504728007107 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 504728007108 ABC-ATPase subunit interface; other site 504728007109 dimer interface [polypeptide binding]; other site 504728007110 putative PBP binding regions; other site 504728007111 flavodoxin FldA; Validated; Region: PRK09267 504728007112 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 504728007113 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 504728007114 siderophore binding site; other site 504728007115 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 504728007116 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 504728007117 siderophore binding site; other site 504728007118 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 504728007119 hydrophobic ligand binding site; other site 504728007120 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 504728007121 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728007122 intersubunit interface [polypeptide binding]; other site 504728007123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 504728007124 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504728007125 Walker A/P-loop; other site 504728007126 ATP binding site [chemical binding]; other site 504728007127 Q-loop/lid; other site 504728007128 ABC transporter signature motif; other site 504728007129 Walker B; other site 504728007130 D-loop; other site 504728007131 H-loop/switch region; other site 504728007132 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504728007133 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504728007134 Walker A/P-loop; other site 504728007135 ATP binding site [chemical binding]; other site 504728007136 Q-loop/lid; other site 504728007137 ABC transporter signature motif; other site 504728007138 Walker B; other site 504728007139 D-loop; other site 504728007140 H-loop/switch region; other site 504728007141 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504728007142 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 504728007143 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 504728007144 intersubunit interface [polypeptide binding]; other site 504728007145 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 504728007146 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 504728007147 putative FMN binding site [chemical binding]; other site 504728007148 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 504728007149 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 504728007150 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 504728007151 metal ion-dependent adhesion site (MIDAS); other site 504728007152 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 504728007153 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 504728007154 Iron permease FTR1 family; Region: FTR1; cl00475 504728007155 Imelysin; Region: Peptidase_M75; cl09159 504728007156 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 504728007157 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 504728007158 Dehydroquinase class II; Region: DHquinase_II; pfam01220 504728007159 active site 504728007160 trimer interface [polypeptide binding]; other site 504728007161 dimer interface [polypeptide binding]; other site 504728007162 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 504728007163 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504728007164 Walker A/P-loop; other site 504728007165 ATP binding site [chemical binding]; other site 504728007166 Q-loop/lid; other site 504728007167 ABC transporter signature motif; other site 504728007168 Walker B; other site 504728007169 D-loop; other site 504728007170 H-loop/switch region; other site 504728007171 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504728007172 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 504728007173 ABC-ATPase subunit interface; other site 504728007174 dimer interface [polypeptide binding]; other site 504728007175 putative PBP binding regions; other site 504728007176 Protein of unknown function (DUF3386); Region: DUF3386; pfam11866 504728007177 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 504728007178 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728007179 intersubunit interface [polypeptide binding]; other site 504728007180 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 504728007181 BioY family; Region: BioY; pfam02632 504728007182 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 504728007183 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 504728007184 dimerization interface [polypeptide binding]; other site 504728007185 putative Zn2+ binding site [ion binding]; other site 504728007186 putative DNA binding site [nucleotide binding]; other site 504728007187 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 504728007188 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 504728007189 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 504728007190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 504728007191 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728007192 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728007193 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728007194 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 504728007195 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 504728007196 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 504728007197 ATP binding site [chemical binding]; other site 504728007198 putative Mg++ binding site [ion binding]; other site 504728007199 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 504728007200 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 504728007201 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 504728007202 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 504728007203 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 504728007204 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 504728007205 HsdM N-terminal domain; Region: HsdM_N; pfam12161 504728007206 Methyltransferase domain; Region: Methyltransf_26; pfam13659 504728007207 Class I aldolases; Region: Aldolase_Class_I; cl17187 504728007208 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728007209 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 504728007210 substrate binding site [chemical binding]; other site 504728007211 ATP binding site [chemical binding]; other site 504728007212 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 504728007213 hexamer (dimer of trimers) interface [polypeptide binding]; other site 504728007214 trimer interface [polypeptide binding]; other site 504728007215 substrate binding site [chemical binding]; other site 504728007216 Mn binding site [ion binding]; other site 504728007217 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728007218 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 504728007219 dimer interface [polypeptide binding]; other site 504728007220 conserved gate region; other site 504728007221 putative PBP binding loops; other site 504728007222 ABC-ATPase subunit interface; other site 504728007223 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 504728007224 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 504728007225 dimer interface [polypeptide binding]; other site 504728007226 putative PBP binding loops; other site 504728007227 ABC-ATPase subunit interface; other site 504728007228 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728007229 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728007230 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 504728007231 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 504728007232 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 504728007233 ligand binding site [chemical binding]; other site 504728007234 NAD binding site [chemical binding]; other site 504728007235 dimerization interface [polypeptide binding]; other site 504728007236 catalytic site [active] 504728007237 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 504728007238 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 504728007239 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504728007240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728007241 DNA-binding site [nucleotide binding]; DNA binding site 504728007242 FCD domain; Region: FCD; pfam07729 504728007243 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 504728007244 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 504728007245 putative active site [active] 504728007246 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 504728007247 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 504728007248 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 504728007249 active site 504728007250 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 504728007251 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 504728007252 VanW like protein; Region: VanW; pfam04294 504728007253 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728007254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728007255 metal binding site [ion binding]; metal-binding site 504728007256 active site 504728007257 I-site; other site 504728007258 membrane protein; Provisional; Region: PRK14402 504728007259 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 504728007260 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 504728007261 Moco binding site; other site 504728007262 metal coordination site [ion binding]; other site 504728007263 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 504728007264 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 504728007265 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728007266 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 504728007267 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 504728007268 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 504728007269 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 504728007270 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728007271 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728007272 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 504728007273 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 504728007274 FtsH Extracellular; Region: FtsH_ext; pfam06480 504728007275 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 504728007276 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 504728007277 Walker A motif; other site 504728007278 ATP binding site [chemical binding]; other site 504728007279 Walker B motif; other site 504728007280 arginine finger; other site 504728007281 Peptidase family M41; Region: Peptidase_M41; pfam01434 504728007282 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 504728007283 binding surface 504728007284 TPR motif; other site 504728007285 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 504728007286 active site 504728007287 dimer interfaces [polypeptide binding]; other site 504728007288 catalytic residues [active] 504728007289 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 504728007290 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 504728007291 CoA binding domain; Region: CoA_binding_2; pfam13380 504728007292 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 504728007293 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 504728007294 Methyltransferase domain; Region: Methyltransf_26; pfam13659 504728007295 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 504728007296 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; cd00200 504728007297 structural tetrad; other site 504728007298 FOG: WD40 repeat [General function prediction only]; Region: COG2319 504728007299 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; cd00200 504728007300 structural tetrad; other site 504728007301 FOG: WD40 repeat [General function prediction only]; Region: COG2319 504728007302 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 504728007303 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728007304 cobalamin binding residues [chemical binding]; other site 504728007305 putative BtuC binding residues; other site 504728007306 dimer interface [polypeptide binding]; other site 504728007307 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 504728007308 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728007309 active site 504728007310 NTP binding site [chemical binding]; other site 504728007311 metal binding triad [ion binding]; metal-binding site 504728007312 antibiotic binding site [chemical binding]; other site 504728007313 Protein of unknown function DUF86; Region: DUF86; cl01031 504728007314 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728007315 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728007316 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728007317 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 504728007318 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 504728007319 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 504728007320 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 504728007321 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 504728007322 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 504728007323 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 504728007324 thymidylate kinase; Validated; Region: tmk; PRK00698 504728007325 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 504728007326 TMP-binding site; other site 504728007327 ATP-binding site [chemical binding]; other site 504728007328 Uncharacterized conserved protein [Function unknown]; Region: COG0327 504728007329 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 504728007330 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 504728007331 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 504728007332 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728007333 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504728007334 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 504728007335 active site 504728007336 catalytic residue [active] 504728007337 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 504728007338 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 504728007339 putative active site [active] 504728007340 Zn binding site [ion binding]; other site 504728007341 pyridoxamine kinase; Validated; Region: PRK05756 504728007342 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 504728007343 dimer interface [polypeptide binding]; other site 504728007344 pyridoxal binding site [chemical binding]; other site 504728007345 ATP binding site [chemical binding]; other site 504728007346 Prokaryotic phospholipase A2; Region: Phospholip_A2_3; pfam09056 504728007347 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728007348 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728007349 DNA binding site [nucleotide binding] 504728007350 domain linker motif; other site 504728007351 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 504728007352 dimerization interface [polypeptide binding]; other site 504728007353 ligand binding site [chemical binding]; other site 504728007354 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 504728007355 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 504728007356 ligand binding site [chemical binding]; other site 504728007357 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728007358 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 504728007359 TM-ABC transporter signature motif; other site 504728007360 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728007361 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728007362 Walker A/P-loop; other site 504728007363 ATP binding site [chemical binding]; other site 504728007364 Q-loop/lid; other site 504728007365 ABC transporter signature motif; other site 504728007366 Walker B; other site 504728007367 D-loop; other site 504728007368 H-loop/switch region; other site 504728007369 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728007370 D-xylulose kinase; Region: XylB; TIGR01312 504728007371 nucleotide binding site [chemical binding]; other site 504728007372 Protein of unknown function, DUF480; Region: DUF480; pfam04337 504728007373 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 504728007374 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 504728007375 GTP binding site; other site 504728007376 PBP superfamily domain; Region: PBP_like_2; cl17296 504728007377 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 504728007378 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 504728007379 dimer interface [polypeptide binding]; other site 504728007380 conserved gate region; other site 504728007381 putative PBP binding loops; other site 504728007382 ABC-ATPase subunit interface; other site 504728007383 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 504728007384 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 504728007385 dimer interface [polypeptide binding]; other site 504728007386 conserved gate region; other site 504728007387 ABC-ATPase subunit interface; other site 504728007388 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 504728007389 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 504728007390 Walker A/P-loop; other site 504728007391 ATP binding site [chemical binding]; other site 504728007392 Q-loop/lid; other site 504728007393 ABC transporter signature motif; other site 504728007394 Walker B; other site 504728007395 D-loop; other site 504728007396 H-loop/switch region; other site 504728007397 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 504728007398 putative active site [active] 504728007399 catalytic residue [active] 504728007400 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 504728007401 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 504728007402 5S rRNA interface [nucleotide binding]; other site 504728007403 CTC domain interface [polypeptide binding]; other site 504728007404 L16 interface [polypeptide binding]; other site 504728007405 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504728007406 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 504728007407 dimer interface [polypeptide binding]; other site 504728007408 ssDNA binding site [nucleotide binding]; other site 504728007409 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728007410 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504728007411 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 504728007412 dimer interface [polypeptide binding]; other site 504728007413 ssDNA binding site [nucleotide binding]; other site 504728007414 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728007415 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 504728007416 malate synthase A; Region: malate_syn_A; TIGR01344 504728007417 active site 504728007418 transcriptional repressor IclR; Provisional; Region: PRK11569 504728007419 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 504728007420 Bacterial transcriptional regulator; Region: IclR; pfam01614 504728007421 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 504728007422 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07803 504728007423 L-aspartate oxidase; Provisional; Region: PRK06175 504728007424 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 504728007425 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12386 504728007426 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 504728007427 catalytic loop [active] 504728007428 iron binding site [ion binding]; other site 504728007429 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 504728007430 dimer interface [polypeptide binding]; other site 504728007431 conserved gate region; other site 504728007432 putative PBP binding loops; other site 504728007433 ABC-ATPase subunit interface; other site 504728007434 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728007435 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 504728007436 dimer interface [polypeptide binding]; other site 504728007437 conserved gate region; other site 504728007438 putative PBP binding loops; other site 504728007439 ABC-ATPase subunit interface; other site 504728007440 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728007441 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728007442 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 504728007443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728007444 DNA-binding site [nucleotide binding]; DNA binding site 504728007445 FCD domain; Region: FCD; pfam07729 504728007446 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728007447 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 504728007448 putative ligand binding site [chemical binding]; other site 504728007449 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 504728007450 TM-ABC transporter signature motif; other site 504728007451 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 504728007452 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728007453 TM-ABC transporter signature motif; other site 504728007454 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728007455 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728007456 Walker A/P-loop; other site 504728007457 ATP binding site [chemical binding]; other site 504728007458 Q-loop/lid; other site 504728007459 ABC transporter signature motif; other site 504728007460 Walker B; other site 504728007461 D-loop; other site 504728007462 H-loop/switch region; other site 504728007463 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728007464 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728007465 Walker A/P-loop; other site 504728007466 ATP binding site [chemical binding]; other site 504728007467 Q-loop/lid; other site 504728007468 ABC transporter signature motif; other site 504728007469 Walker B; other site 504728007470 D-loop; other site 504728007471 H-loop/switch region; other site 504728007472 SnoaL-like domain; Region: SnoaL_2; pfam12680 504728007473 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504728007474 classical (c) SDRs; Region: SDR_c; cd05233 504728007475 NAD(P) binding site [chemical binding]; other site 504728007476 active site 504728007477 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504728007478 FAD binding domain; Region: FAD_binding_4; pfam01565 504728007479 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728007480 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 504728007481 active site 504728007482 metal binding site [ion binding]; metal-binding site 504728007483 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 504728007484 histidinol dehydrogenase; Region: hisD; TIGR00069 504728007485 NAD binding site [chemical binding]; other site 504728007486 dimerization interface [polypeptide binding]; other site 504728007487 product binding site; other site 504728007488 substrate binding site [chemical binding]; other site 504728007489 zinc binding site [ion binding]; other site 504728007490 catalytic residues [active] 504728007491 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 504728007492 classical (c) SDRs; Region: SDR_c; cd05233 504728007493 NAD(P) binding site [chemical binding]; other site 504728007494 active site 504728007495 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 504728007496 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 504728007497 active site 504728007498 metal binding site [ion binding]; metal-binding site 504728007499 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 504728007500 active site 504728007501 metal binding site [ion binding]; metal-binding site 504728007502 Putative cyclase; Region: Cyclase; pfam04199 504728007503 Amidohydrolase; Region: Amidohydro_2; pfam04909 504728007504 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 504728007505 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504728007506 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 504728007507 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504728007508 hypothetical protein; Provisional; Region: PRK06847 504728007509 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504728007510 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 504728007511 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 504728007512 classical (c) SDRs; Region: SDR_c; cd05233 504728007513 NAD(P) binding site [chemical binding]; other site 504728007514 active site 504728007515 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 504728007516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728007517 NAD(P) binding site [chemical binding]; other site 504728007518 active site 504728007519 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 504728007520 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728007521 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728007522 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728007523 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728007524 DNA binding site [nucleotide binding] 504728007525 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 504728007526 dimerization interface [polypeptide binding]; other site 504728007527 ligand binding site [chemical binding]; other site 504728007528 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 504728007529 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 504728007530 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 504728007531 DctM-like transporters; Region: DctM; pfam06808 504728007532 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 504728007533 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504728007534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728007535 NAD(P) binding site [chemical binding]; other site 504728007536 active site 504728007537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728007538 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 504728007539 NAD(P) binding site [chemical binding]; other site 504728007540 active site 504728007541 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 504728007542 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 504728007543 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 504728007544 Ligand Binding Site [chemical binding]; other site 504728007545 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728007546 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728007547 metal binding site [ion binding]; metal-binding site 504728007548 active site 504728007549 I-site; other site 504728007550 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 504728007551 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 504728007552 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 504728007553 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728007554 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504728007555 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728007556 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 504728007557 metal binding triad [ion binding]; metal-binding site 504728007558 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 504728007559 Mandelate racemase / muconate lactonizing enzyme, N-terminal domain; Region: MR_MLE_N; pfam02746 504728007560 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 504728007561 metal binding site [ion binding]; metal-binding site 504728007562 substrate binding pocket [chemical binding]; other site 504728007563 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 504728007564 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728007565 active site 504728007566 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK14618 504728007567 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 504728007568 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 504728007569 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504728007570 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 504728007571 non-specific DNA binding site [nucleotide binding]; other site 504728007572 salt bridge; other site 504728007573 sequence-specific DNA binding site [nucleotide binding]; other site 504728007574 Restriction endonuclease PvuII; Region: Endonuc-PvuII; pfam09225 504728007575 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 504728007576 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728007577 phosphoenolpyruvate synthase; Validated; Region: PRK06464 504728007578 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 504728007579 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 504728007580 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 504728007581 PEP synthetase regulatory protein; Provisional; Region: PRK05339 504728007582 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 504728007583 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 504728007584 HIGH motif; other site 504728007585 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 504728007586 active site 504728007587 KMSKS motif; other site 504728007588 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 504728007589 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 504728007590 Walker A/P-loop; other site 504728007591 ATP binding site [chemical binding]; other site 504728007592 Q-loop/lid; other site 504728007593 ABC transporter signature motif; other site 504728007594 Walker B; other site 504728007595 D-loop; other site 504728007596 H-loop/switch region; other site 504728007597 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 504728007598 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 504728007599 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 504728007600 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 504728007601 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 504728007602 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 504728007603 Substrate-binding site [chemical binding]; other site 504728007604 Substrate specificity [chemical binding]; other site 504728007605 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 504728007606 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 504728007607 Substrate-binding site [chemical binding]; other site 504728007608 Substrate specificity [chemical binding]; other site 504728007609 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 504728007610 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 504728007611 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 504728007612 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 504728007613 replicative DNA helicase; Validated; Region: PRK07773 504728007614 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 504728007615 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 504728007616 Walker A motif; other site 504728007617 ATP binding site [chemical binding]; other site 504728007618 Walker B motif; other site 504728007619 DNA binding loops [nucleotide binding] 504728007620 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 504728007621 protein-splicing catalytic site; other site 504728007622 thioester formation/cholesterol transfer; other site 504728007623 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 504728007624 protein-splicing catalytic site; other site 504728007625 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 504728007626 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 504728007627 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 504728007628 Walker A/P-loop; other site 504728007629 ATP binding site [chemical binding]; other site 504728007630 Q-loop/lid; other site 504728007631 ABC transporter signature motif; other site 504728007632 Walker B; other site 504728007633 D-loop; other site 504728007634 H-loop/switch region; other site 504728007635 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504728007636 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 504728007637 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 504728007638 dimer interface [polypeptide binding]; other site 504728007639 conserved gate region; other site 504728007640 putative PBP binding loops; other site 504728007641 ABC-ATPase subunit interface; other site 504728007642 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 504728007643 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 504728007644 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 504728007645 alphaNTD - beta interaction site [polypeptide binding]; other site 504728007646 alphaNTD homodimer interface [polypeptide binding]; other site 504728007647 alphaNTD - beta' interaction site [polypeptide binding]; other site 504728007648 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 504728007649 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 504728007650 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 504728007651 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 504728007652 RNA binding surface [nucleotide binding]; other site 504728007653 30S ribosomal protein S11; Validated; Region: PRK05309 504728007654 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 504728007655 30S ribosomal protein S13; Region: bact_S13; TIGR03631 504728007656 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 504728007657 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 504728007658 rRNA binding site [nucleotide binding]; other site 504728007659 predicted 30S ribosome binding site; other site 504728007660 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 504728007661 active site 504728007662 adenylate kinase; Provisional; Region: PRK14527 504728007663 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 504728007664 AMP-binding site [chemical binding]; other site 504728007665 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 504728007666 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 504728007667 SecY translocase; Region: SecY; pfam00344 504728007668 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 504728007669 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 504728007670 23S rRNA binding site [nucleotide binding]; other site 504728007671 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 504728007672 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 504728007673 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 504728007674 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 504728007675 5S rRNA interface [nucleotide binding]; other site 504728007676 L27 interface [polypeptide binding]; other site 504728007677 23S rRNA interface [nucleotide binding]; other site 504728007678 L5 interface [polypeptide binding]; other site 504728007679 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 504728007680 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 504728007681 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 504728007682 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 504728007683 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 504728007684 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 504728007685 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 504728007686 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 504728007687 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 504728007688 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 504728007689 RNA binding site [nucleotide binding]; other site 504728007690 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 504728007691 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 504728007692 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 504728007693 23S rRNA interface [nucleotide binding]; other site 504728007694 putative translocon interaction site; other site 504728007695 signal recognition particle (SRP54) interaction site; other site 504728007696 L23 interface [polypeptide binding]; other site 504728007697 trigger factor interaction site; other site 504728007698 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 504728007699 23S rRNA interface [nucleotide binding]; other site 504728007700 5S rRNA interface [nucleotide binding]; other site 504728007701 putative antibiotic binding site [chemical binding]; other site 504728007702 L25 interface [polypeptide binding]; other site 504728007703 L27 interface [polypeptide binding]; other site 504728007704 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 504728007705 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 504728007706 G-X-X-G motif; other site 504728007707 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 504728007708 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 504728007709 putative translocon binding site; other site 504728007710 protein-rRNA interface [nucleotide binding]; other site 504728007711 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 504728007712 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 504728007713 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 504728007714 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 504728007715 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 504728007716 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 504728007717 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 504728007718 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 504728007719 elongation factor Tu; Reviewed; Region: PRK00049 504728007720 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 504728007721 G1 box; other site 504728007722 GEF interaction site [polypeptide binding]; other site 504728007723 GTP/Mg2+ binding site [chemical binding]; other site 504728007724 Switch I region; other site 504728007725 G2 box; other site 504728007726 G3 box; other site 504728007727 Switch II region; other site 504728007728 G4 box; other site 504728007729 G5 box; other site 504728007730 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 504728007731 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 504728007732 Antibiotic Binding Site [chemical binding]; other site 504728007733 elongation factor G; Reviewed; Region: PRK00007 504728007734 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 504728007735 G1 box; other site 504728007736 putative GEF interaction site [polypeptide binding]; other site 504728007737 GTP/Mg2+ binding site [chemical binding]; other site 504728007738 Switch I region; other site 504728007739 G2 box; other site 504728007740 G3 box; other site 504728007741 Switch II region; other site 504728007742 G4 box; other site 504728007743 G5 box; other site 504728007744 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 504728007745 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 504728007746 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 504728007747 30S ribosomal protein S7; Validated; Region: PRK05302 504728007748 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 504728007749 S17 interaction site [polypeptide binding]; other site 504728007750 S8 interaction site; other site 504728007751 16S rRNA interaction site [nucleotide binding]; other site 504728007752 streptomycin interaction site [chemical binding]; other site 504728007753 23S rRNA interaction site [nucleotide binding]; other site 504728007754 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 504728007755 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 504728007756 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 504728007757 Cu(I) binding site [ion binding]; other site 504728007758 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12333 504728007759 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 504728007760 homodimer interface [polypeptide binding]; other site 504728007761 metal binding site [ion binding]; metal-binding site 504728007762 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 504728007763 putative active site [active] 504728007764 putative CoA binding site [chemical binding]; other site 504728007765 nudix motif; other site 504728007766 metal binding site [ion binding]; metal-binding site 504728007767 PaaX-like protein; Region: PaaX; pfam07848 504728007768 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 504728007769 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 504728007770 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 504728007771 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 504728007772 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 504728007773 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 504728007774 inhibitor-cofactor binding pocket; inhibition site 504728007775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728007776 catalytic residue [active] 504728007777 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 504728007778 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728007779 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504728007780 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728007781 metal ion-dependent adhesion site (MIDAS); other site 504728007782 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 504728007783 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 504728007784 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 504728007785 FMN binding site [chemical binding]; other site 504728007786 substrate binding site [chemical binding]; other site 504728007787 putative catalytic residue [active] 504728007788 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 504728007789 Fe-S cluster binding site [ion binding]; other site 504728007790 DNA binding site [nucleotide binding] 504728007791 active site 504728007792 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; cl00200 504728007793 amphipathic channel; other site 504728007794 Asn-Pro-Ala signature motifs; other site 504728007795 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 504728007796 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 504728007797 Glutamate binding site [chemical binding]; other site 504728007798 homodimer interface [polypeptide binding]; other site 504728007799 NAD binding site [chemical binding]; other site 504728007800 catalytic residues [active] 504728007801 Proline dehydrogenase; Region: Pro_dh; cl03282 504728007802 Transcriptional regulators [Transcription]; Region: FadR; COG2186 504728007803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728007804 DNA-binding site [nucleotide binding]; DNA binding site 504728007805 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 504728007806 S-adenosylmethionine synthetase; Validated; Region: PRK05250 504728007807 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 504728007808 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 504728007809 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 504728007810 GAF domain; Region: GAF_3; pfam13492 504728007811 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728007812 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 504728007813 GAF domain; Region: GAF; cl17456 504728007814 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728007815 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728007816 Zn2+ binding site [ion binding]; other site 504728007817 Mg2+ binding site [ion binding]; other site 504728007818 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 504728007819 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 504728007820 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 504728007821 active site 504728007822 metal binding site [ion binding]; metal-binding site 504728007823 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 504728007824 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 504728007825 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 504728007826 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 504728007827 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 504728007828 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 504728007829 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 504728007830 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 504728007831 dimerization interface [polypeptide binding]; other site 504728007832 ligand binding site [chemical binding]; other site 504728007833 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 504728007834 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728007835 TM-ABC transporter signature motif; other site 504728007836 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728007837 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 504728007838 TM-ABC transporter signature motif; other site 504728007839 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728007840 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728007841 Walker A/P-loop; other site 504728007842 ATP binding site [chemical binding]; other site 504728007843 Q-loop/lid; other site 504728007844 ABC transporter signature motif; other site 504728007845 Walker B; other site 504728007846 D-loop; other site 504728007847 H-loop/switch region; other site 504728007848 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728007849 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728007850 Walker A/P-loop; other site 504728007851 ATP binding site [chemical binding]; other site 504728007852 Q-loop/lid; other site 504728007853 ABC transporter signature motif; other site 504728007854 Walker B; other site 504728007855 D-loop; other site 504728007856 H-loop/switch region; other site 504728007857 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 504728007858 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728007859 Coenzyme A binding pocket [chemical binding]; other site 504728007860 Uncharacterized conserved protein [Function unknown]; Region: COG3339 504728007861 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728007862 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 504728007863 peptide binding site [polypeptide binding]; other site 504728007864 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728007865 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 504728007866 dimer interface [polypeptide binding]; other site 504728007867 conserved gate region; other site 504728007868 putative PBP binding loops; other site 504728007869 ABC-ATPase subunit interface; other site 504728007870 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 504728007871 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 504728007872 dimer interface [polypeptide binding]; other site 504728007873 conserved gate region; other site 504728007874 putative PBP binding loops; other site 504728007875 ABC-ATPase subunit interface; other site 504728007876 PrcB C-terminal; Region: PrcB_C; pfam14343 504728007877 GTP-binding protein Der; Reviewed; Region: PRK00093 504728007878 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 504728007879 G1 box; other site 504728007880 GTP/Mg2+ binding site [chemical binding]; other site 504728007881 Switch I region; other site 504728007882 G2 box; other site 504728007883 Switch II region; other site 504728007884 G3 box; other site 504728007885 G4 box; other site 504728007886 G5 box; other site 504728007887 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 504728007888 G1 box; other site 504728007889 GTP/Mg2+ binding site [chemical binding]; other site 504728007890 Switch I region; other site 504728007891 G2 box; other site 504728007892 G3 box; other site 504728007893 Switch II region; other site 504728007894 G4 box; other site 504728007895 G5 box; other site 504728007896 short chain dehydrogenase; Provisional; Region: PRK07454 504728007897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728007898 NAD(P) binding site [chemical binding]; other site 504728007899 active site 504728007900 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728007901 Ion transport protein; Region: Ion_trans; pfam00520 504728007902 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 504728007903 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 504728007904 putative acyl-acceptor binding pocket; other site 504728007905 peptide chain release factor 1; Validated; Region: prfA; PRK00591 504728007906 PCRF domain; Region: PCRF; cl17745 504728007907 RF-1 domain; Region: RF-1; pfam00472 504728007908 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 504728007909 nudix motif; other site 504728007910 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 504728007911 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 504728007912 putative tRNA-binding site [nucleotide binding]; other site 504728007913 B3/4 domain; Region: B3_4; pfam03483 504728007914 tRNA synthetase B5 domain; Region: B5; smart00874 504728007915 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 504728007916 dimer interface [polypeptide binding]; other site 504728007917 motif 1; other site 504728007918 motif 3; other site 504728007919 motif 2; other site 504728007920 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 504728007921 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 504728007922 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 504728007923 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 504728007924 dimer interface [polypeptide binding]; other site 504728007925 motif 1; other site 504728007926 active site 504728007927 motif 2; other site 504728007928 motif 3; other site 504728007929 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 504728007930 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 504728007931 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 504728007932 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 504728007933 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504728007934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728007935 DNA-binding site [nucleotide binding]; DNA binding site 504728007936 FCD domain; Region: FCD; pfam07729 504728007937 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 504728007938 N-terminal, non-catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_N_like; cd09013 504728007939 tetramer interface [polypeptide binding]; other site 504728007940 C-terminal, catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_C_like; cd09014 504728007941 tetramer interface [polypeptide binding]; other site 504728007942 active site 504728007943 metal binding site [ion binding]; metal-binding site 504728007944 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 504728007945 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504728007946 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 504728007947 inter-subunit interface; other site 504728007948 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 504728007949 iron-sulfur cluster [ion binding]; other site 504728007950 [2Fe-2S] cluster binding site [ion binding]; other site 504728007951 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 504728007952 beta subunit interface [polypeptide binding]; other site 504728007953 alpha subunit interface [polypeptide binding]; other site 504728007954 active site 504728007955 substrate binding site [chemical binding]; other site 504728007956 Fe binding site [ion binding]; other site 504728007957 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 504728007958 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728007959 Walker A/P-loop; other site 504728007960 ATP binding site [chemical binding]; other site 504728007961 Q-loop/lid; other site 504728007962 ABC transporter signature motif; other site 504728007963 Walker B; other site 504728007964 D-loop; other site 504728007965 H-loop/switch region; other site 504728007966 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728007967 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728007968 Walker A/P-loop; other site 504728007969 ATP binding site [chemical binding]; other site 504728007970 Q-loop/lid; other site 504728007971 ABC transporter signature motif; other site 504728007972 Walker B; other site 504728007973 D-loop; other site 504728007974 H-loop/switch region; other site 504728007975 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728007976 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 504728007977 TM-ABC transporter signature motif; other site 504728007978 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 504728007979 TM-ABC transporter signature motif; other site 504728007980 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728007981 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 504728007982 putative ligand binding site [chemical binding]; other site 504728007983 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 504728007984 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 504728007985 Bacterial transcriptional regulator; Region: IclR; pfam01614 504728007986 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 504728007987 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 504728007988 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504728007989 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 504728007990 multimer interface [polypeptide binding]; other site 504728007991 heterodimer interface [polypeptide binding]; other site 504728007992 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 504728007993 active site 504728007994 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 504728007995 active site 504728007996 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 504728007997 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 504728007998 tetramer interface [polypeptide binding]; other site 504728007999 active site 504728008000 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 504728008001 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 504728008002 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 504728008003 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 504728008004 argininosuccinate synthase; Provisional; Region: PRK13820 504728008005 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 504728008006 ANP binding site [chemical binding]; other site 504728008007 Substrate Binding Site II [chemical binding]; other site 504728008008 Substrate Binding Site I [chemical binding]; other site 504728008009 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728008010 Coenzyme A binding pocket [chemical binding]; other site 504728008011 argininosuccinate lyase; Provisional; Region: PRK00855 504728008012 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 504728008013 active sites [active] 504728008014 tetramer interface [polypeptide binding]; other site 504728008015 putative acetyltransferase; Provisional; Region: PRK03624 504728008016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728008017 Coenzyme A binding pocket [chemical binding]; other site 504728008018 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 504728008019 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 504728008020 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 504728008021 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 504728008022 catalytic site [active] 504728008023 subunit interface [polypeptide binding]; other site 504728008024 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728008025 active site 504728008026 NTP binding site [chemical binding]; other site 504728008027 metal binding triad [ion binding]; metal-binding site 504728008028 antibiotic binding site [chemical binding]; other site 504728008029 Uncharacterized conserved protein [Function unknown]; Region: COG2361 504728008030 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728008031 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 504728008032 Putative esterase; Region: Esterase; pfam00756 504728008033 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 504728008034 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 504728008035 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 504728008036 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 504728008037 NAD(P) binding site [chemical binding]; other site 504728008038 phytoene desaturase; Region: crtI_fam; TIGR02734 504728008039 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728008040 SinI restriction endonuclease; Region: RE_SinI; pfam09570 504728008041 threonine dehydratase; Provisional; Region: PRK08198 504728008042 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 504728008043 tetramer interface [polypeptide binding]; other site 504728008044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008045 catalytic residue [active] 504728008046 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 504728008047 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 504728008048 putative active site [active] 504728008049 putative metal binding residues [ion binding]; other site 504728008050 signature motif; other site 504728008051 putative dimer interface [polypeptide binding]; other site 504728008052 putative phosphate binding site [ion binding]; other site 504728008053 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 504728008054 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 504728008055 trehalose synthase; Region: treS_nterm; TIGR02456 504728008056 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 504728008057 active site 504728008058 catalytic site [active] 504728008059 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 504728008060 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 504728008061 active site 504728008062 motif I; other site 504728008063 motif II; other site 504728008064 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 504728008065 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 504728008066 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 504728008067 active site 504728008068 homotetramer interface [polypeptide binding]; other site 504728008069 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 504728008070 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728008071 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728008072 active site 504728008073 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 504728008074 AAK_NAGK-UC: N-Acetyl-L-glutamate kinase - uncharacterized (NAGK-UC). This domain is similar to Escherichia coli and Pseudomonas aeruginosa NAGKs which catalyze the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the...; Region: AAK_NAGK-UC; cd04251 504728008075 putative nucleotide binding site [chemical binding]; other site 504728008076 putative N-acetyl-L-glutamate binding site [chemical binding]; other site 504728008077 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 504728008078 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 504728008079 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 504728008080 Lysine biosynthesis enzyme LysX; Region: LysX_arch; TIGR02144 504728008081 ATP-grasp domain; Region: ATP-grasp_4; cl17255 504728008082 lysine biosynthesis protein LysW; Region: lysW; TIGR01206 504728008083 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 504728008084 homoaconitate hydratase small subunit; Provisional; Region: PRK14023 504728008085 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 504728008086 substrate binding site [chemical binding]; other site 504728008087 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 504728008088 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 504728008089 substrate binding site [chemical binding]; other site 504728008090 ligand binding site [chemical binding]; other site 504728008091 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 504728008092 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cd03174 504728008093 active site 504728008094 catalytic residues [active] 504728008095 metal binding site [ion binding]; metal-binding site 504728008096 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728008097 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728008098 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728008099 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 504728008100 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728008101 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 504728008102 ABC-ATPase subunit interface; other site 504728008103 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 504728008104 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 504728008105 active site 504728008106 phosphorylation site [posttranslational modification] 504728008107 intermolecular recognition site; other site 504728008108 dimerization interface [polypeptide binding]; other site 504728008109 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728008110 Zn2+ binding site [ion binding]; other site 504728008111 Mg2+ binding site [ion binding]; other site 504728008112 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 504728008113 active site 504728008114 catalytic residues [active] 504728008115 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 504728008116 GAF domain; Region: GAF_3; pfam13492 504728008117 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728008118 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 504728008119 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728008120 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728008121 metal binding site [ion binding]; metal-binding site 504728008122 active site 504728008123 I-site; other site 504728008124 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 504728008125 argininosuccinate lyase; Provisional; Region: PRK00855 504728008126 tetramer interface [polypeptide binding]; other site 504728008127 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 504728008128 tartrate dehydrogenase; Region: TTC; TIGR02089 504728008129 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 504728008130 Cell division protein FtsA; Region: FtsA; pfam14450 504728008131 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14950 504728008132 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 504728008133 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 504728008134 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 504728008135 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 504728008136 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 504728008137 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 504728008138 Tetramer interface [polypeptide binding]; other site 504728008139 active site 504728008140 FMN-binding site [chemical binding]; other site 504728008141 shikimate kinase; Provisional; Region: PRK13948 504728008142 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 504728008143 ADP binding site [chemical binding]; other site 504728008144 magnesium binding site [ion binding]; other site 504728008145 putative shikimate binding site; other site 504728008146 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 504728008147 active site 504728008148 dimer interface [polypeptide binding]; other site 504728008149 metal binding site [ion binding]; metal-binding site 504728008150 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 504728008151 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 504728008152 hexamer interface [polypeptide binding]; other site 504728008153 ligand binding site [chemical binding]; other site 504728008154 putative active site [active] 504728008155 NAD(P) binding site [chemical binding]; other site 504728008156 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 504728008157 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 504728008158 dimerization interface [polypeptide binding]; other site 504728008159 putative DNA binding site [nucleotide binding]; other site 504728008160 putative Zn2+ binding site [ion binding]; other site 504728008161 AsnC family; Region: AsnC_trans_reg; pfam01037 504728008162 tRNA pseudouridine synthase B; Provisional; Region: PRK14122 504728008163 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 504728008164 RNA binding site [nucleotide binding]; other site 504728008165 active site 504728008166 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 504728008167 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 504728008168 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 504728008169 substrate binding site [chemical binding]; other site 504728008170 oxyanion hole (OAH) forming residues; other site 504728008171 trimer interface [polypeptide binding]; other site 504728008172 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; cl15762 504728008173 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 504728008174 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 504728008175 RNA binding surface [nucleotide binding]; other site 504728008176 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 504728008177 active site 504728008178 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728008179 active site 504728008180 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 504728008181 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 504728008182 FAD binding domain; Region: FAD_binding_4; pfam01565 504728008183 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504728008184 FAD binding domain; Region: FAD_binding_4; pfam01565 504728008185 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 504728008186 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 504728008187 Cysteine-rich domain; Region: CCG; pfam02754 504728008188 Cysteine-rich domain; Region: CCG; pfam02754 504728008189 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 504728008190 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 504728008191 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 504728008192 MOFRL family; Region: MOFRL; pfam05161 504728008193 Esterase/lipase [General function prediction only]; Region: COG1647 504728008194 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 504728008195 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504728008196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728008197 Walker A/P-loop; other site 504728008198 ATP binding site [chemical binding]; other site 504728008199 Q-loop/lid; other site 504728008200 ABC transporter signature motif; other site 504728008201 Walker B; other site 504728008202 D-loop; other site 504728008203 H-loop/switch region; other site 504728008204 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 504728008205 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 504728008206 active site 504728008207 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 504728008208 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728008209 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728008210 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 504728008211 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 504728008212 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 504728008213 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 504728008214 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 504728008215 trimer interface [polypeptide binding]; other site 504728008216 active site 504728008217 UDP-GlcNAc binding site [chemical binding]; other site 504728008218 lipid binding site [chemical binding]; lipid-binding site 504728008219 rod shape-determining protein MreB; Provisional; Region: PRK13930 504728008220 MreB and similar proteins; Region: MreB_like; cd10225 504728008221 nucleotide binding site [chemical binding]; other site 504728008222 Mg binding site [ion binding]; other site 504728008223 putative protofilament interaction site [polypeptide binding]; other site 504728008224 RodZ interaction site [polypeptide binding]; other site 504728008225 Helix-turn-helix domain; Region: HTH_17; pfam12728 504728008226 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 504728008227 polymerase nucleotide-binding site; other site 504728008228 DNA-binding residues [nucleotide binding]; DNA binding site 504728008229 nucleotide binding site [chemical binding]; other site 504728008230 primase nucleotide-binding site [nucleotide binding]; other site 504728008231 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 504728008232 Domain of unknown function (DUF927); Region: DUF927; cl12098 504728008233 Citrate lyase, alpha subunit (CitF); Region: CitF; pfam04223 504728008234 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 504728008235 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 504728008236 active site 504728008237 DNA binding site [nucleotide binding] 504728008238 Int/Topo IB signature motif; other site 504728008239 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 504728008240 nucleotide binding site [chemical binding]; other site 504728008241 N-acetyl-L-glutamate binding site [chemical binding]; other site 504728008242 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 504728008243 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 504728008244 putative NAD(P) binding site [chemical binding]; other site 504728008245 structural Zn binding site [ion binding]; other site 504728008246 LabA_like proteins; Region: LabA_like/DUF88; cl10034 504728008247 Uncharacterized conserved protein [Function unknown]; Region: COG1432 504728008248 putative metal binding site [ion binding]; other site 504728008249 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 504728008250 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728008251 3D domain; Region: 3D; cl01439 504728008252 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 504728008253 DAK2 domain; Region: Dak2; pfam02734 504728008254 Asp23 family; Region: Asp23; pfam03780 504728008255 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728008256 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 504728008257 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 504728008258 active site 504728008259 homodimer interface [polypeptide binding]; other site 504728008260 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD; Region: Pro_isomerase; pfam00160 504728008261 active site 504728008262 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 504728008263 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728008264 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728008265 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728008266 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504728008267 classical (c) SDRs; Region: SDR_c; cd05233 504728008268 NAD(P) binding site [chemical binding]; other site 504728008269 active site 504728008270 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504728008271 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 504728008272 putative PBP binding loops; other site 504728008273 dimer interface [polypeptide binding]; other site 504728008274 ABC-ATPase subunit interface; other site 504728008275 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728008276 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 504728008277 dimer interface [polypeptide binding]; other site 504728008278 conserved gate region; other site 504728008279 putative PBP binding loops; other site 504728008280 ABC-ATPase subunit interface; other site 504728008281 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_6; cd08494 504728008282 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 504728008283 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 504728008284 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 504728008285 metal binding site [ion binding]; metal-binding site 504728008286 dimer interface [polypeptide binding]; other site 504728008287 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 504728008288 putative active site pocket [active] 504728008289 cleavage site 504728008290 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 504728008291 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 504728008292 active site 504728008293 substrate-binding site [chemical binding]; other site 504728008294 metal-binding site [ion binding] 504728008295 GTP binding site [chemical binding]; other site 504728008296 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 504728008297 active site 504728008298 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 504728008299 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 504728008300 active site 504728008301 dimer interface [polypeptide binding]; other site 504728008302 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 504728008303 dimer interface [polypeptide binding]; other site 504728008304 active site 504728008305 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 504728008306 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728008307 Zn2+ binding site [ion binding]; other site 504728008308 Mg2+ binding site [ion binding]; other site 504728008309 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 504728008310 synthetase active site [active] 504728008311 NTP binding site [chemical binding]; other site 504728008312 metal binding site [ion binding]; metal-binding site 504728008313 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 504728008314 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 504728008315 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728008316 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 504728008317 active site 504728008318 phosphorylation site [posttranslational modification] 504728008319 intermolecular recognition site; other site 504728008320 dimerization interface [polypeptide binding]; other site 504728008321 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 504728008322 DNA binding site [nucleotide binding] 504728008323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728008324 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 504728008325 dimer interface [polypeptide binding]; other site 504728008326 phosphorylation site [posttranslational modification] 504728008327 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 504728008328 ATP binding site [chemical binding]; other site 504728008329 Mg2+ binding site [ion binding]; other site 504728008330 G-X-G motif; other site 504728008331 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 504728008332 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 504728008333 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 504728008334 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728008335 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728008336 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728008337 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 504728008338 putative PBP binding loops; other site 504728008339 dimer interface [polypeptide binding]; other site 504728008340 ABC-ATPase subunit interface; other site 504728008341 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728008342 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 504728008343 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 504728008344 dimer interface [polypeptide binding]; other site 504728008345 conserved gate region; other site 504728008346 putative PBP binding loops; other site 504728008347 ABC-ATPase subunit interface; other site 504728008348 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 504728008349 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 504728008350 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 504728008351 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 504728008352 Melibiase; Region: Melibiase; pfam02065 504728008353 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 504728008354 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 504728008355 nucleotide binding site/active site [active] 504728008356 HIT family signature motif; other site 504728008357 catalytic residue [active] 504728008358 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 504728008359 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 504728008360 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 504728008361 active site 504728008362 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 504728008363 galactokinase; Provisional; Region: PRK03817 504728008364 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 504728008365 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 504728008366 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 504728008367 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 504728008368 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 504728008369 dimerization interface [polypeptide binding]; other site 504728008370 domain crossover interface; other site 504728008371 redox-dependent activation switch; other site 504728008372 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 504728008373 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 504728008374 active site 504728008375 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 504728008376 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 504728008377 dimer interface [polypeptide binding]; other site 504728008378 putative functional site; other site 504728008379 putative MPT binding site; other site 504728008380 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 504728008381 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 504728008382 ATP binding site [chemical binding]; other site 504728008383 Mg++ binding site [ion binding]; other site 504728008384 motif III; other site 504728008385 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 504728008386 nucleotide binding region [chemical binding]; other site 504728008387 ATP-binding site [chemical binding]; other site 504728008388 RNA-binding GUCT-like domain found in Thermus thermophilus heat resistant RNA-dependent ATPase (Hera) and similar proteins; Region: GUCT_Hera; cd12938 504728008389 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 504728008390 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 504728008391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 504728008392 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504728008393 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728008394 DNA-binding site [nucleotide binding]; DNA binding site 504728008395 FCD domain; Region: FCD; pfam07729 504728008396 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 504728008397 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 504728008398 minor groove reading motif; other site 504728008399 helix-hairpin-helix signature motif; other site 504728008400 substrate binding pocket [chemical binding]; other site 504728008401 active site 504728008402 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 504728008403 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 504728008404 DNA binding and oxoG recognition site [nucleotide binding] 504728008405 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 504728008406 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 504728008407 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 504728008408 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 504728008409 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728008410 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728008411 active site 504728008412 metal binding site [ion binding]; metal-binding site 504728008413 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 504728008414 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 504728008415 trimer interface [polypeptide binding]; other site 504728008416 active site 504728008417 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 504728008418 active site 504728008419 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 504728008420 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 504728008421 dimer interface [polypeptide binding]; other site 504728008422 motif 1; other site 504728008423 active site 504728008424 motif 2; other site 504728008425 motif 3; other site 504728008426 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 504728008427 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 504728008428 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 504728008429 intersubunit interface [polypeptide binding]; other site 504728008430 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 504728008431 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 504728008432 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 504728008433 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 504728008434 arginine decarboxylase; Provisional; Region: PRK05354 504728008435 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 504728008436 dimer interface [polypeptide binding]; other site 504728008437 active site 504728008438 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504728008439 catalytic residues [active] 504728008440 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 504728008441 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 504728008442 DinB family; Region: DinB; cl17821 504728008443 DinB superfamily; Region: DinB_2; pfam12867 504728008444 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 504728008445 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 504728008446 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 504728008447 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 504728008448 nudix motif; other site 504728008449 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 504728008450 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728008451 active site 504728008452 nucleotide binding site [chemical binding]; other site 504728008453 HIGH motif; other site 504728008454 KMSKS motif; other site 504728008455 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 504728008456 nudix motif; other site 504728008457 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 504728008458 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 504728008459 active site 504728008460 phosphopentomutase; Provisional; Region: PRK05362 504728008461 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 504728008462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504728008463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504728008464 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 504728008465 dimerization interface [polypeptide binding]; other site 504728008466 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 504728008467 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 504728008468 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 504728008469 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 504728008470 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 504728008471 active site residue [active] 504728008472 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 504728008473 active site residue [active] 504728008474 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 504728008475 active site residue [active] 504728008476 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 504728008477 active site residue [active] 504728008478 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 504728008479 active site residue [active] 504728008480 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 504728008481 active site residue [active] 504728008482 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504728008483 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 504728008484 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728008485 catalytic residues [active] 504728008486 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504728008487 Predicted secreted protein [Function unknown]; Region: COG5501 504728008488 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 504728008489 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 504728008490 Cytochrome c [Energy production and conversion]; Region: COG3258 504728008491 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504728008492 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 504728008493 active site 504728008494 metal binding site [ion binding]; metal-binding site 504728008495 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 504728008496 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 504728008497 Cytochrome c; Region: Cytochrom_C; pfam00034 504728008498 Cytochrome c [Energy production and conversion]; Region: COG3258 504728008499 Cytochrome c [Energy production and conversion]; Region: COG3258 504728008500 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 504728008501 active site residue [active] 504728008502 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 504728008503 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 504728008504 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 504728008505 Moco binding site; other site 504728008506 metal coordination site [ion binding]; other site 504728008507 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 504728008508 Cytochrome c; Region: Cytochrom_C; pfam00034 504728008509 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 504728008510 iron-sulfur cluster [ion binding]; other site 504728008511 [2Fe-2S] cluster binding site [ion binding]; other site 504728008512 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 504728008513 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504728008514 putative homotetramer interface [polypeptide binding]; other site 504728008515 putative homodimer interface [polypeptide binding]; other site 504728008516 putative allosteric switch controlling residues; other site 504728008517 putative metal binding site [ion binding]; other site 504728008518 Cytochrome c; Region: Cytochrom_C; pfam00034 504728008519 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 504728008520 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 504728008521 intersubunit interface [polypeptide binding]; other site 504728008522 active site 504728008523 zinc binding site [ion binding]; other site 504728008524 Na+ binding site [ion binding]; other site 504728008525 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 504728008526 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 504728008527 substrate binding site [chemical binding]; other site 504728008528 hexamer interface [polypeptide binding]; other site 504728008529 metal binding site [ion binding]; metal-binding site 504728008530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504728008531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504728008532 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 504728008533 dimerization interface [polypeptide binding]; other site 504728008534 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 504728008535 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 504728008536 gating phenylalanine in ion channel; other site 504728008537 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 504728008538 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728008539 Protein of unknown function (DUF461); Region: DUF461; pfam04314 504728008540 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 504728008541 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 504728008542 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728008543 catalytic residues [active] 504728008544 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504728008545 putative homodimer interface [polypeptide binding]; other site 504728008546 putative homotetramer interface [polypeptide binding]; other site 504728008547 putative allosteric switch controlling residues; other site 504728008548 putative metal binding site [ion binding]; other site 504728008549 putative homodimer-homodimer interface [polypeptide binding]; other site 504728008550 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 504728008551 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504728008552 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 504728008553 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 504728008554 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 504728008555 motif II; other site 504728008556 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 504728008557 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 504728008558 Ligand Binding Site [chemical binding]; other site 504728008559 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 504728008560 Ligand Binding Site [chemical binding]; other site 504728008561 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 504728008562 Ligand Binding Site [chemical binding]; other site 504728008563 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 504728008564 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 504728008565 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 504728008566 Protein of unknown function DUF45; Region: DUF45; pfam01863 504728008567 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 504728008568 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 504728008569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728008570 Walker A/P-loop; other site 504728008571 ATP binding site [chemical binding]; other site 504728008572 Q-loop/lid; other site 504728008573 ABC transporter signature motif; other site 504728008574 Walker B; other site 504728008575 D-loop; other site 504728008576 H-loop/switch region; other site 504728008577 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728008578 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 504728008579 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728008580 EamA-like transporter family; Region: EamA; pfam00892 504728008581 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 504728008582 EamA-like transporter family; Region: EamA; pfam00892 504728008583 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 504728008584 Ligand Binding Site [chemical binding]; other site 504728008585 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; cl17355 504728008586 Bacterial transcriptional activator domain; Region: BTAD; smart01043 504728008587 Protein required for attachment to host cells; Region: Host_attach; cl02398 504728008588 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504728008589 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 504728008590 putative dimer interface [polypeptide binding]; other site 504728008591 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 504728008592 Predicted transcriptional regulators [Transcription]; Region: COG1510 504728008593 MarR family; Region: MarR_2; pfam12802 504728008594 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 504728008595 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728008596 FtsX-like permease family; Region: FtsX; pfam02687 504728008597 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 504728008598 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 504728008599 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728008600 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728008601 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728008602 Walker A/P-loop; other site 504728008603 ATP binding site [chemical binding]; other site 504728008604 Q-loop/lid; other site 504728008605 ABC transporter signature motif; other site 504728008606 Walker B; other site 504728008607 D-loop; other site 504728008608 H-loop/switch region; other site 504728008609 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 504728008610 catalytic core [active] 504728008611 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 504728008612 glycogen binding site [chemical binding]; other site 504728008613 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 504728008614 maltodextrin glucosidase; Provisional; Region: PRK10785 504728008615 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 504728008616 active site 504728008617 homodimer interface [polypeptide binding]; other site 504728008618 catalytic site [active] 504728008619 EamA-like transporter family; Region: EamA; cl17759 504728008620 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 504728008621 EamA-like transporter family; Region: EamA; pfam00892 504728008622 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 504728008623 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 504728008624 dimer interface [polypeptide binding]; other site 504728008625 active site 504728008626 glycine-pyridoxal phosphate binding site [chemical binding]; other site 504728008627 folate binding site [chemical binding]; other site 504728008628 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 504728008629 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 504728008630 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 504728008631 inhibitor-cofactor binding pocket; inhibition site 504728008632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008633 catalytic residue [active] 504728008634 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728008635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728008636 Walker A/P-loop; other site 504728008637 ATP binding site [chemical binding]; other site 504728008638 Q-loop/lid; other site 504728008639 ABC transporter signature motif; other site 504728008640 Walker B; other site 504728008641 D-loop; other site 504728008642 H-loop/switch region; other site 504728008643 TOBE domain; Region: TOBE_2; pfam08402 504728008644 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728008645 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 504728008646 dimer interface [polypeptide binding]; other site 504728008647 conserved gate region; other site 504728008648 putative PBP binding loops; other site 504728008649 ABC-ATPase subunit interface; other site 504728008650 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728008651 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 504728008652 dimer interface [polypeptide binding]; other site 504728008653 conserved gate region; other site 504728008654 putative PBP binding loops; other site 504728008655 ABC-ATPase subunit interface; other site 504728008656 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 504728008657 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728008658 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 504728008659 Beta-lactamase; Region: Beta-lactamase; pfam00144 504728008660 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 504728008661 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 504728008662 inhibitor-cofactor binding pocket; inhibition site 504728008663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008664 catalytic residue [active] 504728008665 hypothetical protein; Provisional; Region: PRK06815 504728008666 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 504728008667 tetramer interface [polypeptide binding]; other site 504728008668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008669 catalytic residue [active] 504728008670 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728008671 Coenzyme A binding pocket [chemical binding]; other site 504728008672 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 504728008673 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 504728008674 ATP binding site [chemical binding]; other site 504728008675 Mg2+ binding site [ion binding]; other site 504728008676 G-X-G motif; other site 504728008677 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 504728008678 anchoring element; other site 504728008679 dimer interface [polypeptide binding]; other site 504728008680 ATP binding site [chemical binding]; other site 504728008681 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 504728008682 active site 504728008683 putative metal-binding site [ion binding]; other site 504728008684 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 504728008685 amidase; Provisional; Region: PRK06828 504728008686 Amidase; Region: Amidase; cl11426 504728008687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 504728008688 conserved hypothetical protein; Region: TIGR03492 504728008689 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 504728008690 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 504728008691 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 504728008692 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728008693 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 504728008694 Probable Catalytic site; other site 504728008695 metal-binding site 504728008696 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728008697 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 504728008698 active site 504728008699 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 504728008700 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 504728008701 active site 504728008702 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 504728008703 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 504728008704 oligomeric interface; other site 504728008705 putative active site [active] 504728008706 homodimer interface [polypeptide binding]; other site 504728008707 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 504728008708 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 504728008709 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 504728008710 glutamine binding [chemical binding]; other site 504728008711 catalytic triad [active] 504728008712 Chorismate mutase type II; Region: CM_2; smart00830 504728008713 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 504728008714 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 504728008715 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 504728008716 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 504728008717 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 504728008718 motif II; other site 504728008719 Nitronate monooxygenase; Region: NMO; pfam03060 504728008720 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 504728008721 FMN binding site [chemical binding]; other site 504728008722 substrate binding site [chemical binding]; other site 504728008723 putative catalytic residue [active] 504728008724 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728008725 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 504728008726 putative substrate translocation pore; other site 504728008727 Thioredoxin; Region: Thioredoxin_5; pfam13743 504728008728 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 504728008729 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 504728008730 ornithine carbamoyltransferase; Provisional; Region: PRK00779 504728008731 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 504728008732 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 504728008733 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 504728008734 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 504728008735 YceG-like family; Region: YceG; pfam02618 504728008736 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 504728008737 dimerization interface [polypeptide binding]; other site 504728008738 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 504728008739 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 504728008740 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 504728008741 motif 1; other site 504728008742 active site 504728008743 motif 2; other site 504728008744 motif 3; other site 504728008745 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 504728008746 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 504728008747 phosphate binding site [ion binding]; other site 504728008748 DinB superfamily; Region: DinB_2; pfam12867 504728008749 metal-dependent hydrolase; Provisional; Region: PRK13291 504728008750 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 504728008751 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728008752 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14468 504728008753 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 504728008754 FeS/SAM binding site; other site 504728008755 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 504728008756 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 504728008757 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 504728008758 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 504728008759 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 504728008760 phosphate binding site [ion binding]; other site 504728008761 putative substrate binding pocket [chemical binding]; other site 504728008762 dimer interface [polypeptide binding]; other site 504728008763 DOMON-like domain of various glycoside hydrolases; Region: DOMON_glucodextranase_like; cd09626 504728008764 putative ligand binding site [chemical binding]; other site 504728008765 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_10; cd04623 504728008766 FOG: CBS domain [General function prediction only]; Region: COG0517 504728008767 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728008768 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 504728008769 putative substrate translocation pore; other site 504728008770 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 504728008771 dimer interface [polypeptide binding]; other site 504728008772 active site 504728008773 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 504728008774 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728008775 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 504728008776 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728008777 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728008778 Walker A/P-loop; other site 504728008779 ATP binding site [chemical binding]; other site 504728008780 Q-loop/lid; other site 504728008781 ABC transporter signature motif; other site 504728008782 Walker B; other site 504728008783 D-loop; other site 504728008784 H-loop/switch region; other site 504728008785 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728008786 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 504728008787 YceI-like domain; Region: YceI; pfam04264 504728008788 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728008789 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 504728008790 FtsX-like permease family; Region: FtsX; pfam02687 504728008791 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728008792 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728008793 Walker A/P-loop; other site 504728008794 ATP binding site [chemical binding]; other site 504728008795 Q-loop/lid; other site 504728008796 ABC transporter signature motif; other site 504728008797 Walker B; other site 504728008798 D-loop; other site 504728008799 H-loop/switch region; other site 504728008800 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504728008801 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504728008802 HlyD family secretion protein; Region: HlyD_3; pfam13437 504728008803 CAAX protease self-immunity; Region: Abi; pfam02517 504728008804 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 504728008805 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 504728008806 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728008807 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 504728008808 hypothetical protein; Provisional; Region: PRK06446 504728008809 metal binding site [ion binding]; metal-binding site 504728008810 dimer interface [polypeptide binding]; other site 504728008811 RES domain; Region: RES; cl02411 504728008812 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 504728008813 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 504728008814 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 504728008815 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 504728008816 dimer interface [polypeptide binding]; other site 504728008817 acyl-activating enzyme (AAE) consensus motif; other site 504728008818 putative active site [active] 504728008819 AMP binding site [chemical binding]; other site 504728008820 putative CoA binding site [chemical binding]; other site 504728008821 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728008822 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 504728008823 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 504728008824 Active_site [active] 504728008825 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 504728008826 SurA N-terminal domain; Region: SurA_N_3; cl07813 504728008827 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 504728008828 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 504728008829 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 504728008830 active site 504728008831 multimer interface [polypeptide binding]; other site 504728008832 excinuclease ABC subunit B; Provisional; Region: PRK05298 504728008833 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 504728008834 ATP binding site [chemical binding]; other site 504728008835 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 504728008836 nucleotide binding region [chemical binding]; other site 504728008837 ATP-binding site [chemical binding]; other site 504728008838 Ultra-violet resistance protein B; Region: UvrB; pfam12344 504728008839 UvrB/uvrC motif; Region: UVR; pfam02151 504728008840 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 504728008841 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 504728008842 putative active site [active] 504728008843 S-layer homology domain; Region: SLH; pfam00395 504728008844 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 504728008845 Hexamer interface [polypeptide binding]; other site 504728008846 Hexagonal pore residue; other site 504728008847 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 504728008848 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 504728008849 glutaminase active site [active] 504728008850 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 504728008851 dimer interface [polypeptide binding]; other site 504728008852 active site 504728008853 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 504728008854 dimer interface [polypeptide binding]; other site 504728008855 active site 504728008856 Uncharacterized conserved protein [Function unknown]; Region: COG1801 504728008857 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 504728008858 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728008859 putative substrate translocation pore; other site 504728008860 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 504728008861 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 504728008862 homodimer interface [polypeptide binding]; other site 504728008863 substrate-cofactor binding pocket; other site 504728008864 catalytic residue [active] 504728008865 Protein of unknown function (DUF721); Region: DUF721; pfam05258 504728008866 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504728008867 recombination protein F; Provisional; Region: recF; PRK14079 504728008868 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728008869 Walker A/P-loop; other site 504728008870 ATP binding site [chemical binding]; other site 504728008871 Q-loop/lid; other site 504728008872 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728008873 ABC transporter signature motif; other site 504728008874 Walker B; other site 504728008875 D-loop; other site 504728008876 EamA-like transporter family; Region: EamA; pfam00892 504728008877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728008878 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 504728008879 Coenzyme A binding pocket [chemical binding]; other site 504728008880 primosomal protein N' Region: priA; TIGR00595 504728008881 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 504728008882 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 504728008883 active site residue [active] 504728008884 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 504728008885 active site residue [active] 504728008886 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728008887 Coenzyme A binding pocket [chemical binding]; other site 504728008888 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 504728008889 homotrimer interaction site [polypeptide binding]; other site 504728008890 putative active site [active] 504728008891 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 504728008892 Protein of unknown function, DUF258; Region: DUF258; pfam03193 504728008893 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 504728008894 succinyldiaminopimelate transaminase; Validated; Region: PRK07366 504728008895 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 504728008896 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008897 homodimer interface [polypeptide binding]; other site 504728008898 catalytic residue [active] 504728008899 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 504728008900 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 504728008901 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 504728008902 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 504728008903 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 504728008904 CT1975-like protein; Region: Cas_CT1975; pfam09344 504728008905 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 504728008906 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 504728008907 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 504728008908 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 504728008909 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728008910 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 504728008911 Predicted transcriptional regulator [Transcription]; Region: COG2378 504728008912 WYL domain; Region: WYL; pfam13280 504728008913 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728008914 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728008915 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 504728008916 NlpC/P60 family; Region: NLPC_P60; pfam00877 504728008917 S-layer homology domain; Region: SLH; pfam00395 504728008918 DNA polymerase IV; Reviewed; Region: PRK03103 504728008919 Y-family of DNA polymerases; Region: PolY; cd00424 504728008920 active site 504728008921 DNA binding site [nucleotide binding] 504728008922 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14963 504728008923 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 504728008924 Walker A motif; other site 504728008925 ATP binding site [chemical binding]; other site 504728008926 Walker B motif; other site 504728008927 arginine finger; other site 504728008928 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504728008929 putative homodimer interface [polypeptide binding]; other site 504728008930 putative homotetramer interface [polypeptide binding]; other site 504728008931 putative allosteric switch controlling residues; other site 504728008932 putative metal binding site [ion binding]; other site 504728008933 putative homodimer-homodimer interface [polypeptide binding]; other site 504728008934 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 504728008935 trehalose synthase; Region: treS_nterm; TIGR02456 504728008936 active site 504728008937 homodimer interface [polypeptide binding]; other site 504728008938 catalytic site [active] 504728008939 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728008940 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 504728008941 active site 504728008942 phosphorylation site [posttranslational modification] 504728008943 intermolecular recognition site; other site 504728008944 dimerization interface [polypeptide binding]; other site 504728008945 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 504728008946 DNA binding site [nucleotide binding] 504728008947 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728008948 HAMP domain; Region: HAMP; pfam00672 504728008949 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 504728008950 dimer interface [polypeptide binding]; other site 504728008951 phosphorylation site [posttranslational modification] 504728008952 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 504728008953 Mg2+ binding site [ion binding]; other site 504728008954 G-X-G motif; other site 504728008955 ferredoxin-NADP+ reductase; Region: PLN02852 504728008956 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728008957 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 504728008958 putative active site [active] 504728008959 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 504728008960 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 504728008961 putative [4Fe-4S] binding site [ion binding]; other site 504728008962 putative molybdopterin cofactor binding site [chemical binding]; other site 504728008963 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 504728008964 putative molybdopterin cofactor binding site; other site 504728008965 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728008966 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728008967 active site 504728008968 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 504728008969 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 504728008970 tetramer interface [polypeptide binding]; other site 504728008971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008972 catalytic residue [active] 504728008973 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 504728008974 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 504728008975 active site 504728008976 catalytic site [active] 504728008977 metal binding site [ion binding]; metal-binding site 504728008978 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 504728008979 Helix-hairpin-helix motif; Region: HHH; pfam00633 504728008980 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 504728008981 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 504728008982 Competence protein; Region: Competence; pfam03772 504728008983 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728008984 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 504728008985 ParB-like nuclease domain; Region: ParB; smart00470 504728008986 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 504728008987 non-specific DNA interactions [nucleotide binding]; other site 504728008988 DNA binding site [nucleotide binding] 504728008989 sequence specific DNA binding site [nucleotide binding]; other site 504728008990 putative cAMP binding site [chemical binding]; other site 504728008991 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 504728008992 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 504728008993 P-loop; other site 504728008994 Magnesium ion binding site [ion binding]; other site 504728008995 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 504728008996 Magnesium ion binding site [ion binding]; other site 504728008997 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 504728008998 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 504728008999 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 504728009000 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 504728009001 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 504728009002 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932