-- dump date 20120504_141730 -- class Genbank::misc_feature -- table misc_feature_note -- id note 319225000001 DNA polymerase III subunit beta; Provisional; Region: PRK14941 319225000002 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 319225000003 putative DNA binding surface [nucleotide binding]; other site 319225000004 dimer interface [polypeptide binding]; other site 319225000005 beta-clamp/clamp loader binding surface; other site 319225000006 beta-clamp/translesion DNA polymerase binding surface; other site 319225000007 recombination protein F; Reviewed; Region: recF; PRK00064 319225000008 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225000009 Walker A/P-loop; other site 319225000010 ATP binding site [chemical binding]; other site 319225000011 Q-loop/lid; other site 319225000012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225000013 Q-loop/lid; other site 319225000014 ABC transporter signature motif; other site 319225000015 Walker B; other site 319225000016 D-loop; other site 319225000017 H-loop/switch region; other site 319225000018 Protein of unknown function (DUF721); Region: DUF721; cl02324 319225000019 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 319225000020 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 319225000021 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 319225000022 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like2_exo; cd05785 319225000023 active site 319225000024 catalytic site [active] 319225000025 substrate binding site [chemical binding]; other site 319225000026 DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II_B; cd05538 319225000027 active site 319225000028 metal-binding site 319225000029 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 319225000030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000031 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 319225000032 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 319225000033 protein-export membrane protein SecD; Region: secD; TIGR01129 319225000034 Protein export membrane protein; Region: SecD_SecF; cl14618 319225000035 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 319225000036 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 319225000037 Protein export membrane protein; Region: SecD_SecF; cl14618 319225000038 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 319225000039 PPIC-type PPIASE domain; Region: Rotamase; cl08278 319225000040 PPIC-type PPIASE domain; Region: Rotamase; cl08278 319225000041 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 319225000042 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 319225000043 ATP binding site [chemical binding]; other site 319225000044 Mg2+ binding site [ion binding]; other site 319225000045 G-X-G motif; other site 319225000046 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 319225000047 anchoring element; other site 319225000048 dimer interface [polypeptide binding]; other site 319225000049 ATP binding site [chemical binding]; other site 319225000050 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 319225000051 active site 319225000052 putative metal-binding site [ion binding]; other site 319225000053 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 319225000054 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 319225000055 RNA/DNA hybrid binding site [nucleotide binding]; other site 319225000056 active site 319225000057 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 319225000058 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 319225000059 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 319225000060 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 319225000061 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 319225000062 trimer interface [polypeptide binding]; other site 319225000063 active site 319225000064 substrate binding site [chemical binding]; other site 319225000065 CoA binding site [chemical binding]; other site 319225000066 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 319225000067 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 319225000068 protein binding site [polypeptide binding]; other site 319225000069 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 319225000070 Catalytic dyad [active] 319225000071 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 319225000072 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 319225000073 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 319225000074 glycyl-tRNA synthetase; Provisional; Region: PRK04173 319225000075 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 attaches...; Region: class_II_aaRS-like_core; cl00268 319225000076 motif 1; other site 319225000077 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 319225000078 active site 319225000079 motif 2; other site 319225000080 motif 3; other site 319225000081 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 319225000082 anticodon binding site; other site 319225000083 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 319225000084 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 319225000085 dimer interface [polypeptide binding]; other site 319225000086 catalytic triad [active] 319225000087 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 319225000088 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 319225000089 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 319225000090 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 319225000091 alpha subunit interaction interface [polypeptide binding]; other site 319225000092 Walker A motif; other site 319225000093 ATP binding site [chemical binding]; other site 319225000094 Walker B motif; other site 319225000095 inhibitor binding site; inhibition site 319225000096 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319225000097 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 319225000098 catalytic residues [active] 319225000099 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 319225000100 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 319225000101 active site 319225000102 substrate-binding site [chemical binding]; other site 319225000103 metal-binding site [ion binding] 319225000104 GTP binding site [chemical binding]; other site 319225000105 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 319225000106 Dodecin; Region: Dodecin; cl01328 319225000107 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 319225000108 4Fe-4S binding domain; Region: Fer4; cl02805 319225000109 4Fe-4S binding domain; Region: Fer4; cl02805 319225000110 Polysulphide reductase, NrfD; Region: NrfD; cl01295 319225000111 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 319225000112 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 319225000113 molybdopterin cofactor binding site; other site 319225000114 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 319225000115 putative molybdopterin cofactor binding site; other site 319225000116 DsrE/DsrF-like family; Region: DrsE; cl00672 319225000117 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 319225000118 active site residue [active] 319225000119 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 319225000120 CPxP motif; other site 319225000121 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 319225000122 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225000123 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 319225000124 catalytic triad [active] 319225000125 DsrC like protein; Region: DsrC; cl01101 319225000126 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 319225000127 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 319225000128 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 319225000129 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 319225000130 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 319225000131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000132 DsrE/DsrF-like family; Region: DrsE; cl00672 319225000133 DsrE/DsrF-like family; Region: DrsE; cl00672 319225000134 DsrE/DsrF-like family; Region: DrsE; cl00672 319225000135 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 319225000136 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 319225000137 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 319225000138 Cysteine-rich domain; Region: CCG; pfam02754 319225000139 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 319225000140 4Fe-4S binding domain; Region: Fer4; cl02805 319225000141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000142 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 319225000143 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 319225000144 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 319225000145 active site 319225000146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225000147 H+ Antiporter protein; Region: 2A0121; TIGR00900 319225000148 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 319225000149 putative substrate translocation pore; other site 319225000150 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 319225000151 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 319225000152 putative substrate translocation pore; other site 319225000153 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 319225000154 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225000155 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225000156 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 319225000157 Ligand Binding Site [chemical binding]; other site 319225000158 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225000159 GAF domain; Region: GAF_2; pfam13185 319225000160 GAF domain; Region: GAF; cl15785 319225000161 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 319225000162 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 319225000163 Walker A motif; other site 319225000164 ATP binding site [chemical binding]; other site 319225000165 Walker B motif; other site 319225000166 arginine finger; other site 319225000167 Helix-turn-helix domains; Region: HTH; cl00088 319225000168 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 319225000169 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 319225000170 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319225000171 NAD(P) binding site [chemical binding]; other site 319225000172 putative active site [active] 319225000173 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 319225000174 Low molecular weight phosphatase family; Region: LMWPc; cd00115 319225000175 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 319225000176 active site 319225000177 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 319225000178 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 319225000179 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 319225000180 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 319225000181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000182 homodimer interface [polypeptide binding]; other site 319225000183 catalytic residue [active] 319225000184 ACT domain-containing protein [General function prediction only]; Region: COG4747 319225000185 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 319225000186 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 319225000187 AMP-binding enzyme; Region: AMP-binding; cl15778 319225000188 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 319225000189 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 319225000190 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 319225000191 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 319225000192 dimer interface [polypeptide binding]; other site 319225000193 PYR/PP interface [polypeptide binding]; other site 319225000194 TPP binding site [chemical binding]; other site 319225000195 substrate binding site [chemical binding]; other site 319225000196 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 319225000197 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 319225000198 TPP-binding site; other site 319225000199 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 319225000200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000201 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225000202 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 319225000203 P loop; other site 319225000204 Nucleotide binding site [chemical binding]; other site 319225000205 DTAP/Switch II; other site 319225000206 Switch I; other site 319225000207 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 319225000208 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 319225000209 putative FMN binding site [chemical binding]; other site 319225000210 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 319225000211 peptide chain release factor 1; Validated; Region: prfA; PRK00591 319225000212 RF-1 domain; Region: RF-1; cl02875 319225000213 RF-1 domain; Region: RF-1; cl02875 319225000214 RIP metalloprotease RseP; Region: TIGR00054 319225000215 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 319225000216 active site 319225000217 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 319225000218 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 319225000219 protein binding site [polypeptide binding]; other site 319225000220 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 319225000221 putative substrate binding region [chemical binding]; other site 319225000222 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 319225000223 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 319225000224 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 319225000225 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 319225000226 FtsH Extracellular; Region: FtsH_ext; pfam06480 319225000227 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 319225000228 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 319225000229 Walker B motif; other site 319225000230 arginine finger; other site 319225000231 Peptidase family M41; Region: Peptidase_M41; pfam01434 319225000232 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 contains two...; Region: OMP_decarboxylase_like; cd04725 319225000233 active site 319225000234 dimer interface [polypeptide binding]; other site 319225000235 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 319225000236 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 319225000237 glutaminase active site [active] 319225000238 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 319225000239 dimer interface [polypeptide binding]; other site 319225000240 active site 319225000241 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 319225000242 dimer interface [polypeptide binding]; other site 319225000243 active site 319225000244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 319225000245 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 319225000246 putative dimer interface [polypeptide binding]; other site 319225000247 TolB amino-terminal domain; Region: TolB_N; cl00639 319225000248 TolB amino-terminal domain; Region: TolB_N; cl00639 319225000249 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 319225000250 TIGR01777 family protein; Region: yfcH 319225000251 putative NAD(P) binding site [chemical binding]; other site 319225000252 putative active site [active] 319225000253 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 319225000254 RNA/DNA binding site [nucleotide binding]; other site 319225000255 RRM dimerization site [polypeptide binding]; other site 319225000256 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 319225000257 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319225000258 Nitrogen regulatory protein P-II; Region: P-II; cl00412 319225000259 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 319225000260 active site 319225000261 TPR repeat; Region: TPR_11; pfam13414 319225000262 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 319225000263 binding surface 319225000264 TPR motif; other site 319225000265 TPR repeat; Region: TPR_11; pfam13414 319225000266 TPR repeat; Region: TPR_11; pfam13414 319225000267 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 319225000268 binding surface 319225000269 TPR motif; other site 319225000270 ScpA/B protein; Region: ScpA_ScpB; cl00598 319225000271 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 319225000272 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 319225000273 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 319225000274 Oligomerisation domain; Region: Oligomerisation; cl00519 319225000275 DNA gyrase subunit A; Validated; Region: PRK05560 319225000276 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 in DNA...; Region: TOP4c; cd00187 319225000277 CAP-like domain; other site 319225000278 active site 319225000279 primary dimer interface [polypeptide binding]; other site 319225000280 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000281 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000282 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000283 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000284 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000285 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 319225000286 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 319225000287 CTP synthetase; Validated; Region: pyrG; PRK05380 319225000288 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 319225000289 Catalytic site [active] 319225000290 active site 319225000291 UTP binding site [chemical binding]; other site 319225000292 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 319225000293 active site 319225000294 putative oxyanion hole; other site 319225000295 catalytic triad [active] 319225000296 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319225000297 Sulfatase; Region: Sulfatase; cl10460 319225000298 Ferrochelatase; Region: Ferrochelatase; pfam00762 319225000299 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 319225000300 C-terminal domain interface [polypeptide binding]; other site 319225000301 active site 319225000302 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 319225000303 active site 319225000304 N-terminal domain interface [polypeptide binding]; other site 319225000305 4Fe-4S binding domain; Region: Fer4; cl02805 319225000306 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 319225000307 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 319225000308 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 319225000309 heme binding site [chemical binding]; other site 319225000310 ferroxidase pore; other site 319225000311 ferroxidase diiron center [ion binding]; other site 319225000312 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_subfamily_a; cd00913 319225000313 aromatic arch; other site 319225000314 DCoH dimer interaction site [polypeptide binding]; other site 319225000315 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 319225000316 DCoH tetramer interaction site [polypeptide binding]; other site 319225000317 substrate binding site [chemical binding]; other site 319225000318 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; cl10465 319225000319 Catalytic site [active] 319225000320 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225000321 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 319225000322 active site 319225000323 phosphorylation site [posttranslational modification] 319225000324 intermolecular recognition site; other site 319225000325 dimerization interface [polypeptide binding]; other site 319225000326 Helix-turn-helix domains; Region: HTH; cl00088 319225000327 DNA binding site [nucleotide binding] 319225000328 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 319225000329 active site 319225000330 Domain of Unknown Function (DUF3856); Region: DUF3856; pfam12968 319225000331 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 319225000332 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 319225000333 putative active site [active] 319225000334 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 319225000335 putative catalytic site [active] 319225000336 putative metal binding site [ion binding]; other site 319225000337 putative phosphate binding site [ion binding]; other site 319225000338 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 319225000339 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 319225000340 dimer interface [polypeptide binding]; other site 319225000341 ssDNA binding site [nucleotide binding]; other site 319225000342 tetramer (dimer of dimers) interface [polypeptide binding]; other site 319225000343 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 319225000344 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 319225000345 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 319225000346 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 319225000347 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 319225000348 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 319225000349 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 319225000350 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 319225000351 dimer interface [polypeptide binding]; other site 319225000352 motif 1; other site 319225000353 active site 319225000354 motif 2; other site 319225000355 motif 3; other site 319225000356 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 319225000357 23S rRNA binding site [nucleotide binding]; other site 319225000358 L21 binding site [polypeptide binding]; other site 319225000359 L13 binding site [polypeptide binding]; other site 319225000360 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 319225000361 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 319225000362 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 319225000363 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 319225000364 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 319225000365 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 319225000366 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 319225000367 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 319225000368 active site 319225000369 dimer interface [polypeptide binding]; other site 319225000370 motif 1; other site 319225000371 motif 2; other site 319225000372 motif 3; other site 319225000373 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 319225000374 anticodon binding site; other site 319225000375 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 319225000376 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 319225000377 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 319225000378 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 319225000379 active site 319225000380 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 319225000381 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 319225000382 tetramer interface [polypeptide binding]; other site 319225000383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000384 catalytic residue [active] 319225000385 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 319225000386 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 319225000387 dimerization interface [polypeptide binding]; other site 319225000388 active site 319225000389 metal binding site [ion binding]; metal-binding site 319225000390 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 319225000391 dsRNA binding site [nucleotide binding]; other site 319225000392 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 319225000393 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 319225000394 dimer interface [polypeptide binding]; other site 319225000395 active site 319225000396 Phosphopantetheine attachment site; Region: PP-binding; cl09936 319225000397 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 319225000398 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 319225000399 NAD(P) binding site [chemical binding]; other site 319225000400 homotetramer interface [polypeptide binding]; other site 319225000401 homodimer interface [polypeptide binding]; other site 319225000402 active site 319225000403 Acyl transferase domain; Region: Acyl_transf_1; cl08282 319225000404 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 319225000405 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 319225000406 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 319225000407 dimer interface [polypeptide binding]; other site 319225000408 active site 319225000409 CoA binding pocket [chemical binding]; other site 319225000410 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 319225000411 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 319225000412 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 319225000413 META domain; Region: META; cl01245 319225000414 2-isopropylmalate synthase; Validated; Region: PRK03739 319225000415 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 319225000416 active site 319225000417 catalytic residues [active] 319225000418 metal binding site [ion binding]; metal-binding site 319225000419 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 319225000420 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 319225000421 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 319225000422 putative metal binding residues [ion binding]; other site 319225000423 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 319225000424 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 319225000425 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 319225000426 ABC-ATPase subunit interface; other site 319225000427 dimer interface [polypeptide binding]; other site 319225000428 putative PBP binding regions; other site 319225000429 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 319225000430 Ligand Binding Site [chemical binding]; other site 319225000431 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional; Region: PRK14490 319225000432 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 319225000433 Walker A motif; other site 319225000434 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 319225000435 GTP binding site; other site 319225000436 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 319225000437 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 319225000438 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 319225000439 active site 319225000440 catalytic site [active] 319225000441 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 319225000442 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 319225000443 trimer interface [polypeptide binding]; other site 319225000444 dimer interface [polypeptide binding]; other site 319225000445 putative active site [active] 319225000446 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 319225000447 MPT binding site; other site 319225000448 trimer interface [polypeptide binding]; other site 319225000449 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 319225000450 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 319225000451 dimer interface [polypeptide binding]; other site 319225000452 putative functional site; other site 319225000453 putative MPT binding site; other site 319225000454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000455 PQ loop repeat; Region: PQ-loop; cl12056 319225000456 Cytochrome c; Region: Cytochrom_C; cl11414 319225000457 Cytochrome c; Region: Cytochrom_C; cl11414 319225000458 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 319225000459 B12 binding site [chemical binding]; other site 319225000460 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 319225000461 Radical SAM superfamily; Region: Radical_SAM; pfam04055 319225000462 FeS/SAM binding site; other site 319225000463 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 319225000464 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 319225000465 homodimer interface [polypeptide binding]; other site 319225000466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000467 catalytic residue [active] 319225000468 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 319225000469 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 319225000470 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 319225000471 catalytic site [active] 319225000472 subunit interface [polypeptide binding]; other site 319225000473 Preprotein translocase subunit; Region: YajC; cl00806 319225000474 UGMP family protein; Validated; Region: PRK09604 319225000475 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 319225000476 Clp amino terminal domain; Region: Clp_N; pfam02861 319225000477 Clp amino terminal domain; Region: Clp_N; pfam02861 319225000478 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 319225000479 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 319225000480 Walker A motif; other site 319225000481 ATP binding site [chemical binding]; other site 319225000482 Walker B motif; other site 319225000483 arginine finger; other site 319225000484 Family of unknown function (DUF500); Region: DUF500; cl01109 319225000485 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 319225000486 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 319225000487 GatB domain; Region: GatB_Yqey; cl11497 319225000488 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 319225000489 GTPase CgtA; Reviewed; Region: obgE; PRK12299 319225000490 GTP1/OBG; Region: GTP1_OBG; pfam01018 319225000491 Obg GTPase; Region: Obg; cd01898 319225000492 G1 box; other site 319225000493 GTP/Mg2+ binding site [chemical binding]; other site 319225000494 Switch I region; other site 319225000495 G2 box; other site 319225000496 G3 box; other site 319225000497 Switch II region; other site 319225000498 G4 box; other site 319225000499 G5 box; other site 319225000500 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 319225000501 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319225000502 Coenzyme A binding pocket [chemical binding]; other site 319225000503 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 319225000504 dimerization domain swap beta strand [polypeptide binding]; other site 319225000505 regulatory protein interface [polypeptide binding]; other site 319225000506 active site 319225000507 regulatory phosphorylation site [posttranslational modification]; other site 319225000508 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 319225000509 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225000510 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225000511 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 319225000512 Probable Catalytic site; other site 319225000513 metal-binding site 319225000514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000515 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: GT1_like_1; cd04950 319225000516 putative homodimer interface [polypeptide binding]; other site 319225000517 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 319225000518 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 319225000519 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 319225000520 S17 interaction site [polypeptide binding]; other site 319225000521 S8 interaction site; other site 319225000522 16S rRNA interaction site [nucleotide binding]; other site 319225000523 streptomycin interaction site [chemical binding]; other site 319225000524 23S rRNA interaction site [nucleotide binding]; other site 319225000525 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 319225000526 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 319225000527 elongation factor G; Reviewed; Region: PRK00007 319225000528 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 319225000529 G1 box; other site 319225000530 putative GEF interaction site [polypeptide binding]; other site 319225000531 GTP/Mg2+ binding site [chemical binding]; other site 319225000532 Switch I region; other site 319225000533 G2 box; other site 319225000534 G3 box; other site 319225000535 Switch II region; other site 319225000536 G4 box; other site 319225000537 G5 box; other site 319225000538 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 319225000539 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 319225000540 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 319225000541 elongation factor Tu; Reviewed; Region: PRK00049 319225000542 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 319225000543 G1 box; other site 319225000544 GEF interaction site [polypeptide binding]; other site 319225000545 GTP/Mg2+ binding site [chemical binding]; other site 319225000546 Switch I region; other site 319225000547 G2 box; other site 319225000548 G3 box; other site 319225000549 Switch II region; other site 319225000550 G4 box; other site 319225000551 G5 box; other site 319225000552 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 319225000553 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 319225000554 Antibiotic Binding Site [chemical binding]; other site 319225000555 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 319225000556 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 319225000557 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 319225000558 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 319225000559 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 319225000560 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 319225000561 putative translocon binding site; other site 319225000562 protein-rRNA interface [nucleotide binding]; other site 319225000563 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 319225000564 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 319225000565 G-X-X-G motif; other site 319225000566 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 319225000567 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 319225000568 23S rRNA interface [nucleotide binding]; other site 319225000569 5S rRNA interface [nucleotide binding]; other site 319225000570 putative antibiotic binding site [chemical binding]; other site 319225000571 L25 interface [polypeptide binding]; other site 319225000572 L27 interface [polypeptide binding]; other site 319225000573 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 319225000574 putative translocon interaction site; other site 319225000575 23S rRNA interface [nucleotide binding]; other site 319225000576 signal recognition particle (SRP54) interaction site; other site 319225000577 L23 interface [polypeptide binding]; other site 319225000578 trigger factor interaction site; other site 319225000579 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 319225000580 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 319225000581 KOW motif; Region: KOW; cl00354 319225000582 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 319225000583 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 319225000584 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 319225000585 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 319225000586 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 319225000587 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 319225000588 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 319225000589 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 319225000590 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 319225000591 5S rRNA interface [nucleotide binding]; other site 319225000592 23S rRNA interface [nucleotide binding]; other site 319225000593 L5 interface [polypeptide binding]; other site 319225000594 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 319225000595 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 319225000596 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 319225000597 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 319225000598 23S rRNA binding site [nucleotide binding]; other site 319225000599 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 319225000600 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 319225000601 SecY translocase; Region: SecY; pfam00344 319225000602 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 319225000603 active site 319225000604 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 319225000605 rRNA binding site [nucleotide binding]; other site 319225000606 predicted 30S ribosome binding site; other site 319225000607 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 319225000608 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 319225000609 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 319225000610 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 319225000611 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 319225000612 RNA binding surface [nucleotide binding]; other site 319225000613 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 319225000614 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 319225000615 alphaNTD homodimer interface [polypeptide binding]; other site 319225000616 alphaNTD - beta interaction site [polypeptide binding]; other site 319225000617 alphaNTD - beta' interaction site [polypeptide binding]; other site 319225000618 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 319225000619 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 319225000620 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; cl15754 319225000621 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 319225000622 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 319225000623 Substrate binding site; other site 319225000624 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 319225000625 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 319225000626 active site 319225000627 HIGH motif; other site 319225000628 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 319225000629 KMSKS motif; other site 319225000630 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 319225000631 Predicted GTPase [General function prediction only]; Region: COG0218 319225000632 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 319225000633 G1 box; other site 319225000634 GTP/Mg2+ binding site [chemical binding]; other site 319225000635 Switch I region; other site 319225000636 G2 box; other site 319225000637 G3 box; other site 319225000638 Switch II region; other site 319225000639 G4 box; other site 319225000640 G5 box; other site 319225000641 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 319225000642 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 319225000643 GDP-binding site [chemical binding]; other site 319225000644 ACT binding site; other site 319225000645 IMP binding site; other site 319225000646 Domain of unknown function DUF77; Region: DUF77; cl00307 319225000647 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 319225000648 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 319225000649 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 319225000650 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 319225000651 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 319225000652 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 319225000653 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 319225000654 P-loop; other site 319225000655 Heme NO binding; Region: HNOB; cl15268 319225000656 Bacterial Ig-like domain; Region: Big_5; cl01012 319225000657 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 319225000658 Bacterial Ig-like domain; Region: Big_5; cl01012 319225000659 glycogen synthase; Provisional; Region: PRK14098 319225000660 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 319225000661 ADP-binding pocket [chemical binding]; other site 319225000662 homodimer interface [polypeptide binding]; other site 319225000663 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 319225000664 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 319225000665 active site 319225000666 motif I; other site 319225000667 motif II; other site 319225000668 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 319225000669 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 319225000670 FeS/SAM binding site; other site 319225000671 HemN C-terminal domain; Region: HemN_C; pfam06969 319225000672 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 319225000673 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 319225000674 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 319225000675 active site 319225000676 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 319225000677 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 319225000678 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 319225000679 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225000680 active site 319225000681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 319225000682 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 319225000683 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 319225000684 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 319225000685 active site 319225000686 multimer interface [polypeptide binding]; other site 319225000687 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 319225000688 catalytic triad [active] 319225000689 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 319225000690 Domain of unknown function DUF21; Region: DUF21; pfam01595 319225000691 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 319225000692 Transporter associated domain; Region: CorC_HlyC; cl08393 319225000693 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225000694 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 319225000695 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 319225000696 dimer interface [polypeptide binding]; other site 319225000697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000698 catalytic residue [active] 319225000699 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 319225000700 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 319225000701 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319225000702 catalytic residue [active] 319225000703 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 319225000704 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 319225000705 trimerization site [polypeptide binding]; other site 319225000706 active site 319225000707 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 319225000708 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14340 319225000709 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 319225000710 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 319225000711 FeS/SAM binding site; other site 319225000712 TRAM domain; Region: TRAM; cl01282 319225000713 UbiA prenyltransferase family; Region: UbiA; cl00337 319225000714 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 319225000715 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 319225000716 putative active site [active] 319225000717 putative metal binding site [ion binding]; other site 319225000718 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 319225000719 ATP phosphoribosyltransferase; Region: HisG; cl15266 319225000720 HisG, C-terminal domain; Region: HisG_C; cl06867 319225000721 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225000722 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 319225000723 active site 319225000724 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 319225000725 structural tetrad; other site 319225000726 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 protein; Region: CSP_CDS; cd04458 319225000727 DNA-binding site [nucleotide binding]; DNA binding site 319225000728 RNA-binding motif; other site 319225000729 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 319225000730 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 319225000731 RF-1 domain; Region: RF-1; cl02875 319225000732 Peptidase family M23; Region: Peptidase_M23; pfam01551 319225000733 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 319225000734 putative dimer interface [polypeptide binding]; other site 319225000735 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 319225000736 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 319225000737 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 319225000738 FeS/SAM binding site; other site 319225000739 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 319225000740 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 319225000741 S-adenosylmethionine binding site [chemical binding]; other site 319225000742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000743 magnesium chelatase subunit H; Provisional; Region: PRK12493 319225000744 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 319225000745 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225000746 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225000747 magnesium chelatase, H subunit; Region: BchH; TIGR02025 319225000748 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225000749 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225000750 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 319225000751 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 319225000752 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 319225000753 N-terminal plug; other site 319225000754 ligand-binding site [chemical binding]; other site 319225000755 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 319225000756 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 319225000757 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319225000758 catalytic residue [active] 319225000759 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 319225000760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000761 NAD(P) binding site [chemical binding]; other site 319225000762 active site 319225000763 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 319225000764 DNA polymerase III, delta subunit; Region: holA; TIGR01128 319225000765 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 319225000766 dimer interface [polypeptide binding]; other site 319225000767 ssDNA binding site [nucleotide binding]; other site 319225000768 tetramer (dimer of dimers) interface [polypeptide binding]; other site 319225000769 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 319225000770 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 319225000771 FAD binding pocket [chemical binding]; other site 319225000772 FAD binding motif [chemical binding]; other site 319225000773 phosphate binding motif [ion binding]; other site 319225000774 beta-alpha-beta structure motif; other site 319225000775 NAD binding pocket [chemical binding]; other site 319225000776 Iron coordination center [ion binding]; other site 319225000777 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225000778 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 319225000779 P loop; other site 319225000780 Nucleotide binding site [chemical binding]; other site 319225000781 DTAP/Switch II; other site 319225000782 Switch I; other site 319225000783 Chlorosome envelope protein C; Region: Chlorosome_CsmC; pfam11098 319225000784 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 319225000785 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225000786 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 319225000787 P loop; other site 319225000788 Nucleotide binding site [chemical binding]; other site 319225000789 DTAP/Switch II; other site 319225000790 Switch I; other site 319225000791 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 319225000792 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 319225000793 catalytic center binding site [active] 319225000794 ATP binding site [chemical binding]; other site 319225000795 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 319225000796 homooctamer interface [polypeptide binding]; other site 319225000797 active site 319225000798 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 319225000799 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 319225000800 dimerization interface [polypeptide binding]; other site 319225000801 active site 319225000802 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 319225000803 trigger factor; Region: tig; TIGR00115 319225000804 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 319225000805 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 319225000806 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319225000807 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319225000808 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319225000809 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 319225000810 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 319225000811 putative NADP binding site [chemical binding]; other site 319225000812 putative substrate binding site [chemical binding]; other site 319225000813 active site 319225000814 recombinase A; Provisional; Region: recA; PRK09354 319225000815 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 319225000816 hexamer interface [polypeptide binding]; other site 319225000817 Walker A motif; other site 319225000818 ATP binding site [chemical binding]; other site 319225000819 Walker B motif; other site 319225000820 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 319225000821 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 319225000822 FMN binding site [chemical binding]; other site 319225000823 active site 319225000824 catalytic residues [active] 319225000825 substrate binding site [chemical binding]; other site 319225000826 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 319225000827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000828 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 319225000829 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 319225000830 alanine racemase; Reviewed; Region: alr; PRK00053 319225000831 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 319225000832 active site 319225000833 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319225000834 dimer interface [polypeptide binding]; other site 319225000835 substrate binding site [chemical binding]; other site 319225000836 catalytic residues [active] 319225000837 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 319225000838 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 319225000839 dimer interface [polypeptide binding]; other site 319225000840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000841 catalytic residue [active] 319225000842 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 319225000843 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 319225000844 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 319225000845 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 319225000846 hinge; other site 319225000847 active site 319225000848 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 319225000849 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; cl12031 319225000850 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; cl12031 319225000851 YtxH-like protein; Region: YtxH; cl02079 319225000852 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 319225000853 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319225000854 Zn2+ binding site [ion binding]; other site 319225000855 Mg2+ binding site [ion binding]; other site 319225000856 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 319225000857 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 319225000858 Walker A/P-loop; other site 319225000859 ATP binding site [chemical binding]; other site 319225000860 Q-loop/lid; other site 319225000861 ABC transporter signature motif; other site 319225000862 Walker B; other site 319225000863 D-loop; other site 319225000864 H-loop/switch region; other site 319225000865 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 319225000866 TM2 domain; Region: TM2; cl00984 319225000867 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 319225000868 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 319225000869 trimer interface [polypeptide binding]; other site 319225000870 putative metal binding site [ion binding]; other site 319225000871 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 319225000872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000873 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319225000874 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 319225000875 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 319225000876 Peptidase family U32; Region: Peptidase_U32; cl03113 319225000877 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 319225000878 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 319225000879 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 319225000880 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 319225000881 AAA domain; Region: AAA_32; pfam13654 319225000882 ATP-dependent protease Lon; Provisional; Region: PRK13765 319225000883 Integral membrane protein TerC family; Region: TerC; cl10468 319225000884 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 319225000885 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 319225000886 NAD(P) binding site [chemical binding]; other site 319225000887 catalytic residues [active] 319225000888 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 319225000889 nucleophile elbow; other site 319225000890 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 319225000891 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 319225000892 putative deacylase active site [active] 319225000893 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225000894 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 319225000895 PAS domain S-box; Region: sensory_box; TIGR00229 319225000896 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 319225000897 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 319225000898 dimer interface [polypeptide binding]; other site 319225000899 phosphorylation site [posttranslational modification] 319225000900 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 319225000901 ATP binding site [chemical binding]; other site 319225000902 Mg2+ binding site [ion binding]; other site 319225000903 G-X-G motif; other site 319225000904 Response regulator receiver domain; Region: Response_reg; pfam00072 319225000905 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 319225000906 active site 319225000907 phosphorylation site [posttranslational modification] 319225000908 intermolecular recognition site; other site 319225000909 dimerization interface [polypeptide binding]; other site 319225000910 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; cl00086 319225000911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000912 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 319225000913 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 319225000914 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 319225000915 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 319225000916 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 319225000917 putative active site [active] 319225000918 transketolase; Reviewed; Region: PRK05899 319225000919 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 319225000920 TPP-binding site [chemical binding]; other site 319225000921 dimer interface [polypeptide binding]; other site 319225000922 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 319225000923 PYR/PP interface [polypeptide binding]; other site 319225000924 dimer interface [polypeptide binding]; other site 319225000925 TPP binding site [chemical binding]; other site 319225000926 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 319225000927 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 319225000928 Uncharacterized conserved protein [Function unknown]; Region: COG5634 319225000929 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 319225000930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 319225000931 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 319225000932 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 319225000933 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 319225000934 putative hydrophobic ligand binding site [chemical binding]; other site 319225000935 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 319225000936 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 319225000937 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 319225000938 substrate binding pocket [chemical binding]; other site 319225000939 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 319225000940 B12 binding site [chemical binding]; other site 319225000941 cobalt ligand [ion binding]; other site 319225000942 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 319225000943 Predicted esterase [General function prediction only]; Region: COG0400 319225000944 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 319225000945 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 319225000946 Ligand Binding Site [chemical binding]; other site 319225000947 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 319225000948 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 319225000949 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 319225000950 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 319225000951 MgtE intracellular N domain; Region: MgtE_N; cl15244 319225000952 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 319225000953 Divalent cation transporter; Region: MgtE; cl00786 319225000954 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 319225000955 active site 319225000956 DNA binding site [nucleotide binding] 319225000957 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 319225000958 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 319225000959 P-loop; other site 319225000960 Magnesium ion binding site [ion binding]; other site 319225000961 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 319225000962 Magnesium ion binding site [ion binding]; other site 319225000963 ParB-like nuclease domain; Region: ParBc; cl02129 319225000964 ParB-like partition proteins; Region: parB_part; TIGR00180 319225000965 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225000966 dihydrodipicolinate reductase; Provisional; Region: PRK00048 319225000967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000968 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 319225000969 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 319225000970 AMP-binding enzyme; Region: AMP-binding; cl15778 319225000971 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 319225000972 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 319225000973 active site 319225000974 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 319225000975 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 319225000976 substrate binding site [chemical binding]; other site 319225000977 oxyanion hole (OAH) forming residues; other site 319225000978 trimer interface [polypeptide binding]; other site 319225000979 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 319225000980 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; cl12031 319225000981 FeS assembly ATPase SufC; Region: sufC; TIGR01978 319225000982 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225000983 active site 319225000984 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 319225000985 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 319225000986 dimer interface [polypeptide binding]; other site 319225000987 tetramer interface [polypeptide binding]; other site 319225000988 PYR/PP interface [polypeptide binding]; other site 319225000989 TPP binding site [chemical binding]; other site 319225000990 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 319225000991 TPP-binding site; other site 319225000992 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 319225000993 chorismate binding enzyme; Region: Chorismate_bind; cl10555 319225000994 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 319225000995 binding surface 319225000996 Tetratricopeptide repeat; Region: TPR_16; pfam13432 319225000997 TPR motif; other site 319225000998 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 319225000999 metal-binding site [ion binding] 319225001000 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 319225001001 putative metal binding site [ion binding]; other site 319225001002 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 319225001003 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 319225001004 Citrate synthase; Region: Citrate_synt; pfam00285 319225001005 oxalacetate binding site [chemical binding]; other site 319225001006 citrylCoA binding site [chemical binding]; other site 319225001007 coenzyme A binding site [chemical binding]; other site 319225001008 catalytic triad [active] 319225001009 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 319225001010 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 319225001011 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 319225001012 Ligand binding site; other site 319225001013 oligomer interface; other site 319225001014 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 319225001015 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 319225001016 generic binding surface II; other site 319225001017 generic binding surface I; other site 319225001018 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 319225001019 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 319225001020 sensory histidine kinase AtoS; Provisional; Region: PRK11360 319225001021 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 319225001022 dimer interface [polypeptide binding]; other site 319225001023 phosphorylation site [posttranslational modification] 319225001024 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 319225001025 ATP binding site [chemical binding]; other site 319225001026 Mg2+ binding site [ion binding]; other site 319225001027 G-X-G motif; other site 319225001028 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319225001029 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 319225001030 active site 319225001031 phosphorylation site [posttranslational modification] 319225001032 intermolecular recognition site; other site 319225001033 dimerization interface [polypeptide binding]; other site 319225001034 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 319225001035 Walker A motif; other site 319225001036 ATP binding site [chemical binding]; other site 319225001037 Walker B motif; other site 319225001038 arginine finger; other site 319225001039 Helix-turn-helix domains; Region: HTH; cl00088 319225001040 ribosome recycling factor; Reviewed; Region: frr; PRK00083 319225001041 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 round of...; Region: RRF; cd00520 319225001042 hinge region; other site 319225001043 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 319225001044 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 319225001045 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 319225001046 generic binding surface II; other site 319225001047 ssDNA binding site; other site 319225001048 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 319225001049 ATP binding site [chemical binding]; other site 319225001050 putative Mg++ binding site [ion binding]; other site 319225001051 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 319225001052 nucleotide binding region [chemical binding]; other site 319225001053 ATP-binding site [chemical binding]; other site 319225001054 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 319225001055 GTPase RsgA; Reviewed; Region: PRK00098 319225001056 RNA binding site [nucleotide binding]; other site 319225001057 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 319225001058 GTPase/Zn-binding domain interface [polypeptide binding]; other site 319225001059 GTP/Mg2+ binding site [chemical binding]; other site 319225001060 G4 box; other site 319225001061 G5 box; other site 319225001062 G1 box; other site 319225001063 Switch I region; other site 319225001064 G2 box; other site 319225001065 G3 box; other site 319225001066 Switch II region; other site 319225001067 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 319225001068 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 319225001069 NAD(P) binding site [chemical binding]; other site 319225001070 catalytic residues [active] 319225001071 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 319225001072 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 319225001073 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 319225001074 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 319225001075 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 319225001076 putative trimer interface [polypeptide binding]; other site 319225001077 putative CoA binding site [chemical binding]; other site 319225001078 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 319225001079 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 319225001080 glutamine binding [chemical binding]; other site 319225001081 catalytic triad [active] 319225001082 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 319225001083 Haem-binding domain; Region: Haem_bd; pfam14376 319225001084 Predicted transcriptional regulator [General function prediction only]; Region: COG2522 319225001085 Helix-turn-helix domains; Region: HTH; cl00088 319225001086 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 319225001087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 319225001088 Survival protein SurE; Region: SurE; cl00448 319225001089 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 319225001090 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 319225001091 active site 319225001092 nucleophile elbow; other site 319225001093 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 319225001094 Surface antigen; Region: Bac_surface_Ag; cl03097 319225001095 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 319225001096 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 319225001097 Bacterial Ig-like domain; Region: Big_5; cl01012 319225001098 Bacterial Ig-like domain; Region: Big_5; cl01012 319225001099 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 319225001100 active site 319225001101 catalytic triad [active] 319225001102 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 319225001103 putative ADP-binding pocket [chemical binding]; other site 319225001104 Thymidylate synthase complementing protein; Region: Thy1; cl03630 319225001105 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 319225001106 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 319225001107 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 319225001108 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 319225001109 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 319225001110 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 319225001111 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cd00110 319225001112 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 319225001113 calcium mediated ligand binding site; other site 319225001114 intermolecular salt bridges; other site 319225001115 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 319225001116 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 319225001117 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001118 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001119 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 319225001120 ligand binding surface [chemical binding]; other site 319225001121 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001122 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001123 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001124 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001125 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001126 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001127 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225001128 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 319225001129 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225001130 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225001131 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 319225001132 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225001133 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225001134 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 319225001135 active site 319225001136 putative substrate binding region [chemical binding]; other site 319225001137 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 319225001138 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225001139 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 319225001140 active site 319225001141 phosphorylation site [posttranslational modification] 319225001142 intermolecular recognition site; other site 319225001143 dimerization interface [polypeptide binding]; other site 319225001144 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 319225001145 DNA binding site [nucleotide binding] 319225001146 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 319225001147 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319225001148 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319225001149 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 319225001150 dimer interface [polypeptide binding]; other site 319225001151 phosphorylation site [posttranslational modification] 319225001152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 319225001153 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 319225001154 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319225001155 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 319225001156 dimer interface [polypeptide binding]; other site 319225001157 phosphorylation site [posttranslational modification] 319225001158 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 319225001159 ATP binding site [chemical binding]; other site 319225001160 Mg2+ binding site [ion binding]; other site 319225001161 G-X-G motif; other site 319225001162 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 319225001163 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001164 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001165 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001166 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 319225001167 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 319225001168 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 319225001169 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 319225001170 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001171 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 319225001172 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 319225001173 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 319225001174 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 319225001175 Walker A/P-loop; other site 319225001176 ATP binding site [chemical binding]; other site 319225001177 Q-loop/lid; other site 319225001178 ABC transporter signature motif; other site 319225001179 Walker B; other site 319225001180 D-loop; other site 319225001181 H-loop/switch region; other site 319225001182 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 319225001183 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225001184 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225001185 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 319225001186 Clp protease; Region: CLP_protease; pfam00574 319225001187 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 319225001188 oligomer interface [polypeptide binding]; other site 319225001189 active site residues [active] 319225001190 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 319225001191 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225001192 active site 319225001193 HIGH motif; other site 319225001194 nucleotide binding site [chemical binding]; other site 319225001195 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 319225001196 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 319225001197 active site 319225001198 KMSKS motif; other site 319225001199 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 319225001200 tRNA binding surface [nucleotide binding]; other site 319225001201 anticodon binding site; other site 319225001202 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 319225001203 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 319225001204 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 319225001205 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319225001206 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 319225001207 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 319225001208 DNA binding residues [nucleotide binding] 319225001209 Uncharacterized conserved protein [Function unknown]; Region: COG1912 319225001210 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 319225001211 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 319225001212 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 319225001213 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319225001214 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319225001215 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319225001216 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319225001217 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319225001218 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319225001219 excinuclease ABC subunit B; Provisional; Region: PRK05298 319225001220 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 319225001221 ATP binding site [chemical binding]; other site 319225001222 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 319225001223 nucleotide binding region [chemical binding]; other site 319225001224 ATP-binding site [chemical binding]; other site 319225001225 Ultra-violet resistance protein B; Region: UvrB; pfam12344 319225001226 UvrB/uvrC motif; Region: UVR; pfam02151 319225001227 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 319225001228 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 319225001229 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 319225001230 synthetase active site [active] 319225001231 NTP binding site [chemical binding]; other site 319225001232 metal binding site [ion binding]; metal-binding site 319225001233 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 319225001234 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 319225001235 LemA family; Region: LemA; cl00742 319225001236 Repair protein; Region: Repair_PSII; cl01535 319225001237 Repair protein; Region: Repair_PSII; cl01535 319225001238 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 319225001239 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 319225001240 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 319225001241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225001242 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 319225001243 NifU-like domain; Region: NifU; cl00484 319225001244 Domain of unknown function DUF59; Region: DUF59; cl00941 319225001245 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 319225001246 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 319225001247 Walker A motif; other site 319225001248 GTP-binding protein Der; Reviewed; Region: PRK00093 319225001249 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 319225001250 G1 box; other site 319225001251 GTP/Mg2+ binding site [chemical binding]; other site 319225001252 Switch I region; other site 319225001253 G2 box; other site 319225001254 Switch II region; other site 319225001255 G3 box; other site 319225001256 G4 box; other site 319225001257 G5 box; other site 319225001258 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 319225001259 G1 box; other site 319225001260 GTP/Mg2+ binding site [chemical binding]; other site 319225001261 Switch I region; other site 319225001262 G2 box; other site 319225001263 G3 box; other site 319225001264 Switch II region; other site 319225001265 G4 box; other site 319225001266 G5 box; other site 319225001267 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 319225001268 23S rRNA interface [nucleotide binding]; other site 319225001269 L3 interface [polypeptide binding]; other site 319225001270 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 319225001271 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 319225001272 rRNA interaction site [nucleotide binding]; other site 319225001273 S8 interaction site; other site 319225001274 putative laminin-1 binding site; other site 319225001275 elongation factor Ts; Provisional; Region: tsf; PRK09377 319225001276 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 319225001277 Elongation factor TS; Region: EF_TS; pfam00889 319225001278 Elongation factor TS; Region: EF_TS; pfam00889 319225001279 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 319225001280 putative nucleotide binding site [chemical binding]; other site 319225001281 uridine monophosphate binding site [chemical binding]; other site 319225001282 homohexameric interface [polypeptide binding]; other site 319225001283 RecX family; Region: RecX; cl00936 319225001284 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 319225001285 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 319225001286 B12 binding site [chemical binding]; other site 319225001287 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; cl06353 319225001288 short chain dehydrogenase; Validated; Region: PRK08324 319225001289 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 319225001290 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 319225001291 putative NAD(P) binding site [chemical binding]; other site 319225001292 active site 319225001293 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 319225001294 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 319225001295 putative active site; other site 319225001296 catalytic residue [active] 319225001297 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 319225001298 ribulose bisphosphate carboxylase, type III; Region: rubisco_III; TIGR03326 319225001299 dimer interface [polypeptide binding]; other site 319225001300 catalytic residue [active] 319225001301 metal binding site [ion binding]; metal-binding site 319225001302 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 319225001303 classical (c) SDRs; Region: SDR_c; cd05233 319225001304 NAD(P) binding site [chemical binding]; other site 319225001305 active site 319225001306 HEPN domain; Region: HEPN; cl00824 319225001307 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 319225001308 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 319225001309 substrate binding site; other site 319225001310 tetramer interface; other site 319225001311 Cupin domain; Region: Cupin_2; cl09118 319225001312 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 319225001313 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 319225001314 NADP binding site [chemical binding]; other site 319225001315 active site 319225001316 putative substrate binding site [chemical binding]; other site 319225001317 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 319225001318 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 319225001319 NAD binding site [chemical binding]; other site 319225001320 substrate binding site [chemical binding]; other site 319225001321 homodimer interface [polypeptide binding]; other site 319225001322 active site 319225001323 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 319225001324 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 319225001325 NAD binding site [chemical binding]; other site 319225001326 homodimer interface [polypeptide binding]; other site 319225001327 active site 319225001328 substrate binding site [chemical binding]; other site 319225001329 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 319225001330 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 319225001331 Substrate binding site; other site 319225001332 Cupin domain; Region: Cupin_2; cl09118 319225001333 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 319225001334 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225001335 active site 319225001336 HIGH motif; other site 319225001337 nucleotide binding site [chemical binding]; other site 319225001338 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225001339 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225001340 active site 319225001341 KMSKS motif; other site 319225001342 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 319225001343 tRNA binding surface [nucleotide binding]; other site 319225001344 anticodon binding site; other site 319225001345 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 319225001346 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 319225001347 amidophosphoribosyltransferase; Provisional; Region: PRK09123 319225001348 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 319225001349 active site 319225001350 tetramer interface [polypeptide binding]; other site 319225001351 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225001352 active site 319225001353 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 319225001354 FtsX-like permease family; Region: FtsX; cl15850 319225001355 endonuclease IV; Provisional; Region: PRK01060 319225001356 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 319225001357 AP (apurinic/apyrimidinic) site pocket; other site 319225001358 DNA interaction; other site 319225001359 Metal-binding active site; metal-binding site 319225001360 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 319225001361 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 319225001362 Ligand binding site; other site 319225001363 Putative Catalytic site; other site 319225001364 DXD motif; other site 319225001365 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 319225001366 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 319225001367 FeS/SAM binding site; other site 319225001368 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 319225001369 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 319225001370 active site 319225001371 substrate binding site [chemical binding]; other site 319225001372 cosubstrate binding site; other site 319225001373 catalytic site [active] 319225001374 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 319225001375 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 319225001376 purine monophosphate binding site [chemical binding]; other site 319225001377 dimer interface [polypeptide binding]; other site 319225001378 putative catalytic residues [active] 319225001379 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 319225001380 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 319225001381 Protein of unknown function (DUF456); Region: DUF456; cl01069 319225001382 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 319225001383 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 319225001384 Uncharacterized conserved protein [Function unknown]; Region: COG3349 319225001385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225001386 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 319225001387 iron-sulfur cluster [ion binding]; other site 319225001388 [2Fe-2S] cluster binding site [ion binding]; other site 319225001389 Uncharacterized conserved protein [Function unknown]; Region: COG3349 319225001390 Transposase [DNA replication, recombination, and repair]; Region: COG5421 319225001391 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 319225001392 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 319225001393 mce related protein; Region: MCE; pfam02470 319225001394 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 319225001395 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 319225001396 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 319225001397 Walker A/P-loop; other site 319225001398 ATP binding site [chemical binding]; other site 319225001399 Q-loop/lid; other site 319225001400 ABC transporter signature motif; other site 319225001401 Walker B; other site 319225001402 D-loop; other site 319225001403 H-loop/switch region; other site 319225001404 Permease; Region: Permease; cl00510 319225001405 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 319225001406 Bacitracin resistance protein BacA; Region: BacA; cl00858 319225001407 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 319225001408 active site 319225001409 dimerization interface [polypeptide binding]; other site 319225001410 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 319225001411 active site 319225001412 hydrophilic channel; other site 319225001413 dimerization interface [polypeptide binding]; other site 319225001414 catalytic residues [active] 319225001415 active site lid [active] 319225001416 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 319225001417 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 319225001418 Walker A/P-loop; other site 319225001419 ATP binding site [chemical binding]; other site 319225001420 Q-loop/lid; other site 319225001421 ABC transporter signature motif; other site 319225001422 Walker B; other site 319225001423 D-loop; other site 319225001424 H-loop/switch region; other site 319225001425 Smr domain; Region: Smr; cl02619 319225001426 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 319225001427 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 319225001428 tetramer interfaces [polypeptide binding]; other site 319225001429 binuclear metal-binding site [ion binding]; other site 319225001430 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 319225001431 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 319225001432 TPP-binding site; other site 319225001433 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 319225001434 PYR/PP interface [polypeptide binding]; other site 319225001435 dimer interface [polypeptide binding]; other site 319225001436 TPP binding site [chemical binding]; other site 319225001437 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 319225001438 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 319225001439 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_1; cd11347 319225001440 active site 319225001441 catalytic site [active] 319225001442 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 319225001443 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225001444 Family description; Region: UvrD_C_2; cl15862 319225001445 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 319225001446 Flavoprotein; Region: Flavoprotein; cl08021 319225001447 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 319225001448 FMN binding site [chemical binding]; other site 319225001449 dimer interface [polypeptide binding]; other site 319225001450 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 319225001451 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 319225001452 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 319225001453 DTAP/Switch II; other site 319225001454 Switch I; other site 319225001455 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 319225001456 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 319225001457 NAD binding site [chemical binding]; other site 319225001458 homotetramer interface [polypeptide binding]; other site 319225001459 homodimer interface [polypeptide binding]; other site 319225001460 substrate binding site [chemical binding]; other site 319225001461 active site 319225001462 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 319225001463 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 319225001464 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319225001465 putative active site [active] 319225001466 metal binding site [ion binding]; metal-binding site 319225001467 homodimer binding site [polypeptide binding]; other site 319225001468 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 319225001469 AMP binding site [chemical binding]; other site 319225001470 metal binding site [ion binding]; metal-binding site 319225001471 active site 319225001472 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 319225001473 DHH family; Region: DHH; pfam01368 319225001474 DHHA1 domain; Region: DHHA1; pfam02272 319225001475 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 319225001476 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 319225001477 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 319225001478 Ligand binding site; other site 319225001479 Putative Catalytic site; other site 319225001480 DXD motif; other site 319225001481 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 319225001482 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 319225001483 active site 319225001484 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 319225001485 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 319225001486 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 319225001487 putative active site [active] 319225001488 putative substrate binding site [chemical binding]; other site 319225001489 putative cosubstrate binding site; other site 319225001490 catalytic site [active] 319225001491 Cation efflux family; Region: Cation_efflux; cl00316 319225001492 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 319225001493 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 319225001494 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319225001495 NAD(P) binding site [chemical binding]; other site 319225001496 putative active site [active] 319225001497 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 319225001498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225001499 Walker A/P-loop; other site 319225001500 ATP binding site [chemical binding]; other site 319225001501 Q-loop/lid; other site 319225001502 ABC transporter signature motif; other site 319225001503 Walker B; other site 319225001504 D-loop; other site 319225001505 H-loop/switch region; other site 319225001506 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 319225001507 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 319225001508 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225001509 Walker A/P-loop; other site 319225001510 ATP binding site [chemical binding]; other site 319225001511 Q-loop/lid; other site 319225001512 ABC transporter signature motif; other site 319225001513 Walker B; other site 319225001514 D-loop; other site 319225001515 H-loop/switch region; other site 319225001516 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 319225001517 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 319225001518 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 319225001519 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 319225001520 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 319225001521 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 319225001522 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 319225001523 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 319225001524 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319225001525 catalytic residue [active] 319225001526 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 319225001527 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 319225001528 active site 319225001529 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 319225001530 binding surface 319225001531 Tetratricopeptide repeat; Region: TPR_16; pfam13432 319225001532 TPR motif; other site 319225001533 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 319225001534 active site 319225001535 lipoprotein signal peptidase; Provisional; Region: PRK14787 319225001536 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 319225001537 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 319225001538 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 319225001539 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 319225001540 shikimate binding site; other site 319225001541 NAD(P) binding site [chemical binding]; other site 319225001542 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 319225001543 binding surface 319225001544 TPR motif; other site 319225001545 TPR repeat; Region: TPR_11; pfam13414 319225001546 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 319225001547 binding surface 319225001548 TPR motif; other site 319225001549 TPR repeat; Region: TPR_11; pfam13414 319225001550 TPR repeat; Region: TPR_11; pfam13414 319225001551 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 319225001552 binding surface 319225001553 TPR motif; other site 319225001554 TPR repeat; Region: TPR_11; pfam13414 319225001555 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 319225001556 binding surface 319225001557 TPR motif; other site 319225001558 TPR repeat; Region: TPR_11; pfam13414 319225001559 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 319225001560 binding surface 319225001561 TPR motif; other site 319225001562 TPR repeat; Region: TPR_11; pfam13414 319225001563 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14671 319225001564 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 319225001565 GIY-YIG motif/motif A; other site 319225001566 active site 319225001567 catalytic site [active] 319225001568 putative DNA binding site [nucleotide binding]; other site 319225001569 metal binding site [ion binding]; metal-binding site 319225001570 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 319225001571 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 319225001572 Sodium:solute symporter family; Region: SSF; cl00456 319225001573 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 319225001574 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 319225001575 Domain of unknown function DUF302; Region: DUF302; cl01364 319225001576 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 319225001577 nudix motif; other site 319225001578 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 319225001579 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 319225001580 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 319225001581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225001582 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 319225001583 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 319225001584 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225001585 Q-loop/lid; other site 319225001586 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 319225001587 ABC transporter signature motif; other site 319225001588 Walker B; other site 319225001589 D-loop; other site 319225001590 ABC transporter; Region: ABC_tran_2; pfam12848 319225001591 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 319225001592 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225001593 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225001594 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 319225001595 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 319225001596 Walker A/P-loop; other site 319225001597 ATP binding site [chemical binding]; other site 319225001598 Q-loop/lid; other site 319225001599 ABC transporter signature motif; other site 319225001600 Walker B; other site 319225001601 D-loop; other site 319225001602 H-loop/switch region; other site 319225001603 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225001604 FtsX-like permease family; Region: FtsX; cl15850 319225001605 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 319225001606 ATP-grasp domain; Region: ATP-grasp_4; cl03087 319225001607 CoA-ligase; Region: Ligase_CoA; cl02894 319225001608 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 319225001609 nucleoside/Zn binding site; other site 319225001610 dimer interface [polypeptide binding]; other site 319225001611 catalytic motif [active] 319225001612 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 319225001613 FMN binding site [chemical binding]; other site 319225001614 substrate binding site [chemical binding]; other site 319225001615 putative catalytic residue [active] 319225001616 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 319225001617 catalytic core [active] 319225001618 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 319225001619 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 319225001620 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 319225001621 active site 319225001622 dimer interface [polypeptide binding]; other site 319225001623 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 319225001624 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 319225001625 active site 319225001626 FMN binding site [chemical binding]; other site 319225001627 substrate binding site [chemical binding]; other site 319225001628 3Fe-4S cluster binding site [ion binding]; other site 319225001629 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 319225001630 domain interface; other site 319225001631 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 319225001632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225001633 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 319225001634 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 319225001635 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 319225001636 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 319225001637 Walker A motif; other site 319225001638 ATP binding site [chemical binding]; other site 319225001639 Walker B motif; other site 319225001640 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 319225001641 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 319225001642 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319225001643 putative active site [active] 319225001644 putative metal binding site [ion binding]; other site 319225001645 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225001646 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 319225001647 Predicted transcriptional regulator [Transcription]; Region: COG5340 319225001648 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225001649 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 319225001650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 319225001651 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 319225001652 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 319225001653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 319225001654 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225001655 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 319225001656 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 319225001657 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 319225001658 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 319225001659 catalytic residue [active] 319225001660 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 319225001661 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 319225001662 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 319225001663 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 319225001664 DsbD alpha interface [polypeptide binding]; other site 319225001665 catalytic residues [active] 319225001666 ribonuclease R; Region: RNase_R; TIGR02063 319225001667 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 319225001668 RNB domain; Region: RNB; pfam00773 319225001669 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 play an important...; Region: S1_RNase_R; cd04471 319225001670 RNA binding site [nucleotide binding]; other site 319225001671 photolyase PhrII; Region: phr2; TIGR00591 319225001672 DNA photolyase; Region: DNA_photolyase; pfam00875 319225001673 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 319225001674 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 319225001675 catalytic triad [active] 319225001676 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 319225001677 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 319225001678 metal binding site [ion binding]; metal-binding site 319225001679 dimer interface [polypeptide binding]; other site 319225001680 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 319225001681 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 319225001682 active site 319225001683 substrate binding site [chemical binding]; other site 319225001684 catalytic site [active] 319225001685 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 319225001686 non-specific DNA binding site [nucleotide binding]; other site 319225001687 salt bridge; other site 319225001688 sequence-specific DNA binding site [nucleotide binding]; other site 319225001689 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 319225001690 metal ion-dependent adhesion site (MIDAS); other site 319225001691 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 319225001692 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 319225001693 active site residue [active] 319225001694 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 319225001695 substrate binding pocket [chemical binding]; other site 319225001696 Ion channel; Region: Ion_trans_2; cl11596 319225001697 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 319225001698 membrane-bound complex binding site; other site 319225001699 hinge residues; other site 319225001700 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 319225001701 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 319225001702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225001703 catalytic residue [active] 319225001704 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 319225001705 hydrolase; Region: PLN02578 319225001706 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; cl12031 319225001707 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; cl12031 319225001708 Rrf2 family protein; Region: rrf2_super; TIGR00738 319225001709 Helix-turn-helix domains; Region: HTH; cl00088 319225001710 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 319225001711 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 319225001712 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225001713 ABC transporter signature motif; other site 319225001714 Walker B; other site 319225001715 D-loop; other site 319225001716 H-loop/switch region; other site 319225001717 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 319225001718 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 319225001719 oligomerisation interface [polypeptide binding]; other site 319225001720 mobile loop; other site 319225001721 roof hairpin; other site 319225001722 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 319225001723 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 319225001724 ring oligomerisation interface [polypeptide binding]; other site 319225001725 ATP/Mg binding site [chemical binding]; other site 319225001726 stacking interactions; other site 319225001727 hinge regions; other site 319225001728 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 319225001729 Ligand Binding Site [chemical binding]; other site 319225001730 CAAX protease self-immunity; Region: Abi; cl00558 319225001731 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 319225001732 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 319225001733 substrate binding site [chemical binding]; other site 319225001734 active site 319225001735 catalytic residues [active] 319225001736 heterodimer interface [polypeptide binding]; other site 319225001737 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 319225001738 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 319225001739 Probable Catalytic site; other site 319225001740 metal-binding site 319225001741 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 319225001742 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 319225001743 NADP binding site [chemical binding]; other site 319225001744 putative substrate binding site [chemical binding]; other site 319225001745 active site 319225001746 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_11; cd08866 319225001747 putative hydrophobic ligand binding site [chemical binding]; other site 319225001748 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 319225001749 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 319225001750 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 319225001751 Cation efflux family; Region: Cation_efflux; cl00316 319225001752 Cation efflux family; Region: Cation_efflux; cl00316 319225001753 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 319225001754 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 319225001755 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 319225001756 rod shape-determining protein MreB; Provisional; Region: PRK13930 319225001757 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 319225001758 ATP binding site [chemical binding]; other site 319225001759 gelsolin binding site; other site 319225001760 profilin binding site; other site 319225001761 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 319225001762 histidinol dehydrogenase; Region: hisD; TIGR00069 319225001763 NAD binding site [chemical binding]; other site 319225001764 dimerization interface [polypeptide binding]; other site 319225001765 product binding site; other site 319225001766 substrate binding site [chemical binding]; other site 319225001767 zinc binding site [ion binding]; other site 319225001768 catalytic residues [active] 319225001769 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 319225001770 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 319225001771 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 319225001772 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 319225001773 substrate binding site [chemical binding]; other site 319225001774 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 319225001775 substrate binding site [chemical binding]; other site 319225001776 ligand binding site [chemical binding]; other site 319225001777 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 319225001778 Membrane transport protein; Region: Mem_trans; cl09117 319225001779 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 319225001780 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 319225001781 hinge; other site 319225001782 active site 319225001783 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 319225001784 Peptidase family M23; Region: Peptidase_M23; pfam01551 319225001785 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 319225001786 homodimer interface [polypeptide binding]; other site 319225001787 NAD synthase; Region: NAD_synthase; pfam02540 319225001788 NAD binding pocket [chemical binding]; other site 319225001789 ATP binding pocket [chemical binding]; other site 319225001790 Mg binding site [ion binding]; other site 319225001791 active-site loop [active] 319225001792 L-aspartate oxidase; Provisional; Region: PRK09077 319225001793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225001794 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319225001795 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 319225001796 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 319225001797 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 319225001798 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 319225001799 active site 319225001800 HIGH motif; other site 319225001801 dimer interface [polypeptide binding]; other site 319225001802 KMSKS motif; other site 319225001803 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 319225001804 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 319225001805 SmpB-tmRNA interface; other site 319225001806 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 319225001807 FAD binding domain; Region: FAD_binding_4; pfam01565 319225001808 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 319225001809 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 319225001810 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 319225001811 rod shape-determining protein MreC; Region: MreC; pfam04085 319225001812 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 319225001813 oligomerisation interface [polypeptide binding]; other site 319225001814 mobile loop; other site 319225001815 roof hairpin; other site 319225001816 Quinolinate synthetase A protein; Region: NadA; cl00420 319225001817 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 319225001818 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 319225001819 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 319225001820 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 319225001821 thioester formation/cholesterol transfer; other site 319225001822 protein-splicing catalytic site; other site 319225001823 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 319225001824 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; cl15780 319225001825 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 319225001826 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 319225001827 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 319225001828 TSCPD domain; Region: TSCPD; cl14834 319225001829 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 319225001830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225001831 Walker A/P-loop; other site 319225001832 ATP binding site [chemical binding]; other site 319225001833 Q-loop/lid; other site 319225001834 ABC transporter signature motif; other site 319225001835 Walker B; other site 319225001836 D-loop; other site 319225001837 H-loop/switch region; other site 319225001838 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 319225001839 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 319225001840 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 319225001841 peroxiredoxin; Provisional; Region: PRK13189 319225001842 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 319225001843 dimer interface [polypeptide binding]; other site 319225001844 decamer (pentamer of dimers) interface [polypeptide binding]; other site 319225001845 catalytic triad [active] 319225001846 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 319225001847 Ferritin-like domain; Region: Ferritin; pfam00210 319225001848 diiron binding motif [ion binding]; other site 319225001849 Rubrerythrin [Energy production and conversion]; Region: COG1592 319225001850 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 319225001851 binuclear metal center [ion binding]; other site 319225001852 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 319225001853 iron binding site [ion binding]; other site 319225001854 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 319225001855 metal binding site 2 [ion binding]; metal-binding site 319225001856 putative DNA binding helix; other site 319225001857 metal binding site 1 [ion binding]; metal-binding site 319225001858 dimer interface [polypeptide binding]; other site 319225001859 structural Zn2+ binding site [ion binding]; other site 319225001860 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 319225001861 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 319225001862 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 319225001863 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 319225001864 ATP binding site [chemical binding]; other site 319225001865 Mg++ binding site [ion binding]; other site 319225001866 motif III; other site 319225001867 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 319225001868 nucleotide binding region [chemical binding]; other site 319225001869 ATP-binding site [chemical binding]; other site 319225001870 DbpA RNA binding domain; Region: DbpA; pfam03880 319225001871 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 319225001872 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 319225001873 Beta-Casp domain; Region: Beta-Casp; cl12567 319225001874 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 319225001875 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 319225001876 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 319225001877 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 319225001878 Int/Topo IB signature motif; other site 319225001879 active site 319225001880 16S rRNA methyltransferase B; Provisional; Region: PRK14904 319225001881 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 319225001882 putative RNA binding site [nucleotide binding]; other site 319225001883 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; cl15754 319225001884 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 319225001885 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 319225001886 homodimer interface [polypeptide binding]; other site 319225001887 substrate-cofactor binding pocket; other site 319225001888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225001889 catalytic residue [active] 319225001890 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 319225001891 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; cl12031 319225001892 seryl-tRNA synthetase; Provisional; Region: PRK05431 319225001893 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 319225001894 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 bound...; Region: SerRS_core; cd00770 319225001895 dimer interface [polypeptide binding]; other site 319225001896 active site 319225001897 motif 1; other site 319225001898 motif 2; other site 319225001899 motif 3; other site 319225001900 GatB domain; Region: GatB_Yqey; cl11497 319225001901 classical (c) SDRs; Region: SDR_c; cd05233 319225001902 NAD(P) binding site [chemical binding]; other site 319225001903 active site 319225001904 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 protein; Region: CSP_CDS; cd04458 319225001905 DNA-binding site [nucleotide binding]; DNA binding site 319225001906 RNA-binding motif; other site 319225001907 hypothetical protein; Reviewed; Region: PRK00024 319225001908 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 319225001909 MPN+ (JAMM) motif; other site 319225001910 Zinc-binding site [ion binding]; other site 319225001911 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 319225001912 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 319225001913 active site 319225001914 catalytic residues [active] 319225001915 metal binding site [ion binding]; metal-binding site 319225001916 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 319225001917 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 319225001918 substrate binding site [chemical binding]; other site 319225001919 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 319225001920 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 319225001921 substrate binding site [chemical binding]; other site 319225001922 ligand binding site [chemical binding]; other site 319225001923 2-isopropylmalate synthase; Validated; Region: PRK00915 319225001924 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 319225001925 active site 319225001926 catalytic residues [active] 319225001927 metal binding site [ion binding]; metal-binding site 319225001928 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 319225001929 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 319225001930 tartrate dehydrogenase; Provisional; Region: PRK08194 319225001931 ketol-acid reductoisomerase; Provisional; Region: PRK05479 319225001932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225001933 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 319225001934 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 319225001935 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 319225001936 putative valine binding site [chemical binding]; other site 319225001937 dimer interface [polypeptide binding]; other site 319225001938 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 319225001939 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 319225001940 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225001941 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 319225001942 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 319225001943 PYR/PP interface [polypeptide binding]; other site 319225001944 dimer interface [polypeptide binding]; other site 319225001945 TPP binding site [chemical binding]; other site 319225001946 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 319225001947 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 319225001948 TPP-binding site [chemical binding]; other site 319225001949 dimer interface [polypeptide binding]; other site 319225001950 Dehydratase family; Region: ILVD_EDD; cl00340 319225001951 6-phosphogluconate dehydratase; Region: edd; TIGR01196 319225001952 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 319225001953 Integral membrane protein DUF92; Region: DUF92; cl00793 319225001954 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 319225001955 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 319225001956 Gram-negative bacterial tonB protein; Region: TonB; cl10048 319225001957 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 319225001958 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319225001959 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319225001960 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319225001961 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319225001962 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319225001963 ligand binding site [chemical binding]; other site 319225001964 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319225001965 ligand binding site [chemical binding]; other site 319225001966 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 319225001967 Tetratricopeptide repeat; Region: TPR_6; pfam13174 319225001968 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225001969 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 319225001970 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 319225001971 Photosystem P840 reaction centre protein PscD; Region: RC-P840_PscD; pfam10657 319225001972 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 319225001973 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 319225001974 putative dimer interface [polypeptide binding]; other site 319225001975 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 319225001976 dimerization interface [polypeptide binding]; other site 319225001977 putative DNA binding site [nucleotide binding]; other site 319225001978 putative Zn2+ binding site [ion binding]; other site 319225001979 Putative zinc-finger; Region: zf-HC2; cl15806 319225001980 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 319225001981 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319225001982 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 319225001983 DNA binding residues [nucleotide binding] 319225001984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225001985 carotene isomerase; Region: carot_isom; TIGR02730 319225001986 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 319225001987 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 319225001988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225001989 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 319225001990 catalytic loop [active] 319225001991 iron binding site [ion binding]; other site 319225001992 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; cl00159 319225001993 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 319225001994 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 319225001995 DEAD-like helicases superfamily; Region: DEXDc; smart00487 319225001996 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 319225001997 ATP binding site [chemical binding]; other site 319225001998 putative Mg++ binding site [ion binding]; other site 319225001999 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 319225002000 nucleotide binding region [chemical binding]; other site 319225002001 ATP-binding site [chemical binding]; other site 319225002002 TRCF domain; Region: TRCF; cl04088 319225002003 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 319225002004 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 319225002005 Walker A/P-loop; other site 319225002006 ATP binding site [chemical binding]; other site 319225002007 Q-loop/lid; other site 319225002008 ABC transporter signature motif; other site 319225002009 Walker B; other site 319225002010 D-loop; other site 319225002011 H-loop/switch region; other site 319225002012 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 319225002013 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225002014 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 319225002015 active site 319225002016 phosphorylation site [posttranslational modification] 319225002017 intermolecular recognition site; other site 319225002018 dimerization interface [polypeptide binding]; other site 319225002019 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 319225002020 DNA binding site [nucleotide binding] 319225002021 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 319225002022 dimerization interface [polypeptide binding]; other site 319225002023 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 319225002024 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 319225002025 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 319225002026 dimer interface [polypeptide binding]; other site 319225002027 phosphorylation site [posttranslational modification] 319225002028 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 319225002029 ATP binding site [chemical binding]; other site 319225002030 Mg2+ binding site [ion binding]; other site 319225002031 G-X-G motif; other site 319225002032 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 319225002033 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319225002034 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 319225002035 nudix motif; other site 319225002036 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 319225002037 catalytic triad [active] 319225002038 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 319225002039 Virulence protein [General function prediction only]; Region: COG3943 319225002040 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 319225002041 BRO family, N-terminal domain; Region: Bro-N; cl10591 319225002042 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 319225002043 DNA-binding interface [nucleotide binding]; DNA binding site 319225002044 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 319225002045 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225002046 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 319225002047 putative active site [active] 319225002048 putative metal binding site [ion binding]; other site 319225002049 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 319225002050 non-specific DNA binding site [nucleotide binding]; other site 319225002051 salt bridge; other site 319225002052 sequence-specific DNA binding site [nucleotide binding]; other site 319225002053 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 319225002054 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 319225002055 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 319225002056 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 319225002057 putative active site [active] 319225002058 putative NTP binding site [chemical binding]; other site 319225002059 putative nucleic acid binding site [nucleotide binding]; other site 319225002060 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 319225002061 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 319225002062 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 319225002063 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 319225002064 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 319225002065 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 319225002066 ATP binding site [chemical binding]; other site 319225002067 Walker A motif; other site 319225002068 hexamer interface [polypeptide binding]; other site 319225002069 Walker B motif; other site 319225002070 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 319225002071 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 319225002072 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 319225002073 TadE-like protein; Region: TadE; cl10688 319225002074 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 319225002075 TadE-like protein; Region: TadE; cl10688 319225002076 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 319225002077 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 319225002078 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 319225002079 SAF domain; Region: SAF; cl00555 319225002080 Protein of unknown function DUF45; Region: DUF45; cl00636 319225002081 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 319225002082 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 319225002083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225002084 Domain of unknown function (DUF296); Region: DUF296; cl00720 319225002085 TspO/MBR family; Region: TspO_MBR; cl01379 319225002086 Sulfate transporter family; Region: Sulfate_transp; cl15842 319225002087 putative transporter; Provisional; Region: PRK11660 319225002088 Sulfate transporter family; Region: Sulfate_transp; cl15842 319225002089 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 319225002090 putative cation:proton antiport protein; Provisional; Region: PRK10669 319225002091 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 319225002092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225002093 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; cl12031 319225002094 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225002095 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; cl12031 319225002096 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 monomeric; Region: PRAI; cd00405 319225002097 active site 319225002098 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 319225002099 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 319225002100 oligomerization interface [polypeptide binding]; other site 319225002101 active site 319225002102 NAD+ binding site [chemical binding]; other site 319225002103 S-adenosylmethionine synthetase; Validated; Region: PRK05250 319225002104 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 319225002105 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 319225002106 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 319225002107 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 319225002108 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 319225002109 active site 319225002110 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 319225002111 putative trimer interface [polypeptide binding]; other site 319225002112 putative CoA binding site [chemical binding]; other site 319225002113 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 319225002114 Sel1 repeat; Region: Sel1; cl02723 319225002115 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 319225002116 sequence-specific DNA binding site [nucleotide binding]; other site 319225002117 salt bridge; other site 319225002118 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 319225002119 putative active site [active] 319225002120 heme pocket [chemical binding]; other site 319225002121 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002122 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002123 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002124 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002125 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002126 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002127 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002128 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002129 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002130 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002131 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002132 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002133 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002134 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002135 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002136 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002137 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002138 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002139 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002140 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002141 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002142 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002143 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002144 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002145 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002146 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002147 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002148 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002149 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225002150 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 319225002151 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 319225002152 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 319225002153 Walker A/P-loop; other site 319225002154 ATP binding site [chemical binding]; other site 319225002155 Q-loop/lid; other site 319225002156 ABC transporter signature motif; other site 319225002157 Walker B; other site 319225002158 D-loop; other site 319225002159 H-loop/switch region; other site 319225002160 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 319225002161 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 319225002162 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 319225002163 Walker A/P-loop; other site 319225002164 ATP binding site [chemical binding]; other site 319225002165 Q-loop/lid; other site 319225002166 ABC transporter signature motif; other site 319225002167 Walker B; other site 319225002168 D-loop; other site 319225002169 H-loop/switch region; other site 319225002170 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 319225002171 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225002172 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 319225002173 Helix-turn-helix domains; Region: HTH; cl00088 319225002174 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 319225002175 non-specific DNA binding site [nucleotide binding]; other site 319225002176 salt bridge; other site 319225002177 sequence-specific DNA binding site [nucleotide binding]; other site 319225002178 Gas vesicle protein; Region: Gas_vesicle; cl02954 319225002179 Gas vesicle protein; Region: Gas_vesicle; cl02954 319225002180 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 319225002181 non-specific DNA binding site [nucleotide binding]; other site 319225002182 salt bridge; other site 319225002183 sequence-specific DNA binding site [nucleotide binding]; other site 319225002184 Gas vesicle protein; Region: Gas_vesicle; cl02954 319225002185 Gas vesicle protein; Region: Gas_vesicle; cl02954 319225002186 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 319225002187 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 319225002188 Walker A motif; other site 319225002189 ATP binding site [chemical binding]; other site 319225002190 Walker B motif; other site 319225002191 arginine finger; other site 319225002192 Gas vesicle protein; Region: Gas_vesicle; cl02954 319225002193 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 319225002194 putative dimer interface [polypeptide binding]; other site 319225002195 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225002196 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 319225002197 P loop; other site 319225002198 Nucleotide binding site [chemical binding]; other site 319225002199 DTAP/Switch II; other site 319225002200 Switch I; other site 319225002201 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 319225002202 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 319225002203 Cell division protein 48 (CDC48), domain 2; Region: CDC48_2; cl08380 319225002204 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 319225002205 Walker A motif; other site 319225002206 ATP binding site [chemical binding]; other site 319225002207 Walker B motif; other site 319225002208 arginine finger; other site 319225002209 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 319225002210 Walker A motif; other site 319225002211 ATP binding site [chemical binding]; other site 319225002212 Walker B motif; other site 319225002213 arginine finger; other site 319225002214 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002215 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002216 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002217 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 319225002218 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002219 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002220 Gas vesicle protein K; Region: GvpK; pfam05121 319225002221 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_9; cd04666 319225002222 nudix motif; other site 319225002223 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225002224 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225002225 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319225002226 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225002227 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 319225002228 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 319225002229 putative tRNA-binding site [nucleotide binding]; other site 319225002230 B3/4 domain; Region: B3_4; cl11458 319225002231 tRNA synthetase B5 domain; Region: B5; cl08394 319225002232 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 319225002233 dimer interface [polypeptide binding]; other site 319225002234 motif 1; other site 319225002235 motif 3; other site 319225002236 motif 2; other site 319225002237 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 319225002238 phosphodiesterase; Provisional; Region: PRK12704 319225002239 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; cl00098 319225002240 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 319225002241 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225002242 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 319225002243 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 319225002244 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 319225002245 putative active site pocket [active] 319225002246 4-fold oligomerization interface [polypeptide binding]; other site 319225002247 metal binding residues [ion binding]; metal-binding site 319225002248 3-fold/trimer interface [polypeptide binding]; other site 319225002249 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 319225002250 Preprotein translocase SecG subunit; Region: SecG; cl09123 319225002251 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 319225002252 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 319225002253 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 319225002254 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 319225002255 Domain of unknown function (DUF814); Region: DUF814; pfam05670 319225002256 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 319225002257 catalytic motif [active] 319225002258 Zn binding site [ion binding]; other site 319225002259 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 319225002260 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 319225002261 catalytic motif [active] 319225002262 Zn binding site [ion binding]; other site 319225002263 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; cl00161 319225002264 DoxX; Region: DoxX; cl00976 319225002265 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 319225002266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002267 Walker A/P-loop; other site 319225002268 ATP binding site [chemical binding]; other site 319225002269 Q-loop/lid; other site 319225002270 ABC transporter signature motif; other site 319225002271 Walker B; other site 319225002272 D-loop; other site 319225002273 H-loop/switch region; other site 319225002274 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 319225002275 dimer interface [polypeptide binding]; other site 319225002276 catalytic triad [active] 319225002277 peroxidatic and resolving cysteines [active] 319225002278 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 319225002279 Lumazine binding domain; Region: Lum_binding; pfam00677 319225002280 Lumazine binding domain; Region: Lum_binding; pfam00677 319225002281 recombination factor protein RarA; Reviewed; Region: PRK13342 319225002282 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 319225002283 Walker A motif; other site 319225002284 ATP binding site [chemical binding]; other site 319225002285 Walker B motif; other site 319225002286 arginine finger; other site 319225002287 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 319225002288 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225002289 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 319225002290 S-adenosylmethionine binding site [chemical binding]; other site 319225002291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225002292 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 319225002293 nucleotide binding site/active site [active] 319225002294 HIT family signature motif; other site 319225002295 catalytic residue [active] 319225002296 KilA-N domain; Region: KilA-N; pfam04383 319225002297 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002298 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319225002299 Ferrochelatase; Region: Ferrochelatase; pfam00762 319225002300 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 319225002301 C-terminal domain interface [polypeptide binding]; other site 319225002302 active site 319225002303 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 319225002304 active site 319225002305 N-terminal domain interface [polypeptide binding]; other site 319225002306 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 319225002307 binding surface 319225002308 TPR motif; other site 319225002309 TPR repeat; Region: TPR_11; pfam13414 319225002310 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 319225002311 binding surface 319225002312 TPR repeat; Region: TPR_11; pfam13414 319225002313 TPR motif; other site 319225002314 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 319225002315 NADH dehydrogenase subunit B; Provisional; Region: PRK14813 319225002316 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 319225002317 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 319225002318 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 319225002319 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 319225002320 NADH dehydrogenase; Region: NADHdh; cl00469 319225002321 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 319225002322 4Fe-4S binding domain; Region: Fer4; cl02805 319225002323 4Fe-4S binding domain; Region: Fer4; cl02805 319225002324 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 319225002325 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 319225002326 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 319225002327 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 319225002328 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 319225002329 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 319225002330 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 319225002331 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 319225002332 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 319225002333 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 319225002334 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 319225002335 GTP cyclohydrolase I; Provisional; Region: PLN03044 319225002336 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 319225002337 homodecamer interface [polypeptide binding]; other site 319225002338 active site 319225002339 putative catalytic site residues [active] 319225002340 zinc binding site [ion binding]; other site 319225002341 GTP-CH-I/GFRP interaction surface; other site 319225002342 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 319225002343 active site 319225002344 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 319225002345 catalytic residues [active] 319225002346 CAAX protease self-immunity; Region: Abi; cl00558 319225002347 SLBB domain; Region: SLBB; pfam10531 319225002348 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 319225002349 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 319225002350 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 319225002351 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002352 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 319225002353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225002354 Bacterial sugar transferase; Region: Bac_transf; cl00939 319225002355 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 319225002356 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 319225002357 inhibitor-cofactor binding pocket; inhibition site 319225002358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225002359 catalytic residue [active] 319225002360 MatE; Region: MatE; cl10513 319225002361 colanic acid exporter; Provisional; Region: PRK10459 319225002362 WbqC-like protein family; Region: WbqC; pfam08889 319225002363 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 319225002364 active site 319225002365 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 319225002366 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 319225002367 active site 319225002368 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; cl15754 319225002369 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225002370 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 319225002371 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 319225002372 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 319225002373 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 319225002374 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 319225002375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225002376 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 319225002377 FeS/SAM binding site; other site 319225002378 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 319225002379 VanZ like family; Region: VanZ; cl01971 319225002380 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 319225002381 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002382 Walker A/P-loop; other site 319225002383 ATP binding site [chemical binding]; other site 319225002384 Q-loop/lid; other site 319225002385 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 319225002386 ABC transporter signature motif; other site 319225002387 Walker B; other site 319225002388 D-loop; other site 319225002389 ABC transporter; Region: ABC_tran_2; pfam12848 319225002390 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 319225002391 ABC transporter; Region: ABC_tran_2; pfam12848 319225002392 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 319225002393 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; cl12031 319225002394 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 319225002395 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 319225002396 RNA binding surface [nucleotide binding]; other site 319225002397 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 319225002398 active site 319225002399 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 319225002400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225002401 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225002402 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 319225002403 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 319225002404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002406 magnesium chelatase ATPase subunit D; Region: BchD-ChlD; TIGR02031 319225002407 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 319225002408 metal ion-dependent adhesion site (MIDAS); other site 319225002409 magnesium chelatase, H subunit; Region: BchH; TIGR02025 319225002410 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 319225002411 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225002412 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225002413 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 319225002414 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 319225002415 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 key...; Region: CBS_pair_IMPDH; cd04601 319225002416 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 the guanine...; Region: IMPDH; cd00381 319225002417 active site 319225002418 RloB-like protein; Region: RloB; pfam13707 319225002419 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 319225002420 S-adenosylmethionine binding site [chemical binding]; other site 319225002421 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 319225002422 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 319225002423 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 319225002424 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 319225002425 ATP binding site [chemical binding]; other site 319225002426 Walker A motif; other site 319225002427 hexamer interface [polypeptide binding]; other site 319225002428 Walker B motif; other site 319225002429 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 319225002430 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 319225002431 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 319225002432 TadE-like protein; Region: TadE; cl10688 319225002433 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 319225002434 TadE-like protein; Region: TadE; cl10688 319225002435 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 319225002436 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 319225002437 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 319225002438 SAF domain; Region: SAF; cl00555 319225002439 amino acid transporter; Region: 2A0306; TIGR00909 319225002440 Helix-turn-helix domain; Region: HTH_18; pfam12833 319225002441 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319225002442 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225002443 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225002444 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225002445 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 319225002446 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 319225002447 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 319225002448 FAD binding pocket [chemical binding]; other site 319225002449 FAD binding motif [chemical binding]; other site 319225002450 phosphate binding motif [ion binding]; other site 319225002451 beta-alpha-beta structure motif; other site 319225002452 NAD binding pocket [chemical binding]; other site 319225002453 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 319225002454 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 319225002455 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 319225002456 active site 319225002457 metal binding site [ion binding]; metal-binding site 319225002458 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 319225002459 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 319225002460 PLD-like domain; Region: PLDc_2; pfam13091 319225002461 putative homodimer interface [polypeptide binding]; other site 319225002462 putative active site [active] 319225002463 catalytic site [active] 319225002464 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 319225002465 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 319225002466 ATP binding site [chemical binding]; other site 319225002467 putative Mg++ binding site [ion binding]; other site 319225002468 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 319225002469 nucleotide binding region [chemical binding]; other site 319225002470 ATP-binding site [chemical binding]; other site 319225002471 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 319225002472 Bacterial PH domain; Region: DUF304; cl01348 319225002473 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 319225002474 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 319225002475 salt bridge; other site 319225002476 non-specific DNA binding site [nucleotide binding]; other site 319225002477 sequence-specific DNA binding site [nucleotide binding]; other site 319225002478 RelB antitoxin; Region: RelB; cl01171 319225002479 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 319225002480 non-specific DNA binding site [nucleotide binding]; other site 319225002481 salt bridge; other site 319225002482 sequence-specific DNA binding site [nucleotide binding]; other site 319225002483 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 319225002484 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 319225002485 Protein of unknown function (DUF524); Region: DUF524; pfam04411 319225002486 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 319225002487 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 319225002488 Helix-turn-helix domains; Region: HTH; cl00088 319225002489 Predicted transcriptional regulator [Transcription]; Region: COG2378 319225002490 WYL domain; Region: WYL; cl14852 319225002491 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 319225002492 metal ion-dependent adhesion site (MIDAS); other site 319225002493 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 319225002494 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 319225002495 Sel1 repeat; Region: Sel1; cl02723 319225002496 Sel1 repeat; Region: Sel1; cl02723 319225002497 Sel1 repeat; Region: Sel1; cl02723 319225002498 Sel1 repeat; Region: Sel1; cl02723 319225002499 Sel1 repeat; Region: Sel1; cl02723 319225002500 Sel1 repeat; Region: Sel1; cl02723 319225002501 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 319225002502 Helix-turn-helix domains; Region: HTH; cl00088 319225002503 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 319225002504 PAS domain S-box; Region: sensory_box; TIGR00229 319225002505 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 319225002506 putative active site [active] 319225002507 heme pocket [chemical binding]; other site 319225002508 GAF domain; Region: GAF_2; pfam13185 319225002509 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 319225002510 dimer interface [polypeptide binding]; other site 319225002511 phosphorylation site [posttranslational modification] 319225002512 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 319225002513 ATP binding site [chemical binding]; other site 319225002514 Mg2+ binding site [ion binding]; other site 319225002515 G-X-G motif; other site 319225002516 Response regulator receiver domain; Region: Response_reg; pfam00072 319225002517 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 319225002518 active site 319225002519 phosphorylation site [posttranslational modification] 319225002520 intermolecular recognition site; other site 319225002521 dimerization interface [polypeptide binding]; other site 319225002522 KilA-N domain; Region: KilA-N; pfam04383 319225002523 Predicted transcriptional regulator [Transcription]; Region: COG2944 319225002524 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225002525 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 319225002526 multiple promoter invertase; Provisional; Region: mpi; PRK13413 319225002527 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 319225002528 catalytic residues [active] 319225002529 catalytic nucleophile [active] 319225002530 Presynaptic Site I dimer interface [polypeptide binding]; other site 319225002531 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 319225002532 Synaptic Flat tetramer interface [polypeptide binding]; other site 319225002533 Synaptic Site I dimer interface [polypeptide binding]; other site 319225002534 DNA binding site [nucleotide binding] 319225002535 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 319225002536 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; cl15306 319225002537 NMT1/THI5 like; Region: NMT1; pfam09084 319225002538 Cache domain; Region: Cache_1; pfam02743 319225002539 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 319225002540 dimerization interface [polypeptide binding]; other site 319225002541 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 319225002542 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; cl00120 319225002543 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 319225002544 membrane-bound complex binding site; other site 319225002545 hinge residues; other site 319225002546 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 319225002547 substrate binding pocket [chemical binding]; other site 319225002548 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 319225002549 membrane-bound complex binding site; other site 319225002550 hinge residues; other site 319225002551 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 319225002552 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002553 substrate binding pocket [chemical binding]; other site 319225002554 membrane-bound complex binding site; other site 319225002555 hinge residues; other site 319225002556 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 319225002557 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002558 substrate binding pocket [chemical binding]; other site 319225002559 membrane-bound complex binding site; other site 319225002560 hinge residues; other site 319225002561 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 319225002562 substrate binding pocket [chemical binding]; other site 319225002563 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 319225002564 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 319225002565 dimer interface [polypeptide binding]; other site 319225002566 conserved gate region; other site 319225002567 putative PBP binding loops; other site 319225002568 ABC-ATPase subunit interface; other site 319225002569 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 319225002570 membrane-bound complex binding site; other site 319225002571 hinge residues; other site 319225002572 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 319225002573 substrate binding pocket [chemical binding]; other site 319225002574 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 319225002575 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 319225002576 dimer interface [polypeptide binding]; other site 319225002577 conserved gate region; other site 319225002578 putative PBP binding loops; other site 319225002579 ABC-ATPase subunit interface; other site 319225002580 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 319225002581 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 319225002582 Walker A/P-loop; other site 319225002583 ATP binding site [chemical binding]; other site 319225002584 Q-loop/lid; other site 319225002585 ABC transporter signature motif; other site 319225002586 Walker B; other site 319225002587 D-loop; other site 319225002588 H-loop/switch region; other site 319225002589 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 319225002590 anti sigma factor interaction site; other site 319225002591 regulatory phosphorylation site [posttranslational modification]; other site 319225002592 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 319225002593 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 319225002594 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 319225002595 xanthine permease; Region: pbuX; TIGR03173 319225002596 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 319225002597 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 319225002598 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 319225002599 putative active site [active] 319225002600 putative NTP binding site [chemical binding]; other site 319225002601 putative nucleic acid binding site [nucleotide binding]; other site 319225002602 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 319225002603 Radical SAM superfamily; Region: Radical_SAM; pfam04055 319225002604 FeS/SAM binding site; other site 319225002605 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 319225002606 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 319225002607 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225002608 Outer membrane efflux protein; Region: OEP; pfam02321 319225002609 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225002610 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 319225002611 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). The cleavage...; Region: Peptidase_C39_like; cl00296 319225002612 putative active site [active] 319225002613 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 319225002614 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002615 Walker A/P-loop; other site 319225002616 ATP binding site [chemical binding]; other site 319225002617 Q-loop/lid; other site 319225002618 ABC transporter signature motif; other site 319225002619 Walker B; other site 319225002620 D-loop; other site 319225002621 H-loop/switch region; other site 319225002622 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 319225002623 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 319225002624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002625 Walker A/P-loop; other site 319225002626 ATP binding site [chemical binding]; other site 319225002627 Q-loop/lid; other site 319225002628 ABC transporter signature motif; other site 319225002629 Walker B; other site 319225002630 D-loop; other site 319225002631 H-loop/switch region; other site 319225002632 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 319225002633 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 319225002634 putative FMN binding site [chemical binding]; other site 319225002635 NADPH bind site [chemical binding]; other site 319225002636 Leucine carboxyl methyltransferase; Region: LCM; cl01306 319225002637 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 319225002638 YcaO-like family; Region: YcaO; pfam02624 319225002639 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 319225002640 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 319225002641 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 319225002642 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319225002643 Coenzyme A binding pocket [chemical binding]; other site 319225002644 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 319225002645 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 319225002646 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225002647 Response regulator receiver domain; Region: Response_reg; pfam00072 319225002648 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 319225002649 active site 319225002650 phosphorylation site [posttranslational modification] 319225002651 intermolecular recognition site; other site 319225002652 dimerization interface [polypeptide binding]; other site 319225002653 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 319225002654 PAS fold; Region: PAS_4; pfam08448 319225002655 putative active site [active] 319225002656 heme pocket [chemical binding]; other site 319225002657 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 319225002658 dimer interface [polypeptide binding]; other site 319225002659 phosphorylation site [posttranslational modification] 319225002660 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 319225002661 ATP binding site [chemical binding]; other site 319225002662 Mg2+ binding site [ion binding]; other site 319225002663 G-X-G motif; other site 319225002664 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; cl00159 319225002665 cell division protein FtsZ; Validated; Region: PRK09330 319225002666 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 319225002667 nucleotide binding site [chemical binding]; other site 319225002668 SulA interaction site; other site 319225002669 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 319225002670 Malic enzyme, N-terminal domain; Region: malic; pfam00390 319225002671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225002672 NAD(P) binding pocket [chemical binding]; other site 319225002673 NlpC/P60 family; Region: NLPC_P60; cl11438 319225002674 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 319225002675 SNF2 Helicase protein; Region: DUF3670; pfam12419 319225002676 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 319225002677 ATP binding site [chemical binding]; other site 319225002678 putative Mg++ binding site [ion binding]; other site 319225002679 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 319225002680 nucleotide binding region [chemical binding]; other site 319225002681 ATP-binding site [chemical binding]; other site 319225002682 SWIM zinc finger; Region: SWIM; cl15408 319225002683 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 319225002684 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 319225002685 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 319225002686 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225002687 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 319225002688 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 319225002689 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 319225002690 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225002691 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 319225002692 active site 319225002693 UbiA prenyltransferase family; Region: UbiA; cl00337 319225002694 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 319225002695 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 319225002696 LysE type translocator; Region: LysE; cl00565 319225002697 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 319225002698 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 319225002699 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 319225002700 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 319225002701 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 319225002702 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 319225002703 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 319225002704 Cl- selectivity filter; other site 319225002705 Cl- binding residues [ion binding]; other site 319225002706 pore gating glutamate residue; other site 319225002707 dimer interface [polypeptide binding]; other site 319225002708 FOG: CBS domain [General function prediction only]; Region: COG0517 319225002709 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_assoc2; cd04613 319225002710 Protein of unknown function DUF89; Region: DUF89; cl15397 319225002711 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 319225002712 TM-ABC transporter signature motif; other site 319225002713 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 319225002714 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 319225002715 Walker A/P-loop; other site 319225002716 ATP binding site [chemical binding]; other site 319225002717 Q-loop/lid; other site 319225002718 ABC transporter signature motif; other site 319225002719 Walker B; other site 319225002720 D-loop; other site 319225002721 H-loop/switch region; other site 319225002722 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 319225002723 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 319225002724 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 319225002725 putative NAD(P) binding site [chemical binding]; other site 319225002726 Sodium:solute symporter family; Region: SSF; cl00456 319225002727 Membrane protein of unknown function; Region: DUF360; cl00850 319225002728 DNA repair protein RadA; Provisional; Region: PRK11823 319225002729 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 319225002730 Walker A motif/ATP binding site; other site 319225002731 ATP binding site [chemical binding]; other site 319225002732 Walker B motif; other site 319225002733 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 319225002734 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14174 319225002735 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 319225002736 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 319225002737 homodimer interface [polypeptide binding]; other site 319225002738 NADP binding site [chemical binding]; other site 319225002739 substrate binding site [chemical binding]; other site 319225002740 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 319225002741 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 319225002742 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 319225002743 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 319225002744 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 319225002745 active site 319225002746 HslU subunit interaction site [polypeptide binding]; other site 319225002747 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 319225002748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002749 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 319225002750 Walker A motif; other site 319225002751 ATP binding site [chemical binding]; other site 319225002752 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002753 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 319225002754 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 319225002755 trimer interface [polypeptide binding]; other site 319225002756 active site 319225002757 dimer interface [polypeptide binding]; other site 319225002758 TPR repeat; Region: TPR_11; pfam13414 319225002759 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 319225002760 TPR motif; other site 319225002761 binding surface 319225002762 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 319225002763 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 319225002764 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 319225002765 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 319225002766 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 319225002767 B12 binding site [chemical binding]; other site 319225002768 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 319225002769 FeS/SAM binding site; other site 319225002770 UbiA prenyltransferase family; Region: UbiA; cl00337 319225002771 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319225002772 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 319225002773 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 319225002774 putative active site [active] 319225002775 heme pocket [chemical binding]; other site 319225002776 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 319225002777 PAS fold; Region: PAS_3; pfam08447 319225002778 putative active site [active] 319225002779 heme pocket [chemical binding]; other site 319225002780 PAS fold; Region: PAS_3; pfam08447 319225002781 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 319225002782 PAS domain S-box; Region: sensory_box; TIGR00229 319225002783 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 319225002784 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 319225002785 dimer interface [polypeptide binding]; other site 319225002786 phosphorylation site [posttranslational modification] 319225002787 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 319225002788 ATP binding site [chemical binding]; other site 319225002789 Mg2+ binding site [ion binding]; other site 319225002790 G-X-G motif; other site 319225002791 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225002792 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 319225002793 active site 319225002794 phosphorylation site [posttranslational modification] 319225002795 intermolecular recognition site; other site 319225002796 dimerization interface [polypeptide binding]; other site 319225002797 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 319225002798 DNA binding site [nucleotide binding] 319225002799 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 319225002800 Ligand Binding Site [chemical binding]; other site 319225002801 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 319225002802 Ligand Binding Site [chemical binding]; other site 319225002803 Sulfate transporter family; Region: Sulfate_transp; cl15842 319225002804 high affinity sulphate transporter 1; Region: sulP; TIGR00815 319225002805 Sulfate transporter family; Region: Sulfate_transp; cl15842 319225002806 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 319225002807 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 319225002808 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 319225002809 dimer interface [polypeptide binding]; other site 319225002810 active site 319225002811 metal binding site [ion binding]; metal-binding site 319225002812 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 319225002813 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 319225002814 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319225002815 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 319225002816 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 319225002817 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 319225002818 primosome assembly protein PriA; Validated; Region: PRK05580 319225002819 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 319225002820 ATP binding site [chemical binding]; other site 319225002821 putative Mg++ binding site [ion binding]; other site 319225002822 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 319225002823 ATP-binding site [chemical binding]; other site 319225002824 adenylate kinase; Reviewed; Region: adk; PRK00279 319225002825 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 319225002826 AMP-binding site [chemical binding]; other site 319225002827 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 319225002828 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14456 319225002829 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 319225002830 FeS/SAM binding site; other site 319225002831 Helix-turn-helix domains; Region: HTH; cl00088 319225002832 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 319225002833 DHH family; Region: DHH; pfam01368 319225002834 multifunctional aminopeptidase A; Provisional; Region: PRK00913 319225002835 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 319225002836 interface (dimer of trimers) [polypeptide binding]; other site 319225002837 Substrate-binding/catalytic site; other site 319225002838 Zn-binding sites [ion binding]; other site 319225002839 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225002840 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; cl12031 319225002841 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 319225002842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225002843 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 319225002844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225002845 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 319225002846 dimer interface [polypeptide binding]; other site 319225002847 substrate binding site [chemical binding]; other site 319225002848 ATP binding site [chemical binding]; other site 319225002849 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 319225002850 thiamine phosphate binding site [chemical binding]; other site 319225002851 active site 319225002852 pyrophosphate binding site [ion binding]; other site 319225002853 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 319225002854 active site 319225002855 thiamine phosphate binding site [chemical binding]; other site 319225002856 pyrophosphate binding site [ion binding]; other site 319225002857 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 319225002858 homotrimer interaction site [polypeptide binding]; other site 319225002859 putative active site [active] 319225002860 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 319225002861 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 319225002862 protein binding site [polypeptide binding]; other site 319225002863 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 319225002864 Catalytic dyad [active] 319225002865 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 319225002866 putative lipid binding site [chemical binding]; other site 319225002867 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 319225002868 putative lipid binding site [chemical binding]; other site 319225002869 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 319225002870 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 319225002871 putative ribose interaction site [chemical binding]; other site 319225002872 putative ADP binding site [chemical binding]; other site 319225002873 signal recognition particle protein; Provisional; Region: PRK10867 319225002874 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 319225002875 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 319225002876 P loop; other site 319225002877 GTP binding site [chemical binding]; other site 319225002878 Signal peptide binding domain; Region: SRP_SPB; pfam02978 319225002879 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 319225002880 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 319225002881 RimM N-terminal domain; Region: RimM; pfam01782 319225002882 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 319225002883 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 319225002884 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 319225002885 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 319225002886 endonuclease III; Region: ENDO3c; smart00478 319225002887 minor groove reading motif; other site 319225002888 helix-hairpin-helix signature motif; other site 319225002889 substrate binding pocket [chemical binding]; other site 319225002890 active site 319225002891 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 319225002892 AMP-binding enzyme; Region: AMP-binding; cl15778 319225002893 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 319225002894 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 319225002895 ligand binding site; other site 319225002896 tetramer interface; other site 319225002897 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 319225002898 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 319225002899 active site 319225002900 NAD binding site [chemical binding]; other site 319225002901 metal binding site [ion binding]; metal-binding site 319225002902 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 319225002903 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 319225002904 inhibitor-cofactor binding pocket; inhibition site 319225002905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225002906 catalytic residue [active] 319225002907 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 319225002908 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 319225002909 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 319225002910 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 319225002911 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 319225002912 DXD motif; other site 319225002913 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 319225002914 NodB motif; other site 319225002915 active site 319225002916 catalytic site [active] 319225002917 metal binding site [ion binding]; metal-binding site 319225002918 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 319225002919 Fungal chitosanase of glycosyl hydrolase group 75; Region: Glyco_hydro_75; pfam07335 319225002920 RmuC family; Region: RmuC; pfam02646 319225002921 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 319225002922 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 319225002923 ATP binding site [chemical binding]; other site 319225002924 Mg++ binding site [ion binding]; other site 319225002925 motif III; other site 319225002926 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 319225002927 nucleotide binding region [chemical binding]; other site 319225002928 ATP-binding site [chemical binding]; other site 319225002929 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 319225002930 binding surface 319225002931 TPR motif; other site 319225002932 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 319225002933 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225002934 DXD motif; other site 319225002935 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 319225002936 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 319225002937 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 319225002938 active site 319225002939 metal binding site [ion binding]; metal-binding site 319225002940 DNA binding site [nucleotide binding] 319225002941 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319225002942 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002943 Walker A/P-loop; other site 319225002944 ATP binding site [chemical binding]; other site 319225002945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002946 Q-loop/lid; other site 319225002947 ABC transporter signature motif; other site 319225002948 Walker B; other site 319225002949 D-loop; other site 319225002950 H-loop/switch region; other site 319225002951 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 319225002952 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 319225002953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002954 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 319225002955 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 319225002956 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 319225002957 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225002958 Family description; Region: UvrD_C_2; cl15862 319225002959 5-oxoprolinase; Region: PLN02666 319225002960 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 319225002961 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 319225002962 Helix-turn-helix domains; Region: HTH; cl00088 319225002963 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 319225002964 active site 319225002965 dimer interfaces [polypeptide binding]; other site 319225002966 catalytic residues [active] 319225002967 DsrE/DsrF-like family; Region: DrsE; cl00672 319225002968 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 319225002969 putative active site [active] 319225002970 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 319225002971 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002972 substrate binding pocket [chemical binding]; other site 319225002973 membrane-bound complex binding site; other site 319225002974 hinge residues; other site 319225002975 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 catalyze...; Region: LT_GEWL; cd00254 319225002976 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319225002977 catalytic residue [active] 319225002978 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 319225002979 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 319225002980 P-loop; other site 319225002981 Magnesium ion binding site [ion binding]; other site 319225002982 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 319225002983 Magnesium ion binding site [ion binding]; other site 319225002984 CHAD domain; Region: CHAD; cl10506 319225002985 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 319225002986 ligand binding site [chemical binding]; other site 319225002987 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 319225002988 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 319225002989 putative NADP binding site [chemical binding]; other site 319225002990 putative substrate binding site [chemical binding]; other site 319225002991 active site 319225002992 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 319225002993 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 319225002994 ligand binding site [chemical binding]; other site 319225002995 flexible hinge region; other site 319225002996 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 319225002997 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 319225002998 metal binding triad; other site 319225002999 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 319225003000 active site 319225003001 substrate binding site [chemical binding]; other site 319225003002 catalytic site [active] 319225003003 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 319225003004 S-adenosylmethionine binding site [chemical binding]; other site 319225003005 dihydroorotase; Validated; Region: pyrC; PRK09357 319225003006 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 319225003007 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 319225003008 active site 319225003009 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 319225003010 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 319225003011 polyphosphate kinase; Provisional; Region: PRK05443 319225003012 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 319225003013 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 319225003014 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 319225003015 putative domain interface [polypeptide binding]; other site 319225003016 putative active site [active] 319225003017 catalytic site [active] 319225003018 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 319225003019 putative domain interface [polypeptide binding]; other site 319225003020 putative active site [active] 319225003021 catalytic site [active] 319225003022 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 319225003023 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; cd02205 319225003024 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 319225003025 non-specific DNA binding site [nucleotide binding]; other site 319225003026 salt bridge; other site 319225003027 sequence-specific DNA binding site [nucleotide binding]; other site 319225003028 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 319225003029 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 319225003030 Catalytic site [active] 319225003031 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 319225003032 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 319225003033 metal binding site [ion binding]; metal-binding site 319225003034 dimer interface [polypeptide binding]; other site 319225003035 hypothetical protein; Provisional; Region: PRK08185 319225003036 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 319225003037 intersubunit interface [polypeptide binding]; other site 319225003038 active site 319225003039 zinc binding site [ion binding]; other site 319225003040 Na+ binding site [ion binding]; other site 319225003041 carboxy-terminal protease; Provisional; Region: PRK11186 319225003042 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 319225003043 protein binding site [polypeptide binding]; other site 319225003044 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 319225003045 Catalytic dyad [active] 319225003046 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 319225003047 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 319225003048 RNA/DNA binding site [nucleotide binding]; other site 319225003049 RRM dimerization site [polypeptide binding]; other site 319225003050 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 319225003051 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319225003052 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319225003053 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 319225003054 dimer interface [polypeptide binding]; other site 319225003055 phosphorylation site [posttranslational modification] 319225003056 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 319225003057 ATP binding site [chemical binding]; other site 319225003058 Mg2+ binding site [ion binding]; other site 319225003059 G-X-G motif; other site 319225003060 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225003061 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 319225003062 active site 319225003063 phosphorylation site [posttranslational modification] 319225003064 intermolecular recognition site; other site 319225003065 dimerization interface [polypeptide binding]; other site 319225003066 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 319225003067 DNA binding site [nucleotide binding] 319225003068 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cl00039 319225003069 dimerization interface [polypeptide binding]; other site 319225003070 mannose binding site [chemical binding]; other site 319225003071 Plant protein of unknown function (DUF946); Region: DUF946; pfam06101 319225003072 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 319225003073 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 319225003074 binding surface 319225003075 TPR motif; other site 319225003076 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 319225003077 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 319225003078 Plant protein of unknown function (DUF946); Region: DUF946; pfam06101 319225003079 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 319225003080 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; cl12031 319225003081 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; cl15306 319225003082 NMT1/THI5 like; Region: NMT1; pfam09084 319225003083 Cache domain; Region: Cache_1; pfam02743 319225003084 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 319225003085 dimerization interface [polypeptide binding]; other site 319225003086 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 319225003087 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; cl00120 319225003088 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 319225003089 membrane-bound complex binding site; other site 319225003090 hinge residues; other site 319225003091 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 319225003092 substrate binding pocket [chemical binding]; other site 319225003093 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 319225003094 membrane-bound complex binding site; other site 319225003095 hinge residues; other site 319225003096 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 319225003097 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003098 substrate binding pocket [chemical binding]; other site 319225003099 membrane-bound complex binding site; other site 319225003100 hinge residues; other site 319225003101 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 319225003102 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003103 substrate binding pocket [chemical binding]; other site 319225003104 membrane-bound complex binding site; other site 319225003105 hinge residues; other site 319225003106 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 319225003107 substrate binding pocket [chemical binding]; other site 319225003108 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 319225003109 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 319225003110 dimer interface [polypeptide binding]; other site 319225003111 conserved gate region; other site 319225003112 putative PBP binding loops; other site 319225003113 ABC-ATPase subunit interface; other site 319225003114 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 319225003115 membrane-bound complex binding site; other site 319225003116 hinge residues; other site 319225003117 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 319225003118 substrate binding pocket [chemical binding]; other site 319225003119 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 319225003120 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 319225003121 dimer interface [polypeptide binding]; other site 319225003122 conserved gate region; other site 319225003123 putative PBP binding loops; other site 319225003124 ABC-ATPase subunit interface; other site 319225003125 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 319225003126 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 319225003127 Walker A/P-loop; other site 319225003128 ATP binding site [chemical binding]; other site 319225003129 Q-loop/lid; other site 319225003130 ABC transporter signature motif; other site 319225003131 Walker B; other site 319225003132 D-loop; other site 319225003133 H-loop/switch region; other site 319225003134 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 319225003135 anti sigma factor interaction site; other site 319225003136 regulatory phosphorylation site [posttranslational modification]; other site 319225003137 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 319225003138 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 319225003139 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 319225003140 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 319225003141 non-specific DNA binding site [nucleotide binding]; other site 319225003142 salt bridge; other site 319225003143 sequence-specific DNA binding site [nucleotide binding]; other site 319225003144 argininosuccinate lyase; Provisional; Region: PRK00855 319225003145 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 319225003146 active sites [active] 319225003147 tetramer interface [polypeptide binding]; other site 319225003148 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 319225003149 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 319225003150 ANP binding site [chemical binding]; other site 319225003151 Substrate Binding Site II [chemical binding]; other site 319225003152 Substrate Binding Site I [chemical binding]; other site 319225003153 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 319225003154 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 319225003155 ornithine carbamoyltransferase; Provisional; Region: PRK00779 319225003156 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 319225003157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003158 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 319225003159 feedback inhibition sensing region; other site 319225003160 homohexameric interface [polypeptide binding]; other site 319225003161 nucleotide binding site [chemical binding]; other site 319225003162 N-acetyl-L-glutamate binding site [chemical binding]; other site 319225003163 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 319225003164 heterotetramer interface [polypeptide binding]; other site 319225003165 active site pocket [active] 319225003166 cleavage site 319225003167 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 319225003168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003169 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 319225003170 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 319225003171 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319225003172 metal binding site [ion binding]; metal-binding site 319225003173 active site 319225003174 I-site; other site 319225003175 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225003176 FtsX-like permease family; Region: FtsX; cl15850 319225003177 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225003178 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003179 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319225003180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319225003181 Coenzyme A binding pocket [chemical binding]; other site 319225003182 Predicted membrane protein [Function unknown]; Region: COG2119 319225003183 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 319225003184 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 319225003185 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 319225003186 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 319225003187 Walker A/P-loop; other site 319225003188 ATP binding site [chemical binding]; other site 319225003189 Q-loop/lid; other site 319225003190 ABC transporter signature motif; other site 319225003191 Walker B; other site 319225003192 D-loop; other site 319225003193 H-loop/switch region; other site 319225003194 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 319225003195 Peptidase family M48; Region: Peptidase_M48; cl12018 319225003196 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 319225003197 ATP-grasp domain; Region: ATP-grasp_4; cl03087 319225003198 ATP citrate (pro-S)-lyase; Region: PLN02235 319225003199 ATP citrate (pro-S)-lyase; Region: PLN02522 319225003200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003201 CoA-ligase; Region: Ligase_CoA; cl02894 319225003202 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 319225003203 active site 319225003204 oxalacetate binding site [chemical binding]; other site 319225003205 citrylCoA binding site [chemical binding]; other site 319225003206 coenzyme A binding site [chemical binding]; other site 319225003207 catalytic triad [active] 319225003208 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 319225003209 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 319225003210 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 319225003211 alpha subunit interaction interface [polypeptide binding]; other site 319225003212 Walker A motif; other site 319225003213 ATP binding site [chemical binding]; other site 319225003214 Walker B motif; other site 319225003215 inhibitor binding site; inhibition site 319225003216 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319225003217 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 319225003218 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 319225003219 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 319225003220 N-ATPase, AtpR subunit; Region: AtpR; cl11871 319225003221 ATP synthase A chain; Region: ATP-synt_A; cl00413 319225003222 ATP synthase subunit C; Region: ATP-synt_C; cl00466 319225003223 Plant ATP synthase F0; Region: YMF19; cl07975 319225003224 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 319225003225 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 319225003226 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 319225003227 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 319225003228 beta subunit interaction interface [polypeptide binding]; other site 319225003229 Walker A motif; other site 319225003230 ATP binding site [chemical binding]; other site 319225003231 Walker B motif; other site 319225003232 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319225003233 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 319225003234 ATP synthase; Region: ATP-synt; cl00365 319225003235 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 319225003236 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 319225003237 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 319225003238 dimer interface [polypeptide binding]; other site 319225003239 PYR/PP interface [polypeptide binding]; other site 319225003240 TPP binding site [chemical binding]; other site 319225003241 substrate binding site [chemical binding]; other site 319225003242 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 319225003243 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 319225003244 TPP-binding site [chemical binding]; other site 319225003245 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 319225003246 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 319225003247 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 319225003248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003249 NAD(P) binding site [chemical binding]; other site 319225003250 active site 319225003251 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 319225003252 ABC-2 type transporter; Region: ABC2_membrane; cl11417 319225003253 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 319225003254 ABC-2 type transporter; Region: ABC2_membrane; cl11417 319225003255 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 319225003256 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003257 Walker A/P-loop; other site 319225003258 ATP binding site [chemical binding]; other site 319225003259 Q-loop/lid; other site 319225003260 ABC transporter signature motif; other site 319225003261 Walker B; other site 319225003262 D-loop; other site 319225003263 H-loop/switch region; other site 319225003264 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 319225003265 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 319225003266 Walker A/P-loop; other site 319225003267 ATP binding site [chemical binding]; other site 319225003268 Q-loop/lid; other site 319225003269 ABC transporter signature motif; other site 319225003270 Walker B; other site 319225003271 D-loop; other site 319225003272 H-loop/switch region; other site 319225003273 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 319225003274 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225003275 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319225003276 Helix-turn-helix domains; Region: HTH; cl00088 319225003277 lipoyl synthase; Provisional; Region: PRK05481 319225003278 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 319225003279 FeS/SAM binding site; other site 319225003280 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 319225003281 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319225003282 NAD(P) binding site [chemical binding]; other site 319225003283 putative active site [active] 319225003284 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 319225003285 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 319225003286 minor groove reading motif; other site 319225003287 helix-hairpin-helix signature motif; other site 319225003288 substrate binding pocket [chemical binding]; other site 319225003289 active site 319225003290 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 319225003291 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 319225003292 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 319225003293 nucleotide binding region [chemical binding]; other site 319225003294 ATP-binding site [chemical binding]; other site 319225003295 SEC-C motif; Region: SEC-C; pfam02810 319225003296 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 319225003297 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 319225003298 dimerization interface [polypeptide binding]; other site 319225003299 ATP binding site [chemical binding]; other site 319225003300 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 319225003301 dimerization interface [polypeptide binding]; other site 319225003302 ATP binding site [chemical binding]; other site 319225003303 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 319225003304 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 319225003305 putative substrate binding site [chemical binding]; other site 319225003306 putative ATP binding site [chemical binding]; other site 319225003307 PAS domain S-box; Region: sensory_box; TIGR00229 319225003308 PAS domain S-box; Region: sensory_box; TIGR00229 319225003309 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 319225003310 GAF domain; Region: GAF_2; pfam13185 319225003311 GAF domain; Region: GAF; cl15785 319225003312 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 319225003313 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 319225003314 dimer interface [polypeptide binding]; other site 319225003315 phosphorylation site [posttranslational modification] 319225003316 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 319225003317 ATP binding site [chemical binding]; other site 319225003318 Mg2+ binding site [ion binding]; other site 319225003319 G-X-G motif; other site 319225003320 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 319225003321 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 319225003322 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 319225003323 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319225003324 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 319225003325 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 319225003326 ATP binding site [chemical binding]; other site 319225003327 Mg2+ binding site [ion binding]; other site 319225003328 G-X-G motif; other site 319225003329 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225003330 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 319225003331 active site 319225003332 phosphorylation site [posttranslational modification] 319225003333 intermolecular recognition site; other site 319225003334 dimerization interface [polypeptide binding]; other site 319225003335 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 319225003336 DNA binding site [nucleotide binding] 319225003337 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 319225003338 DNA binding site [nucleotide binding] 319225003339 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 319225003340 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 319225003341 aminotransferase; Validated; Region: PRK08175 319225003342 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 319225003343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225003344 homodimer interface [polypeptide binding]; other site 319225003345 catalytic residue [active] 319225003346 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 319225003347 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 319225003348 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 319225003349 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 319225003350 Cysteine-rich domain; Region: CCG; pfam02754 319225003351 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 319225003352 Cysteine-rich domain; Region: CCG; pfam02754 319225003353 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 319225003354 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 319225003355 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 319225003356 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 319225003357 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 319225003358 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 319225003359 FAD binding pocket [chemical binding]; other site 319225003360 FAD binding motif [chemical binding]; other site 319225003361 phosphate binding motif [ion binding]; other site 319225003362 beta-alpha-beta structure motif; other site 319225003363 NAD binding pocket [chemical binding]; other site 319225003364 Iron coordination center [ion binding]; other site 319225003365 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 319225003366 FAD binding domain; Region: FAD_binding_4; pfam01565 319225003367 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 319225003368 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 319225003369 putative heme binding site [chemical binding]; other site 319225003370 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 319225003371 dimer interface [polypeptide binding]; other site 319225003372 FMN binding site [chemical binding]; other site 319225003373 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 319225003374 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 319225003375 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 319225003376 Dicarboxylate transport; Region: DctA-YdbH; cl14674 319225003377 Dicarboxylate transport; Region: DctA-YdbH; cl14674 319225003378 Dicarboxylate transport; Region: DctA-YdbH; cl14674 319225003379 flavoprotein, HI0933 family; Region: TIGR00275 319225003380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003381 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225003382 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225003383 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225003384 FtsX-like permease family; Region: FtsX; cl15850 319225003385 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319225003386 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 319225003387 Walker A/P-loop; other site 319225003388 ATP binding site [chemical binding]; other site 319225003389 Q-loop/lid; other site 319225003390 ABC transporter signature motif; other site 319225003391 Walker B; other site 319225003392 D-loop; other site 319225003393 H-loop/switch region; other site 319225003394 SET domain; Region: SET; cl02566 319225003395 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 319225003396 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225003397 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 319225003398 gating phenylalanine in ion channel; other site 319225003399 OsmC-like protein; Region: OsmC; cl00767 319225003400 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 319225003401 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 319225003402 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 319225003403 putative dimer interface [polypeptide binding]; other site 319225003404 active site pocket [active] 319225003405 putative cataytic base [active] 319225003406 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 319225003407 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 319225003408 homotrimer interface [polypeptide binding]; other site 319225003409 Walker A motif; other site 319225003410 GTP binding site [chemical binding]; other site 319225003411 Walker B motif; other site 319225003412 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 319225003413 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 319225003414 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 319225003415 Walker A/P-loop; other site 319225003416 ATP binding site [chemical binding]; other site 319225003417 Q-loop/lid; other site 319225003418 ABC transporter signature motif; other site 319225003419 Walker B; other site 319225003420 D-loop; other site 319225003421 H-loop/switch region; other site 319225003422 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 319225003423 ABC-ATPase subunit interface; other site 319225003424 dimer interface [polypeptide binding]; other site 319225003425 putative PBP binding regions; other site 319225003426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003427 Walker A motif; other site 319225003428 ATP binding site [chemical binding]; other site 319225003429 Walker B motif; other site 319225003430 CobD/Cbib protein; Region: CobD_Cbib; cl00561 319225003431 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 319225003432 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 319225003433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225003434 homodimer interface [polypeptide binding]; other site 319225003435 catalytic residue [active] 319225003436 cobyric acid synthase; Provisional; Region: PRK00784 319225003437 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003439 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 319225003440 catalytic triad [active] 319225003441 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 319225003442 putative FMN binding site [chemical binding]; other site 319225003443 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 319225003444 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 319225003445 N-terminal plug; other site 319225003446 ligand-binding site [chemical binding]; other site 319225003447 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 319225003448 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 319225003449 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 319225003450 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 319225003451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003452 NAD(P) binding site [chemical binding]; other site 319225003453 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 319225003454 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 319225003455 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 319225003456 PhoU domain; Region: PhoU; pfam01895 319225003457 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 319225003458 putative hydrophobic ligand binding site [chemical binding]; other site 319225003459 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 319225003460 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 319225003461 cobalamin binding residues [chemical binding]; other site 319225003462 putative BtuC binding residues; other site 319225003463 dimer interface [polypeptide binding]; other site 319225003464 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 319225003465 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; cl11420 319225003466 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 319225003467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003468 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 319225003469 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 319225003470 active site 319225003471 NTP binding site [chemical binding]; other site 319225003472 metal binding triad [ion binding]; metal-binding site 319225003473 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 319225003474 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 319225003475 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 319225003476 adenylosuccinate lyase; Provisional; Region: PRK07492 319225003477 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 319225003478 tetramer interface [polypeptide binding]; other site 319225003479 active site 319225003480 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 319225003481 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 319225003482 ferredoxin; Validated; Region: PRK07118 319225003483 Putative Fe-S cluster; Region: FeS; pfam04060 319225003484 4Fe-4S binding domain; Region: Fer4; cl02805 319225003485 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 319225003486 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 319225003487 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 319225003488 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 319225003489 SLBB domain; Region: SLBB; pfam10531 319225003490 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 319225003491 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 319225003492 FMN-binding domain; Region: FMN_bind; cl01081 319225003493 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 319225003494 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 319225003495 ApbE family; Region: ApbE; cl00643 319225003496 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 319225003497 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 319225003498 active site 319225003499 dimer interface [polypeptide binding]; other site 319225003500 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 319225003501 dimer interface [polypeptide binding]; other site 319225003502 active site 319225003503 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 319225003504 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 319225003505 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 319225003506 Nitrogen regulatory protein P-II; Region: P-II; cl00412 319225003507 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319225003508 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 319225003509 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 319225003510 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 319225003511 NeuB family; Region: NeuB; cl00496 319225003512 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 319225003513 putative diguanylate cyclase; Provisional; Region: PRK09776 319225003514 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 319225003515 PAS domain S-box; Region: sensory_box; TIGR00229 319225003516 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 319225003517 GAF domain; Region: GAF_2; pfam13185 319225003518 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 319225003519 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 319225003520 dimer interface [polypeptide binding]; other site 319225003521 phosphorylation site [posttranslational modification] 319225003522 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 319225003523 ATP binding site [chemical binding]; other site 319225003524 Mg2+ binding site [ion binding]; other site 319225003525 G-X-G motif; other site 319225003526 Response regulator receiver domain; Region: Response_reg; pfam00072 319225003527 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 319225003528 active site 319225003529 phosphorylation site [posttranslational modification] 319225003530 intermolecular recognition site; other site 319225003531 dimerization interface [polypeptide binding]; other site 319225003532 Integrase core domain; Region: rve_3; cl15866 319225003533 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225003534 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 319225003535 P loop; other site 319225003536 Nucleotide binding site [chemical binding]; other site 319225003537 DTAP/Switch II; other site 319225003538 Switch I; other site 319225003539 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 catalyze...; Region: LT_GEWL; cd00254 319225003540 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319225003541 catalytic residue [active] 319225003542 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 319225003543 putative peptidoglycan binding site; other site 319225003544 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 319225003545 putative peptidoglycan binding site; other site 319225003546 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 319225003547 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 319225003548 dimerization interface 3.5A [polypeptide binding]; other site 319225003549 active site 319225003550 Alpha amylase catalytic domain found in maltosyltransferase; Region: AmyAc_MTase_N; cd11335 319225003551 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 319225003552 homodimer interface [polypeptide binding]; other site 319225003553 active site 319225003554 catalytic site [active] 319225003555 maltose binding site 2 [chemical binding]; other site 319225003556 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 319225003557 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 319225003558 substrate binding site [chemical binding]; other site 319225003559 ATP binding site [chemical binding]; other site 319225003560 Sodium:solute symporter family; Region: SSF; cl00456 319225003561 Maf-like protein; Region: Maf; pfam02545 319225003562 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 319225003563 active site 319225003564 dimer interface [polypeptide binding]; other site 319225003565 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 319225003566 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003567 Protein of unknown function, DUF481; Region: DUF481; cl01213 319225003568 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 319225003569 anti sigma factor interaction site; other site 319225003570 regulatory phosphorylation site [posttranslational modification]; other site 319225003571 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 319225003572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003573 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 319225003574 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 319225003575 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 319225003576 active site 319225003577 HIGH motif; other site 319225003578 KMSKS motif; other site 319225003579 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 319225003580 tRNA binding surface [nucleotide binding]; other site 319225003581 anticodon binding site; other site 319225003582 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 319225003583 dimer interface [polypeptide binding]; other site 319225003584 putative tRNA-binding site [nucleotide binding]; other site 319225003585 PSP1 C-terminal conserved region; Region: PSP1; cl00770 319225003586 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 319225003587 putative acyl-acceptor binding pocket; other site 319225003588 aspartate aminotransferase; Provisional; Region: PRK05764 319225003589 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 319225003590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225003591 homodimer interface [polypeptide binding]; other site 319225003592 catalytic residue [active] 319225003593 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 319225003594 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 319225003595 active site 319225003596 (T/H)XGH motif; other site 319225003597 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 319225003598 S-adenosylmethionine binding site [chemical binding]; other site 319225003599 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 319225003600 TPP-binding site [chemical binding]; other site 319225003601 dimer interface [polypeptide binding]; other site 319225003602 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 319225003603 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 319225003604 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 319225003605 ATP binding site [chemical binding]; other site 319225003606 active site 319225003607 substrate binding site [chemical binding]; other site 319225003608 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 319225003609 putative catalytic site [active] 319225003610 putative metal binding site [ion binding]; other site 319225003611 putative phosphate binding site [ion binding]; other site 319225003612 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 319225003613 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 319225003614 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 319225003615 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 319225003616 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 319225003617 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 319225003618 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 319225003619 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 319225003620 active site 319225003621 DNA binding site [nucleotide binding] 319225003622 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 319225003623 Predicted transcriptional regulator [Transcription]; Region: COG2932 319225003624 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 319225003625 Catalytic site [active] 319225003626 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 319225003627 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 319225003628 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 319225003629 putative active site [active] 319225003630 catalytic residue [active] 319225003631 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; cl12031 319225003632 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225003633 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 319225003634 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 319225003635 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 319225003636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225003637 homodimer interface [polypeptide binding]; other site 319225003638 catalytic residue [active] 319225003639 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 319225003640 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225003641 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 319225003642 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 319225003643 NADP binding site [chemical binding]; other site 319225003644 homopentamer interface [polypeptide binding]; other site 319225003645 substrate binding site [chemical binding]; other site 319225003646 active site 319225003647 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003648 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 319225003649 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 319225003650 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225003651 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 319225003652 active site 319225003653 phosphorylation site [posttranslational modification] 319225003654 intermolecular recognition site; other site 319225003655 dimerization interface [polypeptide binding]; other site 319225003656 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 319225003657 DNA binding site [nucleotide binding] 319225003658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319225003659 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 319225003660 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 319225003661 dimer interface [polypeptide binding]; other site 319225003662 phosphorylation site [posttranslational modification] 319225003663 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 319225003664 ATP binding site [chemical binding]; other site 319225003665 Mg2+ binding site [ion binding]; other site 319225003666 G-X-G motif; other site 319225003667 Helix-turn-helix domains; Region: HTH; cl00088 319225003668 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 319225003669 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 319225003670 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 319225003671 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 319225003672 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 319225003673 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 319225003674 substrate binding pocket [chemical binding]; other site 319225003675 chain length determination region; other site 319225003676 substrate-Mg2+ binding site; other site 319225003677 catalytic residues [active] 319225003678 aspartate-rich region 1; other site 319225003679 active site lid residues [active] 319225003680 aspartate-rich region 2; other site 319225003681 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 319225003682 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; cl12031 319225003683 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 319225003684 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 319225003685 CoA-binding site [chemical binding]; other site 319225003686 ATP-binding [chemical binding]; other site 319225003687 Chorismate mutase type II; Region: CM_2; cl00693 319225003688 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 319225003689 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 319225003690 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 319225003691 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 319225003692 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 319225003693 PUA domain; Region: PUA; cl00607 319225003694 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; cl15754 319225003695 Uncharacterized conserved protein [Function unknown]; Region: COG4748 319225003696 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 319225003697 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 319225003698 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 319225003699 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 319225003700 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 319225003701 catalytic residues [active] 319225003702 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 319225003703 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 319225003704 metal-binding site [ion binding] 319225003705 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319225003706 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 319225003707 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 319225003708 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 319225003709 motif II; other site 319225003710 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 319225003711 PAS domain; Region: PAS_9; pfam13426 319225003712 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 319225003713 dimer interface [polypeptide binding]; other site 319225003714 phosphorylation site [posttranslational modification] 319225003715 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 319225003716 ATP binding site [chemical binding]; other site 319225003717 Mg2+ binding site [ion binding]; other site 319225003718 G-X-G motif; other site 319225003719 Response regulator receiver domain; Region: Response_reg; pfam00072 319225003720 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 319225003721 active site 319225003722 phosphorylation site [posttranslational modification] 319225003723 intermolecular recognition site; other site 319225003724 dimerization interface [polypeptide binding]; other site 319225003725 Predicted transcriptional regulator [Transcription]; Region: COG2378 319225003726 WYL domain; Region: WYL; cl14852 319225003727 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 319225003728 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 319225003729 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319225003730 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 319225003731 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 319225003732 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 319225003733 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 319225003734 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 319225003735 FAD binding domain; Region: FAD_binding_4; pfam01565 319225003736 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 319225003737 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 319225003738 Cysteine-rich domain; Region: CCG; pfam02754 319225003739 Cysteine-rich domain; Region: CCG; pfam02754 319225003740 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 319225003741 active site 319225003742 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 319225003743 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003744 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003745 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003746 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003747 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003748 DoxX-like family; Region: DoxX_3; pfam13781 319225003749 PhoU domain; Region: PhoU; pfam01895 319225003750 PhoU domain; Region: PhoU; pfam01895 319225003751 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 319225003752 PhoU domain; Region: PhoU; pfam01895 319225003753 PhoU domain; Region: PhoU; pfam01895 319225003754 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14275 319225003755 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 319225003756 Walker A/P-loop; other site 319225003757 ATP binding site [chemical binding]; other site 319225003758 Q-loop/lid; other site 319225003759 ABC transporter signature motif; other site 319225003760 Walker B; other site 319225003761 D-loop; other site 319225003762 H-loop/switch region; other site 319225003763 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 319225003764 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 319225003765 dimer interface [polypeptide binding]; other site 319225003766 conserved gate region; other site 319225003767 putative PBP binding loops; other site 319225003768 ABC-ATPase subunit interface; other site 319225003769 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 319225003770 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 319225003771 dimer interface [polypeptide binding]; other site 319225003772 conserved gate region; other site 319225003773 putative PBP binding loops; other site 319225003774 ABC-ATPase subunit interface; other site 319225003775 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 319225003776 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 319225003777 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 319225003778 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 319225003779 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 319225003780 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 319225003781 putative acyl-acceptor binding pocket; other site 319225003782 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 319225003783 S-adenosylmethionine binding site [chemical binding]; other site 319225003784 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 319225003785 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 319225003786 motif II; other site 319225003787 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 319225003788 putative active site [active] 319225003789 putative metal binding site [ion binding]; other site 319225003790 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 319225003791 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 319225003792 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 319225003793 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 319225003794 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319225003795 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 319225003796 active site 319225003797 phosphorylation site [posttranslational modification] 319225003798 intermolecular recognition site; other site 319225003799 dimerization interface [polypeptide binding]; other site 319225003800 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 319225003801 Walker A motif; other site 319225003802 ATP binding site [chemical binding]; other site 319225003803 Walker B motif; other site 319225003804 arginine finger; other site 319225003805 Helix-turn-helix domains; Region: HTH; cl00088 319225003806 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_23; cd04682 319225003807 nudix motif; other site 319225003808 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 319225003809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003810 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225003811 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 319225003812 catalytic residues [active] 319225003813 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 319225003814 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 319225003815 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 319225003816 generic binding surface II; other site 319225003817 generic binding surface I; other site 319225003818 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 319225003819 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225003820 putative ADP-binding pocket [chemical binding]; other site 319225003821 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 319225003822 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 319225003823 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 319225003824 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 319225003825 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 319225003826 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 319225003827 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 319225003828 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 319225003829 active site 319225003830 catalytic residues [active] 319225003831 metal binding site [ion binding]; metal-binding site 319225003832 homodimer binding site [polypeptide binding]; other site 319225003833 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 319225003834 carboxyltransferase (CT) interaction site; other site 319225003835 biotinylation site [posttranslational modification]; other site 319225003836 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 319225003837 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 319225003838 Fumarase C-terminus; Region: Fumerase_C; cl00795 319225003839 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 319225003840 Ligand Binding Site [chemical binding]; other site 319225003841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 319225003842 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003843 AAA domain; Region: AAA_33; pfam13671 319225003844 active site 319225003845 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 319225003846 diiron binding motif [ion binding]; other site 319225003847 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 319225003848 heat shock protein 90; Provisional; Region: PRK05218 319225003849 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 319225003850 NeuB family; Region: NeuB; cl00496 319225003851 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 319225003852 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 319225003853 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 319225003854 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 319225003855 dimer interface [polypeptide binding]; other site 319225003856 substrate binding site [chemical binding]; other site 319225003857 metal binding sites [ion binding]; metal-binding site 319225003858 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 319225003859 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319225003860 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 319225003861 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 319225003862 G1 box; other site 319225003863 putative GEF interaction site [polypeptide binding]; other site 319225003864 GTP/Mg2+ binding site [chemical binding]; other site 319225003865 Switch I region; other site 319225003866 G2 box; other site 319225003867 G3 box; other site 319225003868 Switch II region; other site 319225003869 G4 box; other site 319225003870 G5 box; other site 319225003871 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 319225003872 phytoene desaturase; Region: phytoene_desat; TIGR02731 319225003873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003874 recombination protein RecR; Reviewed; Region: recR; PRK00076 319225003875 RecR protein; Region: RecR; pfam02132 319225003876 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 319225003877 putative active site [active] 319225003878 putative metal-binding site [ion binding]; other site 319225003879 tetramer interface [polypeptide binding]; other site 319225003880 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 319225003881 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 319225003882 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 319225003883 PYR/PP interface [polypeptide binding]; other site 319225003884 dimer interface [polypeptide binding]; other site 319225003885 TPP binding site [chemical binding]; other site 319225003886 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 319225003887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003888 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 319225003889 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 319225003890 AMP-binding enzyme; Region: AMP-binding; cl15778 319225003891 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 319225003892 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319225003893 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 319225003894 dimer interface [polypeptide binding]; other site 319225003895 substrate binding site [chemical binding]; other site 319225003896 metal binding site [ion binding]; metal-binding site 319225003897 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 319225003898 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 319225003899 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 319225003900 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 319225003901 heterodimer interface [polypeptide binding]; other site 319225003902 substrate interaction site [chemical binding]; other site 319225003903 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 319225003904 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 319225003905 active site 319225003906 substrate binding site [chemical binding]; other site 319225003907 coenzyme B12 binding site [chemical binding]; other site 319225003908 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 319225003909 B12 binding site [chemical binding]; other site 319225003910 cobalt ligand [ion binding]; other site 319225003911 membrane ATPase/protein kinase; Provisional; Region: PRK09435 319225003912 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 319225003913 Walker A; other site 319225003914 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003915 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 319225003916 Ligand Binding Site [chemical binding]; other site 319225003917 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 319225003918 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225003919 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 319225003920 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 319225003921 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 319225003922 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 319225003923 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 319225003924 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 319225003925 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 319225003926 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 319225003927 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 319225003928 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 319225003929 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 319225003930 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 319225003931 active site 319225003932 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 319225003933 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 319225003934 Spore germination protein; Region: Spore_permease; cl15802 319225003935 amino acid transporter; Region: 2A0306; TIGR00909 319225003936 Spore germination protein; Region: Spore_permease; cl15802 319225003937 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 319225003938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003939 NAD(P) binding site [chemical binding]; other site 319225003940 active site 319225003941 thymidylate kinase; Validated; Region: tmk; PRK00698 319225003942 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 319225003943 TMP-binding site; other site 319225003944 ATP-binding site [chemical binding]; other site 319225003945 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 319225003946 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 319225003947 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 319225003948 motif II; other site 319225003949 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 319225003950 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 319225003951 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 319225003952 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 319225003953 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 319225003954 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 319225003955 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 319225003956 substrate binding site; other site 319225003957 dimer interface; other site 319225003958 HipA N-terminal domain; Region: Couple_hipA; cl11853 319225003959 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 319225003960 HipA-like N-terminal domain; Region: HipA_N; pfam07805 319225003961 HipA-like C-terminal domain; Region: HipA_C; pfam07804 319225003962 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225003963 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 319225003964 CoenzymeA binding site [chemical binding]; other site 319225003965 subunit interaction site [polypeptide binding]; other site 319225003966 PHB binding site; other site 319225003967 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 319225003968 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 319225003969 B12 binding site [chemical binding]; other site 319225003970 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 319225003971 FeS/SAM binding site; other site 319225003972 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 319225003973 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 319225003974 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 319225003975 dimer interface [polypeptide binding]; other site 319225003976 anticodon binding site; other site 319225003977 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 the...; Region: AspRS_core; cd00777 319225003978 homodimer interface [polypeptide binding]; other site 319225003979 motif 1; other site 319225003980 active site 319225003981 motif 2; other site 319225003982 GAD domain; Region: GAD; pfam02938 319225003983 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 attaches...; Region: class_II_aaRS-like_core; cl00268 319225003984 active site 319225003985 motif 3; other site 319225003986 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14955 319225003987 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 319225003988 Walker A motif; other site 319225003989 ATP binding site [chemical binding]; other site 319225003990 Walker B motif; other site 319225003991 arginine finger; other site 319225003992 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 319225003993 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 319225003994 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 319225003995 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 319225003996 putative active site [active] 319225003997 catalytic triad [active] 319225003998 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 319225003999 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 319225004000 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 319225004001 oligomerization interface [polypeptide binding]; other site 319225004002 active site 319225004003 metal binding site [ion binding]; metal-binding site 319225004004 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 319225004005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225004006 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 319225004007 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 319225004008 ATP-grasp domain; Region: ATP-grasp_4; cl03087 319225004009 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225004010 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225004011 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225004012 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225004013 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319225004014 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 319225004015 Walker A/P-loop; other site 319225004016 ATP binding site [chemical binding]; other site 319225004017 Q-loop/lid; other site 319225004018 ABC transporter signature motif; other site 319225004019 Walker B; other site 319225004020 D-loop; other site 319225004021 H-loop/switch region; other site 319225004022 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225004023 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 319225004024 FtsX-like permease family; Region: FtsX; cl15850 319225004025 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225004026 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 319225004027 FtsX-like permease family; Region: FtsX; cl15850 319225004028 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319225004029 ligand binding site [chemical binding]; other site 319225004030 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 319225004031 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 319225004032 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 319225004033 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 319225004034 trimer interface [polypeptide binding]; other site 319225004035 active site 319225004036 UDP-GlcNAc binding site [chemical binding]; other site 319225004037 lipid binding site [chemical binding]; lipid-binding site 319225004038 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 319225004039 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 319225004040 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225004041 active site 319225004042 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 319225004043 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 319225004044 5S rRNA interface [nucleotide binding]; other site 319225004045 CTC domain interface [polypeptide binding]; other site 319225004046 L16 interface [polypeptide binding]; other site 319225004047 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 319225004048 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 319225004049 putative PBP binding loops; other site 319225004050 dimer interface [polypeptide binding]; other site 319225004051 ABC-ATPase subunit interface; other site 319225004052 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 319225004053 dimer interface [polypeptide binding]; other site 319225004054 ADP-ribose binding site [chemical binding]; other site 319225004055 active site 319225004056 nudix motif; other site 319225004057 metal binding site [ion binding]; metal-binding site 319225004058 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 319225004059 Competence protein; Region: Competence; cl00471 319225004060 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 319225004061 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 319225004062 FAD binding site [chemical binding]; other site 319225004063 diaminopimelate decarboxylase; Region: lysA; TIGR01048 319225004064 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 319225004065 active site 319225004066 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319225004067 substrate binding site [chemical binding]; other site 319225004068 catalytic residues [active] 319225004069 dimer interface [polypeptide binding]; other site 319225004070 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 319225004071 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 319225004072 Putative zinc ribbon domain; Region: DUF164; pfam02591 319225004073 PAS domain S-box; Region: sensory_box; TIGR00229 319225004074 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 319225004075 putative active site [active] 319225004076 heme pocket [chemical binding]; other site 319225004077 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 319225004078 PAS domain; Region: PAS_9; pfam13426 319225004079 putative active site [active] 319225004080 heme pocket [chemical binding]; other site 319225004081 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 319225004082 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 319225004083 putative active site [active] 319225004084 heme pocket [chemical binding]; other site 319225004085 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 319225004086 dimer interface [polypeptide binding]; other site 319225004087 phosphorylation site [posttranslational modification] 319225004088 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 319225004089 ATP binding site [chemical binding]; other site 319225004090 Mg2+ binding site [ion binding]; other site 319225004091 G-X-G motif; other site 319225004092 Response regulator receiver domain; Region: Response_reg; pfam00072 319225004093 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 319225004094 active site 319225004095 phosphorylation site [posttranslational modification] 319225004096 intermolecular recognition site; other site 319225004097 dimerization interface [polypeptide binding]; other site 319225004098 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 319225004099 hypothetical protein; Provisional; Region: PRK08912 319225004100 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 319225004101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004102 homodimer interface [polypeptide binding]; other site 319225004103 catalytic residue [active] 319225004104 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 319225004105 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 319225004106 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 319225004107 HflX GTPase family; Region: HflX; cd01878 319225004108 G1 box; other site 319225004109 GTP/Mg2+ binding site [chemical binding]; other site 319225004110 Switch I region; other site 319225004111 G2 box; other site 319225004112 G3 box; other site 319225004113 Switch II region; other site 319225004114 G4 box; other site 319225004115 G5 box; other site 319225004116 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 319225004117 active site lid residues [active] 319225004118 substrate binding pocket [chemical binding]; other site 319225004119 catalytic residues [active] 319225004120 substrate-Mg2+ binding site; other site 319225004121 aspartate-rich region 1; other site 319225004122 aspartate-rich region 2; other site 319225004123 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 319225004124 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 319225004125 dimer interface [polypeptide binding]; other site 319225004126 putative anticodon binding site; other site 319225004127 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 319225004128 motif 1; other site 319225004129 active site 319225004130 motif 2; other site 319225004131 motif 3; other site 319225004132 putative diguanylate cyclase; Provisional; Region: PRK09776 319225004133 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 319225004134 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 319225004135 GAF domain; Region: GAF_2; pfam13185 319225004136 GAF domain; Region: GAF; cl15785 319225004137 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 319225004138 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 319225004139 putative active site [active] 319225004140 heme pocket [chemical binding]; other site 319225004141 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 319225004142 dimer interface [polypeptide binding]; other site 319225004143 phosphorylation site [posttranslational modification] 319225004144 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 319225004145 ATP binding site [chemical binding]; other site 319225004146 Mg2+ binding site [ion binding]; other site 319225004147 G-X-G motif; other site 319225004148 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 319225004149 PAS domain; Region: PAS_9; pfam13426 319225004150 putative active site [active] 319225004151 heme pocket [chemical binding]; other site 319225004152 Response regulator receiver domain; Region: Response_reg; pfam00072 319225004153 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 319225004154 active site 319225004155 phosphorylation site [posttranslational modification] 319225004156 intermolecular recognition site; other site 319225004157 dimerization interface [polypeptide binding]; other site 319225004158 PAS domain S-box; Region: sensory_box; TIGR00229 319225004159 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 319225004160 putative active site [active] 319225004161 heme pocket [chemical binding]; other site 319225004162 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 319225004163 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; cl00120 319225004164 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 319225004165 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 319225004166 Walker A motif; other site 319225004167 ATP binding site [chemical binding]; other site 319225004168 Walker B motif; other site 319225004169 arginine finger; other site 319225004170 Helix-turn-helix domains; Region: HTH; cl00088 319225004171 Bacterial sugar transferase; Region: Bac_transf; cl00939 319225004172 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 319225004173 anti sigma factor interaction site; other site 319225004174 regulatory phosphorylation site [posttranslational modification]; other site 319225004175 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 319225004176 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 319225004177 anti sigma factor interaction site; other site 319225004178 regulatory phosphorylation site [posttranslational modification]; other site 319225004179 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 319225004180 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 319225004181 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 319225004182 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 319225004183 Probable Catalytic site; other site 319225004184 metal-binding site 319225004185 polysaccharide export protein Wza; Provisional; Region: PRK15078 319225004186 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 319225004187 SLBB domain; Region: SLBB; pfam10531 319225004188 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 319225004189 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 319225004190 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 319225004191 trimer interface [polypeptide binding]; other site 319225004192 active site 319225004193 substrate binding site [chemical binding]; other site 319225004194 CoA binding site [chemical binding]; other site 319225004195 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 319225004196 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225004197 O-Antigen ligase; Region: Wzy_C; cl04850 319225004198 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 319225004199 Radical SAM superfamily; Region: Radical_SAM; pfam04055 319225004200 FeS/SAM binding site; other site 319225004201 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 319225004202 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225004203 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 319225004204 active site 319225004205 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 319225004206 putative ADP-binding pocket [chemical binding]; other site 319225004207 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225004208 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 319225004209 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 319225004210 DXD motif; other site 319225004211 Acyltransferase family; Region: Acyl_transf_3; pfam01757 319225004212 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 319225004213 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225004214 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 319225004215 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 319225004216 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225004217 Walker A/P-loop; other site 319225004218 ATP binding site [chemical binding]; other site 319225004219 Q-loop/lid; other site 319225004220 ABC transporter signature motif; other site 319225004221 Walker B; other site 319225004222 D-loop; other site 319225004223 H-loop/switch region; other site 319225004224 Acyltransferase family; Region: Acyl_transf_3; pfam01757 319225004225 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 319225004226 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 319225004227 PEP-CTERM motif; Region: VPEP; cl15443 319225004228 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 319225004229 TPR motif; other site 319225004230 binding surface 319225004231 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 319225004232 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 319225004233 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 319225004234 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 319225004235 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 319225004236 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 319225004237 dimer interface [polypeptide binding]; other site 319225004238 phosphorylation site [posttranslational modification] 319225004239 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 319225004240 ATP binding site [chemical binding]; other site 319225004241 Mg2+ binding site [ion binding]; other site 319225004242 G-X-G motif; other site 319225004243 GAF domain; Region: GAF_2; pfam13185 319225004244 GAF domain; Region: GAF; cl15785 319225004245 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 319225004246 dimer interface [polypeptide binding]; other site 319225004247 phosphorylation site [posttranslational modification] 319225004248 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 319225004249 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 319225004250 ATP binding site [chemical binding]; other site 319225004251 Mg2+ binding site [ion binding]; other site 319225004252 G-X-G motif; other site 319225004253 CheD chemotactic sensory transduction; Region: CheD; cl00810 319225004254 Response regulator receiver domain; Region: Response_reg; pfam00072 319225004255 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 319225004256 active site 319225004257 phosphorylation site [posttranslational modification] 319225004258 intermolecular recognition site; other site 319225004259 dimerization interface [polypeptide binding]; other site 319225004260 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 319225004261 catalytic residues [active] 319225004262 catalytic nucleophile [active] 319225004263 Presynaptic Site I dimer interface [polypeptide binding]; other site 319225004264 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 319225004265 Synaptic Flat tetramer interface [polypeptide binding]; other site 319225004266 Synaptic Site I dimer interface [polypeptide binding]; other site 319225004267 DNA binding site [nucleotide binding] 319225004268 Divergent AAA domain; Region: AAA_4; pfam04326 319225004269 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 319225004270 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 319225004271 putative NAD(P) binding site [chemical binding]; other site 319225004272 active site 319225004273 putative substrate binding site [chemical binding]; other site 319225004274 Uncharacterized conserved protein [Function unknown]; Region: COG2308 319225004275 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 319225004276 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 319225004277 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 319225004278 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 319225004279 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 319225004280 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 319225004281 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 319225004282 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 319225004283 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 319225004284 FeS/SAM binding site; other site 319225004285 shikimate kinase; Reviewed; Region: aroK; PRK00131 319225004286 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 319225004287 ADP binding site [chemical binding]; other site 319225004288 magnesium binding site [ion binding]; other site 319225004289 putative shikimate binding site; other site 319225004290 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 319225004291 active site 319225004292 dimer interface [polypeptide binding]; other site 319225004293 metal binding site [ion binding]; metal-binding site 319225004294 Type III pantothenate kinase; Region: Pan_kinase; cl09130 319225004295 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 319225004296 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 319225004297 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319225004298 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225004299 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; cl12031 319225004300 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 319225004301 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 319225004302 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 319225004303 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 319225004304 Helix-turn-helix domains; Region: HTH; cl00088 319225004305 phytoene desaturase; Region: phytoene_desat; TIGR02731 319225004306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225004307 chlorosome envelope protein H repeat; Region: rpt_csmH; TIGR03058 319225004308 chlorosome envelope protein H repeat; Region: rpt_csmH; TIGR03058 319225004309 chlorosome envelope protein H repeat; Region: rpt_csmH; TIGR03058 319225004310 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319225004311 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 319225004312 active site 319225004313 phosphorylation site [posttranslational modification] 319225004314 intermolecular recognition site; other site 319225004315 dimerization interface [polypeptide binding]; other site 319225004316 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 319225004317 Walker A motif; other site 319225004318 ATP binding site [chemical binding]; other site 319225004319 Walker B motif; other site 319225004320 Helix-turn-helix domains; Region: HTH; cl00088 319225004321 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 319225004322 trimer interface [polypeptide binding]; other site 319225004323 active site 319225004324 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 319225004325 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 319225004326 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 319225004327 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; cl06353 319225004328 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 319225004329 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 319225004330 putative NAD(P) binding site [chemical binding]; other site 319225004331 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 319225004332 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225004333 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 319225004334 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 319225004335 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 319225004336 putative GEF interaction site [polypeptide binding]; other site 319225004337 G1 box; other site 319225004338 GTP/Mg2+ binding site [chemical binding]; other site 319225004339 Switch I region; other site 319225004340 G2 box; other site 319225004341 G3 box; other site 319225004342 Switch II region; other site 319225004343 G4 box; other site 319225004344 G5 box; other site 319225004345 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 319225004346 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 319225004347 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 319225004348 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 319225004349 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 319225004350 tRNA; other site 319225004351 putative tRNA binding site [nucleotide binding]; other site 319225004352 putative NADP binding site [chemical binding]; other site 319225004353 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 319225004354 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 319225004355 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 319225004356 domain interfaces; other site 319225004357 active site 319225004358 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 319225004359 active site 319225004360 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 319225004361 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 319225004362 active site 319225004363 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 319225004364 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 319225004365 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 319225004366 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 319225004367 pyruvate carboxylase; Reviewed; Region: PRK12999 319225004368 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 319225004369 carboxyltransferase (CT) interaction site; other site 319225004370 biotinylation site [posttranslational modification]; other site 319225004371 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 319225004372 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 319225004373 dimer interface [polypeptide binding]; other site 319225004374 active site 319225004375 aspartate-rich active site metal binding site; other site 319225004376 allosteric magnesium binding site [ion binding]; other site 319225004377 Schiff base residues; other site 319225004378 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 319225004379 Tetramer interface [polypeptide binding]; other site 319225004380 active site 319225004381 FMN-binding site [chemical binding]; other site 319225004382 serine acetyltransferase; Provisional; Region: cysE; PRK11132 319225004383 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 319225004384 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 319225004385 trimer interface [polypeptide binding]; other site 319225004386 active site 319225004387 substrate binding site [chemical binding]; other site 319225004388 CoA binding site [chemical binding]; other site 319225004389 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 319225004390 active site 319225004391 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 319225004392 Cation efflux family; Region: Cation_efflux; cl00316 319225004393 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 319225004394 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 319225004395 Cytochrome c; Region: Cytochrom_C; cl11414 319225004396 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 319225004397 Carbon starvation protein CstA; Region: CstA; pfam02554 319225004398 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 319225004399 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 319225004400 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 319225004401 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 319225004402 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 319225004403 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 319225004404 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 319225004405 putative substrate-binding site; other site 319225004406 nickel binding site [ion binding]; other site 319225004407 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 319225004408 cobalt transport protein CbiM; Provisional; Region: PRK07331 319225004409 Cobalt transport protein; Region: CbiQ; cl00463 319225004410 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 319225004411 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 319225004412 Walker A/P-loop; other site 319225004413 ATP binding site [chemical binding]; other site 319225004414 Q-loop/lid; other site 319225004415 ABC transporter signature motif; other site 319225004416 Walker B; other site 319225004417 D-loop; other site 319225004418 H-loop/switch region; other site 319225004419 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 319225004420 dimerization interface [polypeptide binding]; other site 319225004421 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 319225004422 ATP binding site [chemical binding]; other site 319225004423 Hydrogenase formation hypA family; Region: HypD; cl12072 319225004424 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 319225004425 HupF/HypC family; Region: HupF_HypC; cl00394 319225004426 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 319225004427 HypF finger; Region: zf-HYPF; pfam07503 319225004428 HypF finger; Region: zf-HYPF; pfam07503 319225004429 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 319225004430 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225004431 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 319225004432 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 319225004433 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 319225004434 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 319225004435 FeS/SAM binding site; other site 319225004436 PUCC protein; Region: PUCC; pfam03209 319225004437 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 319225004438 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 319225004439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225004440 Family description; Region: UvrD_C_2; cl15862 319225004441 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 319225004442 ThiC-associated domain; Region: ThiC-associated; pfam13667 319225004443 ThiC family; Region: ThiC; cl08031 319225004444 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 319225004445 substrate binding site [chemical binding]; other site 319225004446 dimer interface [polypeptide binding]; other site 319225004447 catalytic triad [active] 319225004448 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 319225004449 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 319225004450 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 319225004451 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 319225004452 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 319225004453 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 319225004454 protein binding site [polypeptide binding]; other site 319225004455 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 319225004456 protein binding site [polypeptide binding]; other site 319225004457 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 319225004458 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 319225004459 chorismate binding enzyme; Region: Chorismate_bind; cl10555 319225004460 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 319225004461 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 319225004462 Catalytic site [active] 319225004463 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 319225004464 GTP-binding protein LepA; Provisional; Region: PRK05433 319225004465 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 319225004466 G1 box; other site 319225004467 putative GEF interaction site [polypeptide binding]; other site 319225004468 GTP/Mg2+ binding site [chemical binding]; other site 319225004469 Switch I region; other site 319225004470 G2 box; other site 319225004471 G3 box; other site 319225004472 Switch II region; other site 319225004473 G4 box; other site 319225004474 G5 box; other site 319225004475 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 319225004476 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 319225004477 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 319225004478 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 319225004479 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 319225004480 putative active site [active] 319225004481 substrate binding site [chemical binding]; other site 319225004482 putative cosubstrate binding site; other site 319225004483 catalytic site [active] 319225004484 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 319225004485 substrate binding site [chemical binding]; other site 319225004486 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 319225004487 active site 319225004488 catalytic residues [active] 319225004489 metal binding site [ion binding]; metal-binding site 319225004490 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 319225004491 metal binding site 2 [ion binding]; metal-binding site 319225004492 putative DNA binding helix; other site 319225004493 metal binding site 1 [ion binding]; metal-binding site 319225004494 dimer interface [polypeptide binding]; other site 319225004495 structural Zn2+ binding site [ion binding]; other site 319225004496 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 319225004497 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 319225004498 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 319225004499 Ligand Binding Site [chemical binding]; other site 319225004500 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 319225004501 gamma-glutamyl kinase; Provisional; Region: PRK05429 319225004502 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 319225004503 nucleotide binding site [chemical binding]; other site 319225004504 homotetrameric interface [polypeptide binding]; other site 319225004505 putative phosphate binding site [ion binding]; other site 319225004506 putative allosteric binding site; other site 319225004507 PUA domain; Region: PUA; cl00607 319225004508 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 319225004509 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 319225004510 PhnA protein; Region: PhnA; pfam03831 319225004511 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 319225004512 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 319225004513 putative catalytic cysteine [active] 319225004514 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319225004515 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 319225004516 Walker A/P-loop; other site 319225004517 ATP binding site [chemical binding]; other site 319225004518 Q-loop/lid; other site 319225004519 ABC transporter signature motif; other site 319225004520 Walker B; other site 319225004521 D-loop; other site 319225004522 H-loop/switch region; other site 319225004523 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 319225004524 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319225004525 putative substrate translocation pore; other site 319225004526 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 319225004527 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 319225004528 inhibitor-cofactor binding pocket; inhibition site 319225004529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004530 catalytic residue [active] 319225004531 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 319225004532 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225004533 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 319225004534 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319225004535 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225004536 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225004537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225004538 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 319225004539 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 319225004540 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 319225004541 light-independent protochlorophyllide reductase, B subunit; Region: DPOR_BchB; TIGR01278 319225004542 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 319225004543 chaperone protein DnaJ; Provisional; Region: PRK14281 319225004544 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 319225004545 HSP70 interaction site [polypeptide binding]; other site 319225004546 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 319225004547 substrate binding site [polypeptide binding]; other site 319225004548 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 319225004549 Zn binding sites [ion binding]; other site 319225004550 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 319225004551 dimer interface [polypeptide binding]; other site 319225004552 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 319225004553 dimer interface [polypeptide binding]; other site 319225004554 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 319225004555 Helix-turn-helix domains; Region: HTH; cl00088 319225004556 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 319225004557 HrcA protein C terminal domain; Region: HrcA; pfam01628 319225004558 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 319225004559 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 319225004560 S-adenosylmethionine binding site [chemical binding]; other site 319225004561 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 319225004562 prolyl-tRNA synthetase; Provisional; Region: PRK08661 319225004563 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 formation of...; Region: ProRS_core_arch_euk; cd00778 319225004564 dimer interface [polypeptide binding]; other site 319225004565 motif 1; other site 319225004566 active site 319225004567 motif 2; other site 319225004568 motif 3; other site 319225004569 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 319225004570 anticodon binding site; other site 319225004571 zinc-binding site [ion binding]; other site 319225004572 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 319225004573 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 319225004574 dimer interface [polypeptide binding]; other site 319225004575 decamer (pentamer of dimers) interface [polypeptide binding]; other site 319225004576 catalytic triad [active] 319225004577 peroxidatic and resolving cysteines [active] 319225004578 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 319225004579 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 319225004580 Predicted amidohydrolase [General function prediction only]; Region: COG0388 319225004581 putative active site [active] 319225004582 catalytic triad [active] 319225004583 putative dimer interface [polypeptide binding]; other site 319225004584 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14616 319225004585 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 319225004586 Sporulation related domain; Region: SPOR; cl10051 319225004587 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 319225004588 Walker A motif; other site 319225004589 ATP binding site [chemical binding]; other site 319225004590 Walker B motif; other site 319225004591 arginine finger; other site 319225004592 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 319225004593 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 319225004594 putative active site [active] 319225004595 catalytic triad [active] 319225004596 putative dimer interface [polypeptide binding]; other site 319225004597 Bacteriochlorophyll A protein; Region: BChl_A; pfam02327 319225004598 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 319225004599 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 319225004600 DNA binding residues [nucleotide binding] 319225004601 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 319225004602 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 319225004603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225004604 Walker A/P-loop; other site 319225004605 ATP binding site [chemical binding]; other site 319225004606 Q-loop/lid; other site 319225004607 ABC transporter signature motif; other site 319225004608 Walker B; other site 319225004609 D-loop; other site 319225004610 H-loop/switch region; other site 319225004611 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 319225004612 B12 binding site [chemical binding]; other site 319225004613 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 319225004614 Radical SAM superfamily; Region: Radical_SAM; pfam04055 319225004615 FeS/SAM binding site; other site 319225004616 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 319225004617 PAS domain; Region: PAS_9; pfam13426 319225004618 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319225004619 Zn2+ binding site [ion binding]; other site 319225004620 Mg2+ binding site [ion binding]; other site 319225004621 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 319225004622 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 319225004623 malate dehydrogenase; Reviewed; Region: PRK06223 319225004624 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 319225004625 NAD(P) binding site [chemical binding]; other site 319225004626 dimer interface [polypeptide binding]; other site 319225004627 tetramer (dimer of dimers) interface [polypeptide binding]; other site 319225004628 substrate binding site [chemical binding]; other site 319225004629 agmatine deiminase; Region: agmatine_aguA; TIGR03380 319225004630 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 319225004631 Peptidase family M48; Region: Peptidase_M48; cl12018 319225004632 N-carbamolyputrescine amidase; Region: PLN02747 319225004633 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 319225004634 putative active site; other site 319225004635 catalytic triad [active] 319225004636 putative dimer interface [polypeptide binding]; other site 319225004637 UbiA prenyltransferase family; Region: UbiA; cl00337 319225004638 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 319225004639 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225004640 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 319225004641 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 319225004642 substrate binding site [chemical binding]; other site 319225004643 glutamase interaction surface [polypeptide binding]; other site 319225004644 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 319225004645 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 319225004646 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 319225004647 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 319225004648 putative phosphoketolase; Provisional; Region: PRK05261 319225004649 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 319225004650 TPP-binding site; other site 319225004651 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 319225004652 XFP C-terminal domain; Region: XFP_C; pfam09363 319225004653 Acetokinase family; Region: Acetate_kinase; cl01029 319225004654 propionate/acetate kinase; Provisional; Region: PRK12379 319225004655 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 319225004656 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 319225004657 active site 319225004658 purine riboside binding site [chemical binding]; other site 319225004659 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225004660 active site 319225004661 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 319225004662 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 319225004663 active site 319225004664 catalytic residues [active] 319225004665 metal binding site [ion binding]; metal-binding site 319225004666 Nif-specific regulatory protein; Region: nifA; TIGR01817 319225004667 GAF domain; Region: GAF; cl15785 319225004668 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 319225004669 Walker A motif; other site 319225004670 ATP binding site [chemical binding]; other site 319225004671 Walker B motif; other site 319225004672 arginine finger; other site 319225004673 Helix-turn-helix domains; Region: HTH; cl00088 319225004674 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 319225004675 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 319225004676 Nucleotide-binding sites [chemical binding]; other site 319225004677 Walker A motif; other site 319225004678 Switch I region of nucleotide binding site; other site 319225004679 Fe4S4 binding sites [ion binding]; other site 319225004680 Switch II region of nucleotide binding site; other site 319225004681 Nitrogen regulatory protein P-II; Region: P-II; cl00412 319225004682 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319225004683 Nitrogen regulatory protein P-II; Region: P-II; cl00412 319225004684 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319225004685 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 319225004686 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 319225004687 MoFe protein alpha/beta subunit interactions; other site 319225004688 Alpha subunit P cluster binding residues; other site 319225004689 FeMoco binding residues [chemical binding]; other site 319225004690 MoFe protein alpha subunit/Fe protein contacts; other site 319225004691 MoFe protein dimer/ dimer interactions; other site 319225004692 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 319225004693 MoFe protein beta/alpha subunit interactions; other site 319225004694 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 319225004695 Beta subunit P cluster binding residues; other site 319225004696 MoFe protein beta subunit/Fe protein contacts; other site 319225004697 MoFe protein dimer/ dimer interactions; other site 319225004698 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 319225004699 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 319225004700 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 319225004701 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 319225004702 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 319225004703 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 319225004704 FeS/SAM binding site; other site 319225004705 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 319225004706 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 319225004707 dimer interface [polypeptide binding]; other site 319225004708 [2Fe-2S] cluster binding site [ion binding]; other site 319225004709 Cytochrome c; Region: Cytochrom_C; cl11414 319225004710 Cytochrome c; Region: Cytochrom_C; cl11414 319225004711 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 319225004712 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 319225004713 N-terminal plug; other site 319225004714 ligand-binding site [chemical binding]; other site 319225004715 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 319225004716 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 319225004717 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 319225004718 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 319225004719 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 319225004720 ABC-ATPase subunit interface; other site 319225004721 putative PBP binding loops; other site 319225004722 Helix-turn-helix domains; Region: HTH; cl00088 319225004723 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 319225004724 TOBE domain; Region: TOBE_2; cl01440 319225004725 TOBE domain; Region: TOBE_2; cl01440 319225004726 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 319225004727 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 319225004728 FeS/SAM binding site; other site 319225004729 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 319225004730 MOSC domain; Region: MOSC; pfam03473 319225004731 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 319225004732 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 319225004733 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 319225004734 homodimer interface [polypeptide binding]; other site 319225004735 substrate-cofactor binding pocket; other site 319225004736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004737 catalytic residue [active] 319225004738 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 319225004739 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 319225004740 homodimer interface [polypeptide binding]; other site 319225004741 substrate-cofactor binding pocket; other site 319225004742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004743 catalytic residue [active] 319225004744 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 319225004745 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 319225004746 active site 319225004747 phosphorylation site [posttranslational modification] 319225004748 intermolecular recognition site; other site 319225004749 dimerization interface [polypeptide binding]; other site 319225004750 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 319225004751 DNA binding residues [nucleotide binding] 319225004752 dimerization interface [polypeptide binding]; other site 319225004753 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 319225004754 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 319225004755 dimer interface [polypeptide binding]; other site 319225004756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004757 catalytic residue [active] 319225004758 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 319225004759 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 319225004760 sulfate transport protein; Provisional; Region: cysT; CHL00187 319225004761 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 319225004762 dimer interface [polypeptide binding]; other site 319225004763 conserved gate region; other site 319225004764 putative PBP binding loops; other site 319225004765 ABC-ATPase subunit interface; other site 319225004766 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 319225004767 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 319225004768 dimer interface [polypeptide binding]; other site 319225004769 conserved gate region; other site 319225004770 putative PBP binding loops; other site 319225004771 ABC-ATPase subunit interface; other site 319225004772 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 319225004773 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 319225004774 Walker A/P-loop; other site 319225004775 ATP binding site [chemical binding]; other site 319225004776 Q-loop/lid; other site 319225004777 ABC transporter signature motif; other site 319225004778 Walker B; other site 319225004779 D-loop; other site 319225004780 H-loop/switch region; other site 319225004781 TOBE-like domain; Region: TOBE_3; pfam12857 319225004782 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 319225004783 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 319225004784 CysD dimerization site [polypeptide binding]; other site 319225004785 G1 box; other site 319225004786 putative GEF interaction site [polypeptide binding]; other site 319225004787 GTP/Mg2+ binding site [chemical binding]; other site 319225004788 Switch I region; other site 319225004789 G2 box; other site 319225004790 G3 box; other site 319225004791 Switch II region; other site 319225004792 G4 box; other site 319225004793 G5 box; other site 319225004794 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 319225004795 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 319225004796 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 319225004797 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225004798 active site 319225004799 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 319225004800 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 319225004801 Active Sites [active] 319225004802 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 319225004803 Active Sites [active] 319225004804 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 319225004805 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 319225004806 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 319225004807 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 319225004808 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 319225004809 homodimer interface [polypeptide binding]; other site 319225004810 substrate-cofactor binding pocket; other site 319225004811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004812 catalytic residue [active] 319225004813 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 319225004814 thiS-thiF/thiG interaction site; other site 319225004815 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 319225004816 ThiS interaction site; other site 319225004817 putative active site [active] 319225004818 tetramer interface [polypeptide binding]; other site 319225004819 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 319225004820 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 319225004821 FeS/SAM binding site; other site 319225004822 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 319225004823 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 319225004824 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 319225004825 ATP binding site [chemical binding]; other site 319225004826 substrate interface [chemical binding]; other site 319225004827 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 319225004828 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 319225004829 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 319225004830 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 319225004831 DsbD alpha interface [polypeptide binding]; other site 319225004832 catalytic residues [active] 319225004833 ApbE family; Region: ApbE; cl00643 319225004834 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 319225004835 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 319225004836 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 319225004837 catalytic residues [active] 319225004838 ResB-like family; Region: ResB; pfam05140 319225004839 ResB-like family; Region: ResB; pfam05140 319225004840 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 319225004841 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 319225004842 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319225004843 Coenzyme A binding pocket [chemical binding]; other site 319225004844 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 319225004845 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 319225004846 FeS/SAM binding site; other site 319225004847 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 319225004848 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 319225004849 Helix-turn-helix domains; Region: HTH; cl00088 319225004850 Helix-turn-helix domains; Region: HTH; cl00088 319225004851 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 319225004852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225004853 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 319225004854 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 319225004855 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 319225004856 FeS/SAM binding site; other site 319225004857 HemN C-terminal domain; Region: HemN_C; pfam06969 319225004858 AIR carboxylase; Region: AIRC; cl00310 319225004859 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 319225004860 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 319225004861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225004862 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225004863 acetylornithine aminotransferase; Provisional; Region: PRK02627 319225004864 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 319225004865 inhibitor-cofactor binding pocket; inhibition site 319225004866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004867 catalytic residue [active] 319225004868 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 319225004869 Gram-negative bacterial tonB protein; Region: TonB; cl10048 319225004870 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 319225004871 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 319225004872 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 319225004873 DNA primase; Validated; Region: dnaG; PRK05667 319225004874 CHC2 zinc finger; Region: zf-CHC2; cl15369 319225004875 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 319225004876 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 319225004877 active site 319225004878 metal binding site [ion binding]; metal-binding site 319225004879 interdomain interaction site; other site 319225004880 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 319225004881 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 319225004882 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 319225004883 dimer interface [polypeptide binding]; other site 319225004884 glycine-pyridoxal phosphate binding site [chemical binding]; other site 319225004885 active site 319225004886 folate binding site [chemical binding]; other site 319225004887 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 319225004888 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 319225004889 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 319225004890 dimerization interface [polypeptide binding]; other site 319225004891 active site 319225004892 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 319225004893 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319225004894 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 319225004895 ATP-grasp domain; Region: ATP-grasp_4; cl03087 319225004896 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 319225004897 IMP binding site; other site 319225004898 dimer interface [polypeptide binding]; other site 319225004899 interdomain contacts; other site 319225004900 partial ornithine binding site; other site 319225004901 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 319225004902 putative active site [active] 319225004903 putative metal binding site [ion binding]; other site 319225004904 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 319225004905 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 319225004906 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 319225004907 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 319225004908 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 319225004909 heterodimer interface [polypeptide binding]; other site 319225004910 active site 319225004911 FMN binding site [chemical binding]; other site 319225004912 homodimer interface [polypeptide binding]; other site 319225004913 substrate binding site [chemical binding]; other site 319225004914 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 319225004915 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 319225004916 homotrimer interaction site [polypeptide binding]; other site 319225004917 zinc binding site [ion binding]; other site 319225004918 CDP-binding sites; other site 319225004919 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225004920 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225004921 FtsX-like permease family; Region: FtsX; cl15850 319225004922 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 319225004923 active site 319225004924 ADP/pyrophosphate binding site [chemical binding]; other site 319225004925 dimerization interface [polypeptide binding]; other site 319225004926 allosteric effector site; other site 319225004927 fructose-1,6-bisphosphate binding site; other site 319225004928 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 319225004929 homodimer interface [polypeptide binding]; other site 319225004930 substrate-cofactor binding pocket; other site 319225004931 catalytic residue [active] 319225004932 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225004933 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 319225004934 Walker A motif; other site 319225004935 ATP binding site [chemical binding]; other site 319225004936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225004937 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 319225004938 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 319225004939 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 319225004940 active site 319225004941 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 319225004942 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 319225004943 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 319225004944 UbiA prenyltransferase family; Region: UbiA; cl00337 319225004945 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 319225004946 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 319225004947 RNA/DNA hybrid binding site [nucleotide binding]; other site 319225004948 active site 319225004949 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 319225004950 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 319225004951 Ligand Binding Site [chemical binding]; other site 319225004952 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 319225004953 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 319225004954 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 319225004955 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 319225004956 Walker A/P-loop; other site 319225004957 ATP binding site [chemical binding]; other site 319225004958 Q-loop/lid; other site 319225004959 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 319225004960 ABC transporter signature motif; other site 319225004961 Walker B; other site 319225004962 D-loop; other site 319225004963 H-loop/switch region; other site 319225004964 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 319225004965 dihydrodipicolinate synthase; Region: dapA; TIGR00674 319225004966 dimer interface [polypeptide binding]; other site 319225004967 active site 319225004968 catalytic residue [active] 319225004969 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 319225004970 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 319225004971 tetramer interface [polypeptide binding]; other site 319225004972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004973 catalytic residue [active] 319225004974 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 319225004975 lipoyl attachment site [posttranslational modification]; other site 319225004976 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 319225004977 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 319225004978 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 319225004979 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 319225004980 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 319225004981 dimer interface [polypeptide binding]; other site 319225004982 PYR/PP interface [polypeptide binding]; other site 319225004983 TPP binding site [chemical binding]; other site 319225004984 substrate binding site [chemical binding]; other site 319225004985 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 319225004986 Domain of unknown function; Region: EKR; cl11037 319225004987 4Fe-4S binding domain; Region: Fer4; cl02805 319225004988 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 319225004989 TPP-binding site [chemical binding]; other site 319225004990 dimer interface [polypeptide binding]; other site 319225004991 TPR repeat; Region: TPR_11; pfam13414 319225004992 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 319225004993 binding surface 319225004994 TPR motif; other site 319225004995 TPR repeat; Region: TPR_11; pfam13414 319225004996 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 319225004997 binding surface 319225004998 TPR motif; other site 319225004999 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 319225005000 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 319225005001 TPR motif; other site 319225005002 binding surface 319225005003 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 319225005004 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 319225005005 Walker A motif; other site 319225005006 ATP binding site [chemical binding]; other site 319225005007 Walker B motif; other site 319225005008 arginine finger; other site 319225005009 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 319225005010 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 319225005011 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 319225005012 dimer interface [polypeptide binding]; other site 319225005013 conserved gate region; other site 319225005014 putative PBP binding loops; other site 319225005015 ABC-ATPase subunit interface; other site 319225005016 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 319225005017 peptide binding site [polypeptide binding]; other site 319225005018 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 319225005019 HPr kinase/phosphorylase; Provisional; Region: PRK05428 319225005020 DRTGG domain; Region: DRTGG; cl12147 319225005021 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 319225005022 Hpr binding site; other site 319225005023 active site 319225005024 homohexamer subunit interaction site [polypeptide binding]; other site 319225005025 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 A site; Region: RaiA; cd00552 319225005026 30S subunit binding site; other site 319225005027 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 319225005028 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 319225005029 Int/Topo IB signature motif; other site 319225005030 active site 319225005031 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 319225005032 S-adenosylmethionine binding site [chemical binding]; other site 319225005033 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 319225005034 Photosystem P840 reaction-centre cytochrome c-551; Region: Cytochrome-c551; pfam10643 319225005035 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 319225005036 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 319225005037 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 319225005038 tandem repeat interface [polypeptide binding]; other site 319225005039 oligomer interface [polypeptide binding]; other site 319225005040 active site residues [active] 319225005041 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 319225005042 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 319225005043 tandem repeat interface [polypeptide binding]; other site 319225005044 oligomer interface [polypeptide binding]; other site 319225005045 active site residues [active] 319225005046 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 319225005047 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 319225005048 Walker A/P-loop; other site 319225005049 ATP binding site [chemical binding]; other site 319225005050 Q-loop/lid; other site 319225005051 ABC transporter signature motif; other site 319225005052 Walker B; other site 319225005053 D-loop; other site 319225005054 H-loop/switch region; other site 319225005055 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 319225005056 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 319225005057 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 319225005058 Pantoate-beta-alanine ligase; Region: PanC; cd00560 319225005059 pantoate--beta-alanine ligase; Region: panC; TIGR00018 319225005060 active site 319225005061 ATP-binding site [chemical binding]; other site 319225005062 pantoate-binding site; other site 319225005063 HXXH motif; other site 319225005064 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 319225005065 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 319225005066 RNase E interface [polypeptide binding]; other site 319225005067 trimer interface [polypeptide binding]; other site 319225005068 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 319225005069 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 319225005070 RNase E interface [polypeptide binding]; other site 319225005071 trimer interface [polypeptide binding]; other site 319225005072 active site 319225005073 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 319225005074 putative nucleic acid binding region [nucleotide binding]; other site 319225005075 G-X-X-G motif; other site 319225005076 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 319225005077 RNA binding site [nucleotide binding]; other site 319225005078 domain interface; other site 319225005079 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 319225005080 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 319225005081 HIGH motif; other site 319225005082 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 319225005083 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225005084 active site 319225005085 KMSKS motif; other site 319225005086 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 319225005087 tRNA binding surface [nucleotide binding]; other site 319225005088 acetyl-CoA synthetase; Provisional; Region: PRK00174 319225005089 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 319225005090 AMP-binding enzyme; Region: AMP-binding; cl15778 319225005091 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 319225005092 TspO/MBR family; Region: TspO_MBR; cl01379 319225005093 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 319225005094 active site 319225005095 dimerization interface [polypeptide binding]; other site 319225005096 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 319225005097 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 319225005098 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 319225005099 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 319225005100 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 includes...; Region: RuvC_resolvase; cd00529 319225005101 active site 319225005102 putative DNA-binding cleft [nucleotide binding]; other site 319225005103 dimer interface [polypeptide binding]; other site 319225005104 Transcriptional regulator; Region: Transcrip_reg; cl00361 319225005105 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 319225005106 Prephenate dehydratase; Region: PDT; pfam00800 319225005107 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 319225005108 putative L-Phe binding site [chemical binding]; other site 319225005109 DNA polymerase I; Provisional; Region: PRK05755 319225005110 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 319225005111 active site 319225005112 metal binding site 1 [ion binding]; metal-binding site 319225005113 putative 5' ssDNA interaction site; other site 319225005114 metal binding site 3; metal-binding site 319225005115 metal binding site 2 [ion binding]; metal-binding site 319225005116 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 319225005117 putative DNA binding site [nucleotide binding]; other site 319225005118 putative metal binding site [ion binding]; other site 319225005119 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 319225005120 active site 319225005121 catalytic site [active] 319225005122 substrate binding site [chemical binding]; other site 319225005123 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 319225005124 active site 319225005125 DNA binding site [nucleotide binding] 319225005126 catalytic site [active] 319225005127 Peptidase family M23; Region: Peptidase_M23; pfam01551 319225005128 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 319225005129 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 319225005130 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 319225005131 Surface antigen; Region: Bac_surface_Ag; cl03097 319225005132 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 319225005133 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 319225005134 substrate binding site [chemical binding]; other site 319225005135 hexamer interface [polypeptide binding]; other site 319225005136 metal binding site [ion binding]; metal-binding site 319225005137 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 319225005138 active site 319225005139 ribulose/triose binding site [chemical binding]; other site 319225005140 phosphate binding site [ion binding]; other site 319225005141 substrate (anthranilate) binding pocket [chemical binding]; other site 319225005142 product (indole) binding pocket [chemical binding]; other site 319225005143 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319225005144 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 319225005145 ATP-grasp domain; Region: ATP-grasp_4; cl03087 319225005146 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 319225005147 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 319225005148 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 319225005149 ATP-grasp domain; Region: ATP-grasp_4; cl03087 319225005150 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 319225005151 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 319225005152 putative acyl-acceptor binding pocket; other site 319225005153 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 319225005154 Isochorismatase family; Region: Isochorismatase; pfam00857 319225005155 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 319225005156 catalytic triad [active] 319225005157 dimer interface [polypeptide binding]; other site 319225005158 conserved cis-peptide bond; other site 319225005159 Phospholipid methyltransferase; Region: PEMT; cl00763 319225005160 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 319225005161 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 319225005162 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 319225005163 conserved cys residue [active] 319225005164 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 319225005165 TM-ABC transporter signature motif; other site 319225005166 pyruvate phosphate dikinase; Provisional; Region: PRK09279 319225005167 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 319225005168 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 319225005169 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; cl09155 319225005170 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 319225005171 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 319225005172 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 319225005173 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 319225005174 Domain of unknown function (DUF296); Region: DUF296; cl00720 319225005175 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 319225005176 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 319225005177 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 319225005178 putative active site [active] 319225005179 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 319225005180 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 319225005181 ATP binding site [chemical binding]; other site 319225005182 putative Mg++ binding site [ion binding]; other site 319225005183 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 319225005184 nucleotide binding region [chemical binding]; other site 319225005185 ATP-binding site [chemical binding]; other site 319225005186 RQC domain; Region: RQC; cl09632 319225005187 HRDC domain; Region: HRDC; cl02578 319225005188 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 319225005189 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 319225005190 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 319225005191 FeS/SAM binding site; other site 319225005192 hybrid cluster protein; Provisional; Region: PRK05290 319225005193 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 319225005194 ACS interaction site; other site 319225005195 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 319225005196 hybrid metal cluster; other site 319225005197 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 319225005198 TPR motif; other site 319225005199 TPR repeat; Region: TPR_11; pfam13414 319225005200 binding surface 319225005201 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 319225005202 4Fe-4S binding domain; Region: Fer4; cl02805 319225005203 Rrf2 family protein; Region: rrf2_super; TIGR00738 319225005204 Helix-turn-helix domains; Region: HTH; cl00088 319225005205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005206 Haem-binding domain; Region: Haem_bd; pfam14376 319225005207 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_2; cd06160 319225005208 active site 319225005209 putative substrate binding region [chemical binding]; other site 319225005210 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 319225005211 dihydropteroate synthase; Region: DHPS; TIGR01496 319225005212 substrate binding pocket [chemical binding]; other site 319225005213 dimer interface [polypeptide binding]; other site 319225005214 inhibitor binding site; inhibition site 319225005215 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 319225005216 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 319225005217 Walker A/P-loop; other site 319225005218 ATP binding site [chemical binding]; other site 319225005219 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 319225005220 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 319225005221 Q-loop/lid; other site 319225005222 ABC transporter signature motif; other site 319225005223 Walker B; other site 319225005224 D-loop; other site 319225005225 H-loop/switch region; other site 319225005226 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 319225005227 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 319225005228 motif II; other site 319225005229 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 319225005230 putative RNA binding site [nucleotide binding]; other site 319225005231 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 319225005232 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 319225005233 active site 319225005234 metal binding site [ion binding]; metal-binding site 319225005235 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 319225005236 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 319225005237 minor groove reading motif; other site 319225005238 helix-hairpin-helix signature motif; other site 319225005239 substrate binding pocket [chemical binding]; other site 319225005240 active site 319225005241 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 319225005242 aminodeoxychorismate synthase; Provisional; Region: PRK07508 319225005243 chorismate binding enzyme; Region: Chorismate_bind; cl10555 319225005244 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 319225005245 homodimer interface [polypeptide binding]; other site 319225005246 substrate-cofactor binding pocket; other site 319225005247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225005248 catalytic residue [active] 319225005249 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 319225005250 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 319225005251 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 319225005252 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 319225005253 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 319225005254 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 319225005255 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 319225005256 RNA binding surface [nucleotide binding]; other site 319225005257 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 319225005258 active site 319225005259 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 319225005260 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 319225005261 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 319225005262 catalytic residues [active] 319225005263 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 319225005264 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 319225005265 putative active site [active] 319225005266 oxyanion strand; other site 319225005267 catalytic triad [active] 319225005268 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 319225005269 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 319225005270 FAD binding pocket [chemical binding]; other site 319225005271 FAD binding motif [chemical binding]; other site 319225005272 phosphate binding motif [ion binding]; other site 319225005273 beta-alpha-beta structure motif; other site 319225005274 NAD binding pocket [chemical binding]; other site 319225005275 Iron coordination center [ion binding]; other site 319225005276 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 319225005277 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 319225005278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005279 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225005280 Membrane transport protein; Region: Mem_trans; cl09117 319225005281 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225005282 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 319225005283 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 319225005284 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 319225005285 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 319225005286 S-adenosylmethionine binding site [chemical binding]; other site 319225005287 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 319225005288 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 319225005289 nucleotide binding pocket [chemical binding]; other site 319225005290 K-X-D-G motif; other site 319225005291 catalytic site [active] 319225005292 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 319225005293 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 319225005294 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 319225005295 Dimer interface [polypeptide binding]; other site 319225005296 BRCT sequence motif; other site 319225005297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005298 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 319225005299 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319225005300 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 319225005301 Walker A/P-loop; other site 319225005302 ATP binding site [chemical binding]; other site 319225005303 Q-loop/lid; other site 319225005304 ABC transporter signature motif; other site 319225005305 Walker B; other site 319225005306 D-loop; other site 319225005307 H-loop/switch region; other site 319225005308 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 319225005309 Membrane transport protein; Region: Mem_trans; cl09117 319225005310 Low molecular weight phosphatase family; Region: LMWPc; cd00115 319225005311 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 319225005312 active site 319225005313 Predicted permease; Region: DUF318; pfam03773 319225005314 Predicted permeases [General function prediction only]; Region: COG0701 319225005315 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 319225005316 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 319225005317 dimerization interface [polypeptide binding]; other site 319225005318 putative DNA binding site [nucleotide binding]; other site 319225005319 putative Zn2+ binding site [ion binding]; other site 319225005320 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 319225005321 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 319225005322 dimerization interface [polypeptide binding]; other site 319225005323 active site 319225005324 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 319225005325 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 319225005326 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 319225005327 dimer interface [polypeptide binding]; other site 319225005328 conserved gate region; other site 319225005329 putative PBP binding loops; other site 319225005330 ABC-ATPase subunit interface; other site 319225005331 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225005332 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 319225005333 Walker A/P-loop; other site 319225005334 ATP binding site [chemical binding]; other site 319225005335 Q-loop/lid; other site 319225005336 ABC transporter signature motif; other site 319225005337 Walker B; other site 319225005338 D-loop; other site 319225005339 H-loop/switch region; other site 319225005340 TOBE domain; Region: TOBE_2; cl01440 319225005341 TOBE domain; Region: TOBE_2; cl01440 319225005342 TOBE domain; Region: TOBE_2; cl01440 319225005343 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 319225005344 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 319225005345 Walker A/P-loop; other site 319225005346 ATP binding site [chemical binding]; other site 319225005347 Q-loop/lid; other site 319225005348 ABC transporter signature motif; other site 319225005349 Walker B; other site 319225005350 D-loop; other site 319225005351 H-loop/switch region; other site 319225005352 pteridine reductase; Provisional; Region: PRK09135 319225005353 classical (c) SDRs; Region: SDR_c; cd05233 319225005354 NAD(P) binding site [chemical binding]; other site 319225005355 active site 319225005356 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 319225005357 active site 319225005358 catalytic site [active] 319225005359 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 319225005360 intrachain domain interface; other site 319225005361 interchain domain interface [polypeptide binding]; other site 319225005362 heme bH binding site [chemical binding]; other site 319225005363 heme bL binding site [chemical binding]; other site 319225005364 Qo binding site; other site 319225005365 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 319225005366 intrachain domain interface; other site 319225005367 Qi binding site; other site 319225005368 interchain domain interface [polypeptide binding]; other site 319225005369 Qo binding site; other site 319225005370 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 319225005371 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 319225005372 iron-sulfur cluster [ion binding]; other site 319225005373 [2Fe-2S] cluster binding site [ion binding]; other site 319225005374 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 319225005375 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 319225005376 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 319225005377 active site 319225005378 HIGH motif; other site 319225005379 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 319225005380 active site 319225005381 KMSKS motif; other site 319225005382 FtsH Extracellular; Region: FtsH_ext; pfam06480 319225005383 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 319225005384 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 319225005385 Walker B motif; other site 319225005386 arginine finger; other site 319225005387 Peptidase family M41; Region: Peptidase_M41; pfam01434 319225005388 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 319225005389 IHF dimer interface [polypeptide binding]; other site 319225005390 IHF - DNA interface [nucleotide binding]; other site 319225005391 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 319225005392 transmembrane helices; other site 319225005393 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 319225005394 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225005395 active site 319225005396 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 319225005397 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 319225005398 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 319225005399 FeS/SAM binding site; other site 319225005400 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 319225005401 GTPase Era; Reviewed; Region: era; PRK00089 319225005402 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 319225005403 G1 box; other site 319225005404 GTP/Mg2+ binding site [chemical binding]; other site 319225005405 Switch I region; other site 319225005406 G2 box; other site 319225005407 Switch II region; other site 319225005408 G3 box; other site 319225005409 G4 box; other site 319225005410 G5 box; other site 319225005411 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; cl00098 319225005412 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 319225005413 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 319225005414 RNA binding site [nucleotide binding]; other site 319225005415 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 319225005416 RNA binding site [nucleotide binding]; other site 319225005417 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 319225005418 RNA binding site [nucleotide binding]; other site 319225005419 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 319225005420 RNA binding site [nucleotide binding]; other site 319225005421 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 319225005422 RNA binding site [nucleotide binding]; other site 319225005423 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 319225005424 RNA binding site [nucleotide binding]; other site 319225005425 cytidylate kinase; Provisional; Region: cmk; PRK00023 319225005426 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 319225005427 CMP-binding site; other site 319225005428 The sites determining sugar specificity; other site 319225005429 GTP-binding protein YchF; Reviewed; Region: PRK09601 319225005430 YchF GTPase; Region: YchF; cd01900 319225005431 G1 box; other site 319225005432 GTP/Mg2+ binding site [chemical binding]; other site 319225005433 Switch I region; other site 319225005434 G2 box; other site 319225005435 Switch II region; other site 319225005436 G3 box; other site 319225005437 G4 box; other site 319225005438 G5 box; other site 319225005439 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 319225005440 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 319225005441 LytB protein; Region: LYTB; cl00507 319225005442 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 319225005443 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 319225005444 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; cl00159 319225005445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005446 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225005447 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 319225005448 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 319225005449 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 319225005450 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 319225005451 active site 319225005452 substrate binding site [chemical binding]; other site 319225005453 metal binding site [ion binding]; metal-binding site 319225005454 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 319225005455 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319225005456 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 319225005457 DNA binding residues [nucleotide binding] 319225005458 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 319225005459 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 319225005460 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 319225005461 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG1102 319225005462 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 319225005463 KpsF/GutQ family protein; Region: kpsF; TIGR00393 319225005464 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 319225005465 putative active site [active] 319225005466 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 319225005467 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 319225005468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005469 CoA-ligase; Region: Ligase_CoA; cl02894 319225005470 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 319225005471 Amidase; Region: Amidase; cl11426 319225005472 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 319225005473 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 319225005474 catalytic residue [active] 319225005475 putative FPP diphosphate binding site; other site 319225005476 putative FPP binding hydrophobic cleft; other site 319225005477 dimer interface [polypeptide binding]; other site 319225005478 putative IPP diphosphate binding site; other site 319225005479 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 319225005480 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 319225005481 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 319225005482 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 319225005483 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 319225005484 Surface antigen; Region: Bac_surface_Ag; cl03097 319225005485 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 319225005486 Bifunctional nuclease; Region: DNase-RNase; cl00553 319225005487 UvrB/uvrC motif; Region: UVR; pfam02151 319225005488 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 319225005489 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 319225005490 Ligand Binding Site [chemical binding]; other site 319225005491 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 319225005492 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 319225005493 Ligand binding site [chemical binding]; other site 319225005494 transcription termination factor Rho; Provisional; Region: rho; PRK09376 319225005495 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 319225005496 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 319225005497 RNA binding site [nucleotide binding]; other site 319225005498 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 319225005499 multimer interface [polypeptide binding]; other site 319225005500 Walker A motif; other site 319225005501 ATP binding site [chemical binding]; other site 319225005502 Walker B motif; other site 319225005503 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 319225005504 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 319225005505 RuvA N terminal domain; Region: RuvA_N; pfam01330 319225005506 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 319225005507 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 319225005508 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 319225005509 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 319225005510 active site 319225005511 substrate binding site [chemical binding]; other site 319225005512 metal binding site [ion binding]; metal-binding site 319225005513 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 319225005514 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 319225005515 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 319225005516 Walker A/P-loop; other site 319225005517 ATP binding site [chemical binding]; other site 319225005518 Q-loop/lid; other site 319225005519 ABC transporter signature motif; other site 319225005520 Walker B; other site 319225005521 D-loop; other site 319225005522 H-loop/switch region; other site 319225005523 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 319225005524 active site 319225005525 NTP binding site [chemical binding]; other site 319225005526 metal binding triad [ion binding]; metal-binding site 319225005527 antibiotic binding site [chemical binding]; other site 319225005528 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225005529 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225005530 FtsX-like permease family; Region: FtsX; cl15850 319225005531 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 319225005532 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 319225005533 homotetramer interface [polypeptide binding]; other site 319225005534 FMN binding site [chemical binding]; other site 319225005535 homodimer contacts [polypeptide binding]; other site 319225005536 putative active site [active] 319225005537 putative substrate binding site [chemical binding]; other site 319225005538 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 319225005539 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 319225005540 substrate binding pocket [chemical binding]; other site 319225005541 chain length determination region; other site 319225005542 substrate-Mg2+ binding site; other site 319225005543 catalytic residues [active] 319225005544 aspartate-rich region 1; other site 319225005545 active site lid residues [active] 319225005546 aspartate-rich region 2; other site 319225005547 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 319225005548 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 319225005549 periplasmic chaperone; Provisional; Region: PRK10780 319225005550 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 319225005551 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 319225005552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 319225005553 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 319225005554 tetramerization interface [polypeptide binding]; other site 319225005555 active site 319225005556 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 319225005557 Substrate binding site; other site 319225005558 Mg++ binding site; other site 319225005559 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319225005560 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 319225005561 active site 319225005562 metal binding site [ion binding]; metal-binding site 319225005563 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 319225005564 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 319225005565 catalytic site [active] 319225005566 G-X2-G-X-G-K; other site 319225005567 hypothetical protein; Provisional; Region: PRK11820 319225005568 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 319225005569 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 319225005570 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 319225005571 16S/18S rRNA binding site [nucleotide binding]; other site 319225005572 S13e-L30e interaction site [polypeptide binding]; other site 319225005573 25S rRNA binding site [nucleotide binding]; other site 319225005574 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 319225005575 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 319225005576 active site 319225005577 Riboflavin kinase; Region: Flavokinase; cl03312 319225005578 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 319225005579 RNA binding site [nucleotide binding]; other site 319225005580 active site 319225005581 Ribosome-binding factor A; Region: RBFA; cl00542 319225005582 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 319225005583 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 319225005584 translation initiation factor IF-2; Region: IF-2; TIGR00487 319225005585 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 319225005586 G1 box; other site 319225005587 putative GEF interaction site [polypeptide binding]; other site 319225005588 GTP/Mg2+ binding site [chemical binding]; other site 319225005589 Switch I region; other site 319225005590 G2 box; other site 319225005591 G3 box; other site 319225005592 Switch II region; other site 319225005593 G4 box; other site 319225005594 G5 box; other site 319225005595 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 319225005596 Translation-initiation factor 2; Region: IF-2; pfam11987 319225005597 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 319225005598 NusA N-terminal domain; Region: NusA_N; pfam08529 319225005599 transcription termination factor NusA; Region: NusA; TIGR01953 319225005600 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 319225005601 RNA binding site [nucleotide binding]; other site 319225005602 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; cl00098 319225005603 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 319225005604 G-X-X-G motif; other site 319225005605 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 319225005606 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 319225005607 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 319225005608 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225005609 Fic family protein [Function unknown]; Region: COG3177 319225005610 Fic/DOC family; Region: Fic; cl00960 319225005611 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 319225005612 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 319225005613 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 ATP-dependent...; Region: HisRS-like_core; cd00773 319225005614 dimer interface [polypeptide binding]; other site 319225005615 motif 1; other site 319225005616 active site 319225005617 motif 2; other site 319225005618 motif 3; other site 319225005619 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 319225005620 anticodon binding site; other site 319225005621 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 319225005622 active site 319225005623 phosphorylation site [posttranslational modification] 319225005624 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 319225005625 CAAX protease self-immunity; Region: Abi; cl00558 319225005626 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 319225005627 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 319225005628 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 319225005629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005630 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 319225005631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005632 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 319225005633 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 319225005634 putative active site [active] 319225005635 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 319225005636 active site 319225005637 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 319225005638 Substrate binding site; other site 319225005639 metal-binding site 319225005640 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 319225005641 putative metal binding site; other site 319225005642 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 319225005643 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 319225005644 putative active site [active] 319225005645 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 319225005646 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 319225005647 putative ADP-binding pocket [chemical binding]; other site 319225005648 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 319225005649 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 319225005650 putative acyl-acceptor binding pocket; other site 319225005651 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 319225005652 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 319225005653 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 319225005654 Walker A/P-loop; other site 319225005655 ATP binding site [chemical binding]; other site 319225005656 Q-loop/lid; other site 319225005657 ABC transporter signature motif; other site 319225005658 Walker B; other site 319225005659 D-loop; other site 319225005660 H-loop/switch region; other site 319225005661 O-Antigen ligase; Region: Wzy_C; cl04850 319225005662 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 319225005663 putative active site [active] 319225005664 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 319225005665 non-specific DNA binding site [nucleotide binding]; other site 319225005666 salt bridge; other site 319225005667 sequence-specific DNA binding site [nucleotide binding]; other site 319225005668 Domain of unknown function (DUF955); Region: DUF955; cl01076 319225005669 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 319225005670 non-specific DNA binding site [nucleotide binding]; other site 319225005671 salt bridge; other site 319225005672 sequence-specific DNA binding site [nucleotide binding]; other site 319225005673 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 319225005674 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 319225005675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225005676 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 319225005677 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 319225005678 Protein of unknown function DUF86; Region: DUF86; cl01031 319225005679 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 319225005680 active site 319225005681 NTP binding site [chemical binding]; other site 319225005682 metal binding triad [ion binding]; metal-binding site 319225005683 antibiotic binding site [chemical binding]; other site 319225005684 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 319225005685 Predicted transcriptional regulator [Transcription]; Region: COG2944 319225005686 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225005687 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 319225005688 Helix-turn-helix domains; Region: HTH; cl00088 319225005689 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 319225005690 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 319225005691 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 319225005692 putative active site [active] 319225005693 putative NTP binding site [chemical binding]; other site 319225005694 putative nucleic acid binding site [nucleotide binding]; other site 319225005695 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 319225005696 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225005697 Domain of unknown function (DUF955); Region: DUF955; cl01076 319225005698 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 319225005699 Integrase core domain; Region: rve; cl01316 319225005700 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 319225005701 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 319225005702 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 319225005703 Walker A motif; other site 319225005704 ATP binding site [chemical binding]; other site 319225005705 Walker B motif; other site 319225005706 Predicted membrane protein (DUF2335); Region: DUF2335; cl02210 319225005707 Domain of unknown function (DUF955); Region: DUF955; cl01076 319225005708 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 319225005709 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225005710 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 319225005711 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 319225005712 NAD(P) binding site [chemical binding]; other site 319225005713 homodimer interface [polypeptide binding]; other site 319225005714 substrate binding site [chemical binding]; other site 319225005715 active site 319225005716 Bacterial sugar transferase; Region: Bac_transf; cl00939 319225005717 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 319225005718 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 319225005719 putative NAD(P) binding site [chemical binding]; other site 319225005720 active site 319225005721 putative substrate binding site [chemical binding]; other site 319225005722 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 319225005723 metal-binding site 319225005724 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 319225005725 extended (e) SDRs; Region: SDR_e; cd08946 319225005726 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 319225005727 NAD(P) binding site [chemical binding]; other site 319225005728 active site 319225005729 substrate binding site [chemical binding]; other site 319225005730 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 319225005731 S-adenosylmethionine binding site [chemical binding]; other site 319225005732 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 319225005733 trimer interface [polypeptide binding]; other site 319225005734 active site 319225005735 substrate binding site [chemical binding]; other site 319225005736 CoA binding site [chemical binding]; other site 319225005737 hypothetical protein; Provisional; Region: PRK08317 319225005738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005739 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 319225005740 active site 319225005741 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 319225005742 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 319225005743 active site 319225005744 dimer interface [polypeptide binding]; other site 319225005745 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 319225005746 Ligand Binding Site [chemical binding]; other site 319225005747 Molecular Tunnel; other site 319225005748 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 319225005749 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 319225005750 metal-binding site 319225005751 putative transposase OrfB; Reviewed; Region: PHA02517 319225005752 Helix-turn-helix domains; Region: HTH; cl00088 319225005753 Integrase core domain; Region: rve; cl01316 319225005754 Integrase core domain; Region: rve_3; cl15866 319225005755 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 319225005756 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 319225005757 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 319225005758 putative glycosyl transferase; Provisional; Region: PRK10125 319225005759 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 319225005760 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 319225005761 NADP-binding site; other site 319225005762 homotetramer interface [polypeptide binding]; other site 319225005763 substrate binding site [chemical binding]; other site 319225005764 homodimer interface [polypeptide binding]; other site 319225005765 active site 319225005766 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 319225005767 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 319225005768 NADP binding site [chemical binding]; other site 319225005769 active site 319225005770 putative substrate binding site [chemical binding]; other site 319225005771 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 319225005772 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225005773 Walker A/P-loop; other site 319225005774 ATP binding site [chemical binding]; other site 319225005775 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 319225005776 Walker B; other site 319225005777 D-loop; other site 319225005778 H-loop/switch region; other site 319225005779 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 319225005780 putative active site [active] 319225005781 putative metal-binding site [ion binding]; other site 319225005782 Methyltransferase domain; Region: Methyltransf_31; pfam13847 319225005783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005784 MatE; Region: MatE; cl10513 319225005785 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 319225005786 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 319225005787 AAA domain; Region: AAA_21; pfam13304 319225005788 Uncharacterized conserved protein [Function unknown]; Region: COG4938 319225005789 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 319225005790 oligomeric interface; other site 319225005791 putative active site [active] 319225005792 homodimer interface [polypeptide binding]; other site 319225005793 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 319225005794 Helix-turn-helix domains; Region: HTH; cl00088 319225005795 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 319225005796 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225005797 Predicted transcriptional regulator [Transcription]; Region: COG5340 319225005798 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225005799 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 319225005800 DNA binding site [nucleotide binding] 319225005801 Int/Topo IB signature motif; other site 319225005802 active site 319225005803 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 319225005804 DNA binding site [nucleotide binding] 319225005805 dimer interface [polypeptide binding]; other site 319225005806 Int/Topo IB signature motif; other site 319225005807 active site 319225005808 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 319225005809 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 319225005810 Mg++ binding site [ion binding]; other site 319225005811 putative catalytic motif [active] 319225005812 Chain length determinant protein; Region: Wzz; cl15801 319225005813 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 319225005814 Chain length determinant protein; Region: Wzz; cl15801 319225005815 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 319225005816 Mg++ binding site [ion binding]; other site 319225005817 putative catalytic motif [active] 319225005818 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 319225005819 Chain length determinant protein; Region: Wzz; cl15801 319225005820 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 319225005821 Chain length determinant protein; Region: Wzz; cl15801 319225005822 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 319225005823 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 319225005824 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 319225005825 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 319225005826 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 319225005827 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 319225005828 non-specific DNA binding site [nucleotide binding]; other site 319225005829 salt bridge; other site 319225005830 sequence-specific DNA binding site [nucleotide binding]; other site 319225005831 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 319225005832 active site 319225005833 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 319225005834 non-specific DNA binding site [nucleotide binding]; other site 319225005835 salt bridge; other site 319225005836 sequence-specific DNA binding site [nucleotide binding]; other site 319225005837 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 319225005838 PAS domain; Region: PAS_9; pfam13426 319225005839 putative active site [active] 319225005840 heme pocket [chemical binding]; other site 319225005841 GAF domain; Region: GAF_2; pfam13185 319225005842 Uncharacterized conserved protein [Function unknown]; Region: COG4715 319225005843 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 319225005844 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 319225005845 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 319225005846 RloB-like protein; Region: RloB; pfam13707 319225005847 AAA ATPase domain; Region: AAA_15; pfam13175 319225005848 AAA domain; Region: AAA_21; pfam13304 319225005849 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225005850 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 319225005851 active site 319225005852 nucleotide binding site [chemical binding]; other site 319225005853 HIGH motif; other site 319225005854 KMSKS motif; other site 319225005855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 319225005856 Family of unknown function (DUF490); Region: DUF490; pfam04357 319225005857 mobile mystery protein A; Region: mob_myst_A; TIGR02612 319225005858 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 319225005859 non-specific DNA binding site [nucleotide binding]; other site 319225005860 salt bridge; other site 319225005861 sequence-specific DNA binding site [nucleotide binding]; other site 319225005862 Fic family protein [Function unknown]; Region: COG3177 319225005863 Fic/DOC family; Region: Fic; cl00960 319225005864 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 319225005865 non-specific DNA binding site [nucleotide binding]; other site 319225005866 salt bridge; other site 319225005867 sequence-specific DNA binding site [nucleotide binding]; other site 319225005868 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 319225005869 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 319225005870 Flavoprotein; Region: Flavoprotein; cl08021 319225005871 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 319225005872 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 319225005873 Fe-S cluster binding site [ion binding]; other site 319225005874 active site 319225005875 replicative DNA helicase; Region: DnaB; TIGR00665 319225005876 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 319225005877 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 319225005878 Walker A motif; other site 319225005879 ATP binding site [chemical binding]; other site 319225005880 Walker B motif; other site 319225005881 DNA binding loops [nucleotide binding] 319225005882 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 319225005883 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 319225005884 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 319225005885 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; cl09155 319225005886 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 319225005887 HipA N-terminal domain; Region: Couple_hipA; cl11853 319225005888 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 319225005889 HipA-like N-terminal domain; Region: HipA_N; pfam07805 319225005890 HipA-like C-terminal domain; Region: HipA_C; pfam07804 319225005891 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319225005892 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 319225005893 PemK-like protein; Region: PemK; cl00995 319225005894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225005895 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319225005896 SurA N-terminal domain; Region: SurA_N_3; cl07813 319225005897 PPIC-type PPIASE domain; Region: Rotamase; cl08278 319225005898 PPIC-type PPIASE domain; Region: Rotamase; cl08278 319225005899 PPIC-type PPIASE domain; Region: Rotamase; cl08278 319225005900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005901 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 319225005902 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 319225005903 GIY-YIG motif/motif A; other site 319225005904 putative active site [active] 319225005905 putative metal binding site [ion binding]; other site 319225005906 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 319225005907 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 319225005908 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 319225005909 P loop; other site 319225005910 GTP binding site [chemical binding]; other site 319225005911 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225005912 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319225005913 thiamine monophosphate kinase; Provisional; Region: PRK05731 319225005914 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 319225005915 ATP binding site [chemical binding]; other site 319225005916 dimerization interface [polypeptide binding]; other site 319225005917 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 319225005918 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 319225005919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225005920 catalytic residue [active] 319225005921 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 319225005922 Clp protease ATP binding subunit; Region: clpC; CHL00095 319225005923 Clp amino terminal domain; Region: Clp_N; pfam02861 319225005924 Clp amino terminal domain; Region: Clp_N; pfam02861 319225005925 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 319225005926 Walker A motif; other site 319225005927 ATP binding site [chemical binding]; other site 319225005928 Walker B motif; other site 319225005929 arginine finger; other site 319225005930 UvrB/uvrC motif; Region: UVR; pfam02151 319225005931 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 319225005932 Walker A motif; other site 319225005933 ATP binding site [chemical binding]; other site 319225005934 Walker B motif; other site 319225005935 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 319225005936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225005937 AAA domain; Region: AAA_28; pfam13521 319225005938 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 319225005939 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225005940 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 319225005941 catalytic triad [active] 319225005942 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 319225005943 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319225005944 putative NAD(P) binding site [chemical binding]; other site 319225005945 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 319225005946 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_11; cd08866 319225005947 putative hydrophobic ligand binding site [chemical binding]; other site 319225005948 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 319225005949 glycerol kinase; Provisional; Region: glpK; PRK00047 319225005950 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 319225005951 N- and C-terminal domain interface [polypeptide binding]; other site 319225005952 active site 319225005953 MgATP binding site [chemical binding]; other site 319225005954 catalytic site [active] 319225005955 metal binding site [ion binding]; metal-binding site 319225005956 glycerol binding site [chemical binding]; other site 319225005957 homotetramer interface [polypeptide binding]; other site 319225005958 homodimer interface [polypeptide binding]; other site 319225005959 FBP binding site [chemical binding]; other site 319225005960 protein IIAGlc interface [polypeptide binding]; other site 319225005961 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 319225005962 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 319225005963 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 319225005964 FeS/SAM binding site; other site 319225005965 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 319225005966 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 319225005967 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225005968 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; cl12031 319225005969 Transglycosylase; Region: Transgly; cl07896 319225005970 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 319225005971 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 319225005972 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 319225005973 GMP synthase; Reviewed; Region: guaA; PRK00074 319225005974 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 319225005975 AMP/PPi binding site [chemical binding]; other site 319225005976 candidate oxyanion hole; other site 319225005977 catalytic triad [active] 319225005978 potential glutamine specificity residues [chemical binding]; other site 319225005979 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 319225005980 ATP Binding subdomain [chemical binding]; other site 319225005981 Ligand Binding sites [chemical binding]; other site 319225005982 Dimerization subdomain; other site 319225005983 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 319225005984 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 319225005985 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 319225005986 phosphoserine phosphatase SerB; Region: serB; TIGR00338 319225005987 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 319225005988 motif II; other site 319225005989 DNA-directed RNA polymerase subunit D; Provisional; Region: PRK00783 319225005990 Ferredoxin [Energy production and conversion]; Region: COG1146 319225005991 4Fe-4S binding domain; Region: Fer4; cl02805 319225005992 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 319225005993 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 319225005994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005995 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225005996 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 319225005997 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 319225005998 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 formation of...; Region: AlaRS_core; cd00673 319225005999 motif 1; other site 319225006000 active site 319225006001 motif 2; other site 319225006002 motif 3; other site 319225006003 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 319225006004 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 319225006005 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 319225006006 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 319225006007 PYR/PP interface [polypeptide binding]; other site 319225006008 TPP binding site [chemical binding]; other site 319225006009 dimer interface [polypeptide binding]; other site 319225006010 substrate binding site [chemical binding]; other site 319225006011 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 319225006012 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 319225006013 TPP-binding site [chemical binding]; other site 319225006014 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 319225006015 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 319225006016 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 319225006017 IHF - DNA interface [nucleotide binding]; other site 319225006018 IHF dimer interface [polypeptide binding]; other site 319225006019 elongation factor P; Validated; Region: PRK00529 319225006020 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 319225006021 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 319225006022 RNA binding site [nucleotide binding]; other site 319225006023 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 319225006024 RNA binding site [nucleotide binding]; other site 319225006025 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 319225006026 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 319225006027 carboxyltransferase (CT) interaction site; other site 319225006028 biotinylation site [posttranslational modification]; other site 319225006029 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 319225006030 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319225006031 ATP-grasp domain; Region: ATP-grasp_4; cl03087 319225006032 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 319225006033 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 319225006034 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 319225006035 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 319225006036 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 319225006037 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 319225006038 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 319225006039 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 319225006040 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 319225006041 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 319225006042 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 319225006043 DNA binding site [nucleotide binding] 319225006044 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 319225006045 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; cl04593 319225006046 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 319225006047 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 319225006048 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; cl04593 319225006049 RPB11 interaction site [polypeptide binding]; other site 319225006050 RPB12 interaction site [polypeptide binding]; other site 319225006051 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 319225006052 RPB3 interaction site [polypeptide binding]; other site 319225006053 RPB1 interaction site [polypeptide binding]; other site 319225006054 RPB11 interaction site [polypeptide binding]; other site 319225006055 RPB10 interaction site [polypeptide binding]; other site 319225006056 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 319225006057 core dimer interface [polypeptide binding]; other site 319225006058 peripheral dimer interface [polypeptide binding]; other site 319225006059 L10 interface [polypeptide binding]; other site 319225006060 L11 interface [polypeptide binding]; other site 319225006061 putative EF-Tu interaction site [polypeptide binding]; other site 319225006062 putative EF-G interaction site [polypeptide binding]; other site 319225006063 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 319225006064 23S rRNA interface [nucleotide binding]; other site 319225006065 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 319225006066 mRNA/rRNA interface [nucleotide binding]; other site 319225006067 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 319225006068 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 319225006069 23S rRNA interface [nucleotide binding]; other site 319225006070 L7/L12 interface [polypeptide binding]; other site 319225006071 putative thiostrepton binding site; other site 319225006072 L25 interface [polypeptide binding]; other site 319225006073 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 319225006074 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 319225006075 putative homodimer interface [polypeptide binding]; other site 319225006076 KOW motif; Region: KOW; cl00354 319225006077 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 319225006078 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 319225006079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006080 NAD(P) binding site [chemical binding]; other site 319225006081 active site 319225006082 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 319225006083 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 319225006084 Septum formation initiator; Region: DivIC; cl11433 319225006085 enolase; Provisional; Region: eno; PRK00077 319225006086 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 319225006087 dimer interface [polypeptide binding]; other site 319225006088 metal binding site [ion binding]; metal-binding site 319225006089 substrate binding pocket [chemical binding]; other site 319225006090 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 319225006091 elongation factor G; Reviewed; Region: PRK12740 319225006092 G1 box; other site 319225006093 putative GEF interaction site [polypeptide binding]; other site 319225006094 GTP/Mg2+ binding site [chemical binding]; other site 319225006095 Switch I region; other site 319225006096 G2 box; other site 319225006097 G3 box; other site 319225006098 Switch II region; other site 319225006099 G4 box; other site 319225006100 G5 box; other site 319225006101 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 319225006102 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 319225006103 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 319225006104 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 319225006105 Ligand binding site; other site 319225006106 Putative Catalytic site; other site 319225006107 DXD motif; other site 319225006108 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 319225006109 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 319225006110 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 319225006111 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 319225006112 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 319225006113 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 319225006114 Rubredoxin; Region: Rubredoxin; pfam00301 319225006115 iron binding site [ion binding]; other site 319225006116 Transglycosylase; Region: Transgly; cl07896 319225006117 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 319225006118 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 319225006119 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 319225006120 ATP binding site [chemical binding]; other site 319225006121 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 319225006122 competence damage-inducible protein A; Provisional; Region: PRK00549 319225006123 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 319225006124 putative MPT binding site; other site 319225006125 Competence-damaged protein; Region: CinA; cl00666 319225006126 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 319225006127 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 319225006128 putative catalytic residues [active] 319225006129 putative nucleotide binding site [chemical binding]; other site 319225006130 putative aspartate binding site [chemical binding]; other site 319225006131 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 319225006132 dimer interface [polypeptide binding]; other site 319225006133 putative threonine allosteric regulatory site; other site 319225006134 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 319225006135 putative threonine allosteric regulatory site; other site 319225006136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006137 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 319225006138 ATP synthase; Region: ATP-synt; cl00365 319225006139 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 319225006140 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 319225006141 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 319225006142 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 319225006143 beta subunit interaction interface [polypeptide binding]; other site 319225006144 Walker A motif; other site 319225006145 ATP binding site [chemical binding]; other site 319225006146 Walker B motif; other site 319225006147 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319225006148 homoserine kinase; Provisional; Region: PRK01212 319225006149 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 319225006150 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 319225006151 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 319225006152 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 319225006153 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225006154 catalytic residue [active] 319225006155 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 319225006156 putative acyl-acceptor binding pocket; other site 319225006157 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 319225006158 homopentamer interface [polypeptide binding]; other site 319225006159 active site 319225006160 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 319225006161 dimer interface [polypeptide binding]; other site 319225006162 active site 319225006163 Ion transport protein; Region: Ion_trans; pfam00520 319225006164 Ion channel; Region: Ion_trans_2; cl11596 319225006165 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 319225006166 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 319225006167 substrate binding site [chemical binding]; other site 319225006168 active site 319225006169 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 319225006170 Cysteine-rich domain; Region: CCG; pfam02754 319225006171 Cysteine-rich domain; Region: CCG; pfam02754 319225006172 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 319225006173 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; cl00159 319225006174 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 319225006175 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 319225006176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006177 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319225006178 FOG: CBS domain [General function prediction only]; Region: COG0517 319225006179 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_17; cd04630 319225006180 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 319225006181 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 319225006182 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319225006183 Protein export membrane protein; Region: SecD_SecF; cl14618 319225006184 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225006185 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225006186 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 319225006187 putative homotetramer interface [polypeptide binding]; other site 319225006188 putative homodimer interface [polypeptide binding]; other site 319225006189 putative allosteric switch controlling residues; other site 319225006190 putative metal binding site [ion binding]; other site 319225006191 putative homodimer-homodimer interface [polypeptide binding]; other site 319225006192 Phosphotransferase enzyme family; Region: APH; pfam01636 319225006193 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 319225006194 substrate binding site [chemical binding]; other site 319225006195 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 319225006196 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 319225006197 Substrate binding site; other site 319225006198 metal-binding site 319225006199 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 319225006200 putative trimer interface [polypeptide binding]; other site 319225006201 putative CoA binding site [chemical binding]; other site 319225006202 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 319225006203 Sodium:solute symporter family; Region: SSF; cl00456 319225006204 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 319225006205 PAS fold; Region: PAS_3; pfam08447 319225006206 putative active site [active] 319225006207 heme pocket [chemical binding]; other site 319225006208 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319225006209 GAF domain; Region: GAF; cl15785 319225006210 GAF domain; Region: GAF_2; pfam13185 319225006211 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 319225006212 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319225006213 putative active site [active] 319225006214 heme pocket [chemical binding]; other site 319225006215 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 319225006216 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 319225006217 putative active site [active] 319225006218 heme pocket [chemical binding]; other site 319225006219 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 319225006220 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 319225006221 dimer interface [polypeptide binding]; other site 319225006222 phosphorylation site [posttranslational modification] 319225006223 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 319225006224 ATP binding site [chemical binding]; other site 319225006225 Mg2+ binding site [ion binding]; other site 319225006226 G-X-G motif; other site 319225006227 Response regulator receiver domain; Region: Response_reg; pfam00072 319225006228 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 319225006229 active site 319225006230 phosphorylation site [posttranslational modification] 319225006231 intermolecular recognition site; other site 319225006232 dimerization interface [polypeptide binding]; other site 319225006233 Response regulator receiver domain; Region: Response_reg; pfam00072 319225006234 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 319225006235 active site 319225006236 phosphorylation site [posttranslational modification] 319225006237 intermolecular recognition site; other site 319225006238 dimerization interface [polypeptide binding]; other site 319225006239 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 319225006240 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 319225006241 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319225006242 NAD(P) binding site [chemical binding]; other site 319225006243 putative active site [active] 319225006244 secreted effector protein PipB2; Provisional; Region: PRK15196 319225006245 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006246 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006247 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 319225006248 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006249 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006250 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 319225006251 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006252 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 319225006253 putative active site [active] 319225006254 heme pocket [chemical binding]; other site 319225006255 potassium uptake protein; Region: kup; TIGR00794 319225006256 K+ potassium transporter; Region: K_trans; cl15781 319225006257 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 319225006258 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 319225006259 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 319225006260 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 319225006261 active site 319225006262 ADP/pyrophosphate binding site [chemical binding]; other site 319225006263 dimerization interface [polypeptide binding]; other site 319225006264 allosteric effector site; other site 319225006265 fructose-1,6-bisphosphate binding site; other site 319225006266 Virulence protein [General function prediction only]; Region: COG3943 319225006267 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 319225006268 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 319225006269 trmE is a tRNA modification GTPase; Region: trmE; cd04164 319225006270 G1 box; other site 319225006271 GTP/Mg2+ binding site [chemical binding]; other site 319225006272 Switch I region; other site 319225006273 G2 box; other site 319225006274 Switch II region; other site 319225006275 G3 box; other site 319225006276 G4 box; other site 319225006277 G5 box; other site 319225006278 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 319225006279 classical (c) SDRs; Region: SDR_c; cd05233 319225006280 NAD(P) binding site [chemical binding]; other site 319225006281 active site 319225006282 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 319225006283 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 319225006284 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 319225006285 Predicted esterase [General function prediction only]; Region: COG0400 319225006286 trehalose synthase; Region: treS_nterm; TIGR02456 319225006287 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 319225006288 active site 319225006289 catalytic site [active] 319225006290 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 319225006291 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 319225006292 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 319225006293 active site 319225006294 homodimer interface [polypeptide binding]; other site 319225006295 catalytic site [active] 319225006296 acceptor binding site [chemical binding]; other site 319225006297 peptide chain release factor 2; Validated; Region: prfB; PRK00578 319225006298 RF-1 domain; Region: RF-1; cl02875 319225006299 RF-1 domain; Region: RF-1; cl02875 319225006300 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 319225006301 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319225006302 active site 319225006303 metal binding site [ion binding]; metal-binding site 319225006304 Peptidase family M23; Region: Peptidase_M23; pfam01551 319225006305 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 319225006306 OstA-like protein; Region: OstA_2; pfam13100 319225006307 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 319225006308 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 319225006309 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 319225006310 Recombination protein O N terminal; Region: RecO_N; cl15812 319225006311 Recombination protein O C terminal; Region: RecO_C; pfam02565 319225006312 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 319225006313 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 319225006314 inhibitor-cofactor binding pocket; inhibition site 319225006315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225006316 catalytic residue [active] 319225006317 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 319225006318 CrcB-like protein; Region: CRCB; cl09114 319225006319 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 319225006320 molybdopterin cofactor binding site; other site 319225006321 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 319225006322 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 319225006323 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 319225006324 putative molybdopterin cofactor binding site; other site 319225006325 tetrathionate reductase subunit B; Provisional; Region: PRK14993 319225006326 4Fe-4S binding domain; Region: Fer4; cl02805 319225006327 Polysulphide reductase, NrfD; Region: NrfD; cl01295 319225006328 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 319225006329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006330 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 includes...; Region: RuvC_resolvase; cl00243 319225006331 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 319225006332 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225006333 active site 319225006334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006335 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 319225006336 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 319225006337 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 319225006338 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 319225006339 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 319225006340 NeuB family; Region: NeuB; cl00496 319225006341 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 319225006342 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 319225006343 Walker A motif; other site 319225006344 ATP binding site [chemical binding]; other site 319225006345 Walker B motif; other site 319225006346 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 319225006347 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 319225006348 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 319225006349 catalytic core [active] 319225006350 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 319225006351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006352 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 319225006353 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 319225006354 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 319225006355 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 319225006356 dimerization interface [polypeptide binding]; other site 319225006357 putative ATP binding site [chemical binding]; other site 319225006358 aspartate kinase III; Validated; Region: PRK09084 319225006359 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 319225006360 nucleotide binding site [chemical binding]; other site 319225006361 substrate binding site [chemical binding]; other site 319225006362 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 319225006363 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 319225006364 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 319225006365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006366 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 319225006367 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 319225006368 S-adenosylmethionine binding site [chemical binding]; other site 319225006369 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 319225006370 AMP-binding enzyme; Region: AMP-binding; cl15778 319225006371 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 319225006372 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 319225006373 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 319225006374 inhibitor-cofactor binding pocket; inhibition site 319225006375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225006376 catalytic residue [active] 319225006377 AAA domain; Region: AAA_26; pfam13500 319225006378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 319225006379 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 319225006380 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 319225006381 S-adenosylmethionine binding site [chemical binding]; other site 319225006382 Protein of unknown function (DUF452); Region: DUF452; cl01062 319225006383 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 319225006384 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 319225006385 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319225006386 catalytic residue [active] 319225006387 biotin synthase; Region: bioB; TIGR00433 319225006388 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 319225006389 FeS/SAM binding site; other site 319225006390 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 319225006391 Helix-turn-helix domains; Region: HTH; cl00088 319225006392 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 319225006393 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 319225006394 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 319225006395 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 319225006396 active site 319225006397 metal binding site [ion binding]; metal-binding site 319225006398 DNA topoisomerase I; Validated; Region: PRK06599 319225006399 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 319225006400 active site 319225006401 interdomain interaction site; other site 319225006402 putative metal-binding site [ion binding]; other site 319225006403 nucleotide binding site [chemical binding]; other site 319225006404 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 319225006405 domain I; other site 319225006406 DNA binding groove [nucleotide binding] 319225006407 phosphate binding site [ion binding]; other site 319225006408 domain II; other site 319225006409 domain III; other site 319225006410 nucleotide binding site [chemical binding]; other site 319225006411 catalytic site [active] 319225006412 domain IV; other site 319225006413 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319225006414 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319225006415 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319225006416 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 319225006417 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 319225006418 G1 box; other site 319225006419 GTP/Mg2+ binding site [chemical binding]; other site 319225006420 Switch I region; other site 319225006421 G2 box; other site 319225006422 G3 box; other site 319225006423 Switch II region; other site 319225006424 G4 box; other site 319225006425 G5 box; other site 319225006426 Nucleoside recognition; Region: Gate; cl00486 319225006427 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 319225006428 Nucleoside recognition; Region: Gate; cl00486 319225006429 FeoA domain; Region: FeoA; cl00838 319225006430 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 319225006431 nucleotide binding site/active site [active] 319225006432 HIT family signature motif; other site 319225006433 catalytic residue [active] 319225006434 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 319225006435 Domain of unknown function DUF21; Region: DUF21; pfam01595 319225006436 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 319225006437 Transporter associated domain; Region: CorC_HlyC; cl08393 319225006438 Cupin domain; Region: Cupin_2; cl09118 319225006439 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 319225006440 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 319225006441 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; cl00159 319225006442 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 319225006443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006444 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319225006445 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 319225006446 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 319225006447 putative Iron-sulfur protein interface [polypeptide binding]; other site 319225006448 proximal heme binding site [chemical binding]; other site 319225006449 distal heme binding site [chemical binding]; other site 319225006450 putative dimer interface [polypeptide binding]; other site 319225006451 Putative cyclase; Region: Cyclase; cl00814 319225006452 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 319225006453 Dihydroorotate dehydrogenase (DHOD) like proteins. 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...; Region: DHOD_like; cd04739 319225006454 putative active site [active] 319225006455 putative FMN binding site [chemical binding]; other site 319225006456 putative substrate binding site [chemical binding]; other site 319225006457 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; cl15837 319225006458 dimer interface [polypeptide binding]; other site 319225006459 Alkaline phosphatase homologues; Region: alkPPc; smart00098 319225006460 active site 319225006461 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; cl15837 319225006462 Esterase/lipase [General function prediction only]; Region: COG1647 319225006463 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; cl12031 319225006464 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 319225006465 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 319225006466 active site 319225006467 intersubunit interactions; other site 319225006468 catalytic residue [active] 319225006469 Deoxyhypusine synthase; Region: DS; cl00826 319225006470 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 319225006471 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 319225006472 active site 319225006473 HIGH motif; other site 319225006474 dimer interface [polypeptide binding]; other site 319225006475 KMSKS motif; other site 319225006476 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 319225006477 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 319225006478 motif II; other site 319225006479 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 319225006480 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 319225006481 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 319225006482 active site 319225006483 HIGH motif; other site 319225006484 KMSK motif region; other site 319225006485 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 319225006486 tRNA binding surface [nucleotide binding]; other site 319225006487 anticodon binding site; other site 319225006488 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 319225006489 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 319225006490 active site 319225006491 (T/H)XGH motif; other site 319225006492 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 319225006493 Plant ATP synthase F0; Region: YMF19; cl07975 319225006494 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 319225006495 Plant ATP synthase F0; Region: YMF19; cl07975 319225006496 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 319225006497 ATP synthase subunit C; Region: ATP-synt_C; cl00466 319225006498 ATP synthase A chain; Region: ATP-synt_A; cl00413 319225006499 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 319225006500 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 319225006501 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 319225006502 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 319225006503 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; cl15754 319225006504 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 319225006505 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 319225006506 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 319225006507 cell division protein FtsZ; Validated; Region: PRK09330 319225006508 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 319225006509 nucleotide binding site [chemical binding]; other site 319225006510 SulA interaction site; other site 319225006511 cell division protein FtsA; Region: ftsA; TIGR01174 319225006512 Cell division protein FtsA; Region: FtsA; cl11496 319225006513 Cell division protein FtsA; Region: FtsA; cl11496 319225006514 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 319225006515 FAD binding domain; Region: FAD_binding_4; pfam01565 319225006516 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 319225006517 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319225006518 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225006519 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225006520 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 319225006521 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 319225006522 active site 319225006523 homodimer interface [polypeptide binding]; other site 319225006524 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 319225006525 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 319225006526 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225006527 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225006528 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 319225006529 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 319225006530 Mg++ binding site [ion binding]; other site 319225006531 putative catalytic motif [active] 319225006532 putative substrate binding site [chemical binding]; other site 319225006533 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 319225006534 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319225006535 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225006536 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225006537 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 319225006538 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319225006539 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225006540 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225006541 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 319225006542 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 319225006543 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 319225006544 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 319225006545 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 319225006546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006547 cell division protein MraZ; Reviewed; Region: PRK00326 319225006548 MraZ protein; Region: MraZ; pfam02381 319225006549 MraZ protein; Region: MraZ; pfam02381 319225006550 YacP-like NYN domain; Region: NYN_YacP; cl01491 319225006551 Chorismate mutase type II; Region: CM_2; cl00693 319225006552 YceG-like family; Region: YceG; pfam02618 319225006553 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 319225006554 dimerization interface [polypeptide binding]; other site 319225006555 Phosphoglycerate kinase; Region: PGK; pfam00162 319225006556 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 319225006557 substrate binding site [chemical binding]; other site 319225006558 hinge regions; other site 319225006559 ADP binding site [chemical binding]; other site 319225006560 catalytic site [active] 319225006561 Rhomboid family; Region: Rhomboid; cl11446 319225006562 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 319225006563 TRAM domain; Region: TRAM; cl01282 319225006564 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 319225006565 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; cl15754 319225006566 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 319225006567 S-adenosylmethionine binding site [chemical binding]; other site 319225006568 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 319225006569 fructokinase; Reviewed; Region: PRK09557 319225006570 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 319225006571 active site 319225006572 membrane protein insertase; Provisional; Region: PRK01318 319225006573 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 319225006574 Haemolytic domain; Region: Haemolytic; cl00506 319225006575 Ribonuclease P; Region: Ribonuclease_P; cl00457 319225006576 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 319225006577 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 319225006578 DnaA N-terminal domain; Region: DnaA_N; pfam11638 319225006579 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 319225006580 Walker A motif; other site 319225006581 ATP binding site [chemical binding]; other site 319225006582 Walker B motif; other site 319225006583 arginine finger; other site 319225006584 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 319225006585 DnaA box-binding interface [nucleotide binding]; other site