-- dump date 20140619_041115 -- 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 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225000009 Walker A/P-loop; other site 319225000010 ATP binding site [chemical binding]; other site 319225000011 Q-loop/lid; other site 319225000012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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; pfam05258 319225000019 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 319225000020 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 319225000021 Flavodoxin-like fold; Region: Flavodoxin_2; 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 elongation subunit (family B) [DNA replication, recombination, and repair]; Region: PolB; COG0417 319225000027 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 319225000028 active site 319225000029 metal-binding site 319225000030 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 319225000031 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 319225000032 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 319225000033 protein-export membrane protein SecD; Region: secD; TIGR01129 319225000034 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 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; pfam02355 319225000038 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 319225000039 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 319225000040 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 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 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 319225000059 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 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 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 319225000068 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 319225000069 protein binding site [polypeptide binding]; other site 319225000070 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 319225000071 Catalytic dyad [active] 319225000072 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 319225000073 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 319225000074 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 319225000075 glycyl-tRNA synthetase; Provisional; Region: PRK04173 319225000076 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 319225000077 motif 1; other site 319225000078 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 319225000079 active site 319225000080 motif 2; other site 319225000081 motif 3; other site 319225000082 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 319225000083 anticodon binding site; other site 319225000084 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 319225000085 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 319225000086 dimer interface [polypeptide binding]; other site 319225000087 catalytic triad [active] 319225000088 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 319225000089 gamma subunit interface [polypeptide binding]; other site 319225000090 epsilon subunit interface [polypeptide binding]; other site 319225000091 LBP interface [polypeptide binding]; other site 319225000092 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 319225000093 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 319225000094 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 319225000095 alpha subunit interaction interface [polypeptide binding]; other site 319225000096 Walker A motif; other site 319225000097 ATP binding site [chemical binding]; other site 319225000098 Walker B motif; other site 319225000099 inhibitor binding site; inhibition site 319225000100 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319225000101 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 319225000102 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319225000103 catalytic residues [active] 319225000104 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 319225000105 active site 319225000106 substrate-binding site [chemical binding]; other site 319225000107 metal-binding site [ion binding] 319225000108 GTP binding site [chemical binding]; other site 319225000109 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 319225000110 Dodecin; Region: Dodecin; pfam07311 319225000111 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 319225000112 4Fe-4S binding domain; Region: Fer4; cl02805 319225000113 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 319225000114 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 319225000115 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 319225000116 molybdopterin cofactor binding site; other site 319225000117 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 319225000118 putative molybdopterin cofactor binding site; other site 319225000119 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 319225000120 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 319225000121 active site residue [active] 319225000122 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 319225000123 CPxP motif; other site 319225000124 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 319225000125 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 319225000126 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 319225000127 catalytic triad [active] 319225000128 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 319225000129 DsrC like protein; Region: DsrC; pfam04358 319225000130 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 319225000131 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 319225000132 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 319225000133 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 319225000134 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 319225000135 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319225000136 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 319225000137 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 319225000138 DsrH like protein; Region: DsrH; pfam04077 319225000139 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 319225000140 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 319225000141 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 319225000142 Cysteine-rich domain; Region: CCG; pfam02754 319225000143 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 319225000144 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 319225000145 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 319225000146 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 319225000147 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 319225000148 active site 319225000149 SAM binding site [chemical binding]; other site 319225000150 homodimer interface [polypeptide binding]; other site 319225000151 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 319225000152 active site 319225000153 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 319225000154 H+ Antiporter protein; Region: 2A0121; TIGR00900 319225000155 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 319225000156 putative substrate translocation pore; other site 319225000157 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 319225000158 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 319225000159 putative substrate translocation pore; other site 319225000160 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 319225000161 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319225000162 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225000163 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 319225000164 Ligand Binding Site [chemical binding]; other site 319225000165 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 319225000166 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319225000167 GAF domain; Region: GAF_3; pfam13492 319225000168 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 319225000169 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 319225000170 Walker A motif; other site 319225000171 ATP binding site [chemical binding]; other site 319225000172 Walker B motif; other site 319225000173 arginine finger; other site 319225000174 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319225000175 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 319225000176 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 319225000177 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319225000178 NAD(P) binding site [chemical binding]; other site 319225000179 putative active site [active] 319225000180 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 319225000181 Low molecular weight phosphatase family; Region: LMWPc; cl00105 319225000182 active site 319225000183 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 319225000184 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 319225000185 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 319225000186 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 319225000187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000188 homodimer interface [polypeptide binding]; other site 319225000189 catalytic residue [active] 319225000190 ACT domain-containing protein [General function prediction only]; Region: COG4747 319225000191 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 319225000192 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 319225000193 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 319225000194 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 319225000195 acyl-activating enzyme (AAE) consensus motif; other site 319225000196 AMP binding site [chemical binding]; other site 319225000197 active site 319225000198 CoA binding site [chemical binding]; other site 319225000199 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 319225000200 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 319225000201 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 319225000202 dimer interface [polypeptide binding]; other site 319225000203 PYR/PP interface [polypeptide binding]; other site 319225000204 TPP binding site [chemical binding]; other site 319225000205 substrate binding site [chemical binding]; other site 319225000206 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 319225000207 TPP-binding site; other site 319225000208 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 319225000209 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225000210 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 319225000211 P loop; other site 319225000212 Nucleotide binding site [chemical binding]; other site 319225000213 DTAP/Switch II; other site 319225000214 Switch I; other site 319225000215 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 319225000216 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 319225000217 putative FMN binding site [chemical binding]; other site 319225000218 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 319225000219 peptide chain release factor 1; Validated; Region: prfA; PRK00591 319225000220 PCRF domain; Region: PCRF; pfam03462 319225000221 RF-1 domain; Region: RF-1; pfam00472 319225000222 RIP metalloprotease RseP; Region: TIGR00054 319225000223 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 319225000224 active site 319225000225 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 319225000226 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 319225000227 protein binding site [polypeptide binding]; other site 319225000228 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 319225000229 putative substrate binding region [chemical binding]; other site 319225000230 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 319225000231 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 319225000232 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 319225000233 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 319225000234 FtsH Extracellular; Region: FtsH_ext; pfam06480 319225000235 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 319225000236 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 319225000237 Walker B motif; other site 319225000238 arginine finger; other site 319225000239 Peptidase family M41; Region: Peptidase_M41; pfam01434 319225000240 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 319225000241 active site 319225000242 dimer interface [polypeptide binding]; other site 319225000243 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 319225000244 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 319225000245 glutaminase active site [active] 319225000246 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 319225000247 dimer interface [polypeptide binding]; other site 319225000248 active site 319225000249 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 319225000250 dimer interface [polypeptide binding]; other site 319225000251 active site 319225000252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 319225000253 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 319225000254 putative dimer interface [polypeptide binding]; other site 319225000255 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 319225000256 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 319225000257 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 319225000258 TIGR01777 family protein; Region: yfcH 319225000259 putative NAD(P) binding site [chemical binding]; other site 319225000260 putative active site [active] 319225000261 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 319225000262 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 319225000263 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319225000264 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 319225000265 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 319225000266 active site 319225000267 TPR repeat; Region: TPR_11; pfam13414 319225000268 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 319225000269 binding surface 319225000270 TPR motif; other site 319225000271 TPR repeat; Region: TPR_11; pfam13414 319225000272 TPR repeat; Region: TPR_11; pfam13414 319225000273 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 319225000274 binding surface 319225000275 TPR motif; other site 319225000276 ScpA/B protein; Region: ScpA_ScpB; cl00598 319225000277 Uncharacterized conserved protein [Function unknown]; Region: COG4198 319225000278 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 319225000279 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 319225000280 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 319225000281 Glycoprotease family; Region: Peptidase_M22; pfam00814 319225000282 Oligomerisation domain; Region: Oligomerisation; pfam02410 319225000283 DNA gyrase subunit A; Validated; Region: PRK05560 319225000284 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 319225000285 CAP-like domain; other site 319225000286 active site 319225000287 primary dimer interface [polypeptide binding]; other site 319225000288 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000289 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000290 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000291 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000292 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 319225000293 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 319225000294 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 319225000295 CTP synthetase; Validated; Region: pyrG; PRK05380 319225000296 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 319225000297 Catalytic site [active] 319225000298 active site 319225000299 UTP binding site [chemical binding]; other site 319225000300 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 319225000301 active site 319225000302 putative oxyanion hole; other site 319225000303 catalytic triad [active] 319225000304 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319225000305 Sulfatase; Region: Sulfatase; cl17466 319225000306 Ferrochelatase; Region: Ferrochelatase; pfam00762 319225000307 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 319225000308 C-terminal domain interface [polypeptide binding]; other site 319225000309 active site 319225000310 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 319225000311 active site 319225000312 N-terminal domain interface [polypeptide binding]; other site 319225000313 4Fe-4S binding domain; Region: Fer4; cl02805 319225000314 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 319225000315 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 319225000316 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 319225000317 heme binding site [chemical binding]; other site 319225000318 ferroxidase pore; other site 319225000319 ferroxidase diiron center [ion binding]; other site 319225000320 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 319225000321 aromatic arch; other site 319225000322 DCoH dimer interaction site [polypeptide binding]; other site 319225000323 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 319225000324 DCoH tetramer interaction site [polypeptide binding]; other site 319225000325 substrate binding site [chemical binding]; other site 319225000326 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 319225000327 Catalytic site [active] 319225000328 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225000329 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 319225000330 active site 319225000331 phosphorylation site [posttranslational modification] 319225000332 intermolecular recognition site; other site 319225000333 dimerization interface [polypeptide binding]; other site 319225000334 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 319225000335 DNA binding site [nucleotide binding] 319225000336 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 319225000337 active site 319225000338 Domain of Unknown Function (DUF3856); Region: DUF3856; pfam12968 319225000339 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 319225000340 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 319225000341 putative active site [active] 319225000342 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 319225000343 putative catalytic site [active] 319225000344 putative metal binding site [ion binding]; other site 319225000345 putative phosphate binding site [ion binding]; other site 319225000346 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 319225000347 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 319225000348 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 319225000349 dimer interface [polypeptide binding]; other site 319225000350 ssDNA binding site [nucleotide binding]; other site 319225000351 tetramer (dimer of dimers) interface [polypeptide binding]; other site 319225000352 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 319225000353 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 319225000354 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 319225000355 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 319225000356 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 319225000357 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 319225000358 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 319225000359 dimer interface [polypeptide binding]; other site 319225000360 motif 1; other site 319225000361 active site 319225000362 motif 2; other site 319225000363 motif 3; other site 319225000364 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 319225000365 23S rRNA binding site [nucleotide binding]; other site 319225000366 L21 binding site [polypeptide binding]; other site 319225000367 L13 binding site [polypeptide binding]; other site 319225000368 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 319225000369 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 319225000370 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 319225000371 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 319225000372 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 319225000373 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 319225000374 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 319225000375 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 319225000376 active site 319225000377 dimer interface [polypeptide binding]; other site 319225000378 motif 1; other site 319225000379 motif 2; other site 319225000380 motif 3; other site 319225000381 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 319225000382 anticodon binding site; other site 319225000383 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 319225000384 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 319225000385 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 319225000386 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 319225000387 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 319225000388 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 319225000389 active site 319225000390 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 319225000391 tetramer interface [polypeptide binding]; other site 319225000392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000393 catalytic residue [active] 319225000394 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 319225000395 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 319225000396 dimerization interface [polypeptide binding]; other site 319225000397 active site 319225000398 metal binding site [ion binding]; metal-binding site 319225000399 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 319225000400 dsRNA binding site [nucleotide binding]; other site 319225000401 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 319225000402 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 319225000403 dimer interface [polypeptide binding]; other site 319225000404 active site 319225000405 acyl carrier protein; Provisional; Region: acpP; PRK00982 319225000406 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 319225000407 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 319225000408 NAD(P) binding site [chemical binding]; other site 319225000409 homotetramer interface [polypeptide binding]; other site 319225000410 homodimer interface [polypeptide binding]; other site 319225000411 active site 319225000412 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 319225000413 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 319225000414 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 319225000415 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 319225000416 dimer interface [polypeptide binding]; other site 319225000417 active site 319225000418 CoA binding pocket [chemical binding]; other site 319225000419 putative phosphate acyltransferase; Provisional; Region: PRK05331 319225000420 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 319225000421 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 319225000422 META domain; Region: META; pfam03724 319225000423 2-isopropylmalate synthase; Validated; Region: PRK03739 319225000424 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 319225000425 active site 319225000426 catalytic residues [active] 319225000427 metal binding site [ion binding]; metal-binding site 319225000428 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 319225000429 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 319225000430 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 319225000431 putative metal binding residues [ion binding]; other site 319225000432 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 319225000433 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 319225000434 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 319225000435 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 319225000436 ABC-ATPase subunit interface; other site 319225000437 dimer interface [polypeptide binding]; other site 319225000438 putative PBP binding regions; other site 319225000439 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 319225000440 Ligand Binding Site [chemical binding]; other site 319225000441 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional; Region: PRK14490 319225000442 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 319225000443 Walker A motif; other site 319225000444 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 319225000445 GTP binding site; other site 319225000446 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 319225000447 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 319225000448 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 319225000449 active site 319225000450 catalytic site [active] 319225000451 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 319225000452 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 319225000453 trimer interface [polypeptide binding]; other site 319225000454 dimer interface [polypeptide binding]; other site 319225000455 putative active site [active] 319225000456 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 319225000457 MPT binding site; other site 319225000458 trimer interface [polypeptide binding]; other site 319225000459 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 319225000460 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 319225000461 dimer interface [polypeptide binding]; other site 319225000462 putative functional site; other site 319225000463 putative MPT binding site; other site 319225000464 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 319225000465 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 319225000466 Uncharacterized conserved protein [Function unknown]; Region: COG4095 319225000467 Cytochrome c; Region: Cytochrom_C; cl11414 319225000468 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 319225000469 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 319225000470 B12 binding site [chemical binding]; other site 319225000471 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 319225000472 Radical SAM superfamily; Region: Radical_SAM; pfam04055 319225000473 FeS/SAM binding site; other site 319225000474 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 319225000475 homodimer interface [polypeptide binding]; other site 319225000476 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000477 catalytic residue [active] 319225000478 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 319225000479 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 319225000480 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 319225000481 catalytic site [active] 319225000482 subunit interface [polypeptide binding]; other site 319225000483 Preprotein translocase subunit; Region: YajC; pfam02699 319225000484 UGMP family protein; Validated; Region: PRK09604 319225000485 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 319225000486 Clp amino terminal domain; Region: Clp_N; pfam02861 319225000487 Clp amino terminal domain; Region: Clp_N; pfam02861 319225000488 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 319225000489 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 319225000490 Walker A motif; other site 319225000491 ATP binding site [chemical binding]; other site 319225000492 Walker B motif; other site 319225000493 arginine finger; other site 319225000494 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 319225000495 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 319225000496 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 319225000497 GatB domain; Region: GatB_Yqey; smart00845 319225000498 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 319225000499 GTPase CgtA; Reviewed; Region: obgE; PRK12299 319225000500 GTP1/OBG; Region: GTP1_OBG; pfam01018 319225000501 Obg GTPase; Region: Obg; cd01898 319225000502 G1 box; other site 319225000503 GTP/Mg2+ binding site [chemical binding]; other site 319225000504 Switch I region; other site 319225000505 G2 box; other site 319225000506 G3 box; other site 319225000507 Switch II region; other site 319225000508 G4 box; other site 319225000509 G5 box; other site 319225000510 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319225000511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319225000512 Coenzyme A binding pocket [chemical binding]; other site 319225000513 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 319225000514 dimerization domain swap beta strand [polypeptide binding]; other site 319225000515 regulatory protein interface [polypeptide binding]; other site 319225000516 active site 319225000517 regulatory phosphorylation site [posttranslational modification]; other site 319225000518 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 319225000519 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225000520 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225000521 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 319225000522 Probable Catalytic site; other site 319225000523 metal-binding site 319225000524 Methyltransferase domain; Region: Methyltransf_23; pfam13489 319225000525 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 319225000526 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225000527 putative homodimer interface [polypeptide binding]; other site 319225000528 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 319225000529 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 319225000530 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 319225000531 S17 interaction site [polypeptide binding]; other site 319225000532 S8 interaction site; other site 319225000533 16S rRNA interaction site [nucleotide binding]; other site 319225000534 streptomycin interaction site [chemical binding]; other site 319225000535 23S rRNA interaction site [nucleotide binding]; other site 319225000536 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 319225000537 30S ribosomal protein S7; Validated; Region: PRK05302 319225000538 elongation factor G; Reviewed; Region: PRK00007 319225000539 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 319225000540 G1 box; other site 319225000541 putative GEF interaction site [polypeptide binding]; other site 319225000542 GTP/Mg2+ binding site [chemical binding]; other site 319225000543 Switch I region; other site 319225000544 G2 box; other site 319225000545 G3 box; other site 319225000546 Switch II region; other site 319225000547 G4 box; other site 319225000548 G5 box; other site 319225000549 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 319225000550 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 319225000551 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 319225000552 elongation factor Tu; Reviewed; Region: PRK00049 319225000553 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 319225000554 G1 box; other site 319225000555 GEF interaction site [polypeptide binding]; other site 319225000556 GTP/Mg2+ binding site [chemical binding]; other site 319225000557 Switch I region; other site 319225000558 G2 box; other site 319225000559 G3 box; other site 319225000560 Switch II region; other site 319225000561 G4 box; other site 319225000562 G5 box; other site 319225000563 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 319225000564 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 319225000565 Antibiotic Binding Site [chemical binding]; other site 319225000566 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 319225000567 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 319225000568 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 319225000569 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 319225000570 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 319225000571 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 319225000572 putative translocon binding site; other site 319225000573 protein-rRNA interface [nucleotide binding]; other site 319225000574 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 319225000575 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 319225000576 G-X-X-G motif; other site 319225000577 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 319225000578 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 319225000579 23S rRNA interface [nucleotide binding]; other site 319225000580 5S rRNA interface [nucleotide binding]; other site 319225000581 putative antibiotic binding site [chemical binding]; other site 319225000582 L25 interface [polypeptide binding]; other site 319225000583 L27 interface [polypeptide binding]; other site 319225000584 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 319225000585 putative translocon interaction site; other site 319225000586 23S rRNA interface [nucleotide binding]; other site 319225000587 signal recognition particle (SRP54) interaction site; other site 319225000588 L23 interface [polypeptide binding]; other site 319225000589 trigger factor interaction site; other site 319225000590 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 319225000591 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 319225000592 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 319225000593 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 319225000594 RNA binding site [nucleotide binding]; other site 319225000595 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 319225000596 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 319225000597 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 319225000598 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 319225000599 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 319225000600 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 319225000601 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 319225000602 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 319225000603 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 319225000604 5S rRNA interface [nucleotide binding]; other site 319225000605 23S rRNA interface [nucleotide binding]; other site 319225000606 L5 interface [polypeptide binding]; other site 319225000607 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 319225000608 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 319225000609 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 319225000610 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 319225000611 23S rRNA binding site [nucleotide binding]; other site 319225000612 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 319225000613 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 319225000614 SecY translocase; Region: SecY; pfam00344 319225000615 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 319225000616 active site 319225000617 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 319225000618 rRNA binding site [nucleotide binding]; other site 319225000619 predicted 30S ribosome binding site; other site 319225000620 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 319225000621 30S ribosomal protein S13; Region: bact_S13; TIGR03631 319225000622 30S ribosomal protein S11; Validated; Region: PRK05309 319225000623 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 319225000624 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 319225000625 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 319225000626 RNA binding surface [nucleotide binding]; other site 319225000627 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 319225000628 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 319225000629 alphaNTD homodimer interface [polypeptide binding]; other site 319225000630 alphaNTD - beta interaction site [polypeptide binding]; other site 319225000631 alphaNTD - beta' interaction site [polypeptide binding]; other site 319225000632 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 319225000633 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 319225000634 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 319225000635 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 319225000636 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 319225000637 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 319225000638 Substrate binding site; other site 319225000639 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 319225000640 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 319225000641 active site 319225000642 HIGH motif; other site 319225000643 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 319225000644 KMSKS motif; other site 319225000645 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 319225000646 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 319225000647 G1 box; other site 319225000648 GTP/Mg2+ binding site [chemical binding]; other site 319225000649 Switch I region; other site 319225000650 G2 box; other site 319225000651 G3 box; other site 319225000652 Switch II region; other site 319225000653 G4 box; other site 319225000654 G5 box; other site 319225000655 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 319225000656 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 319225000657 GDP-binding site [chemical binding]; other site 319225000658 ACT binding site; other site 319225000659 IMP binding site; other site 319225000660 Domain of unknown function DUF77; Region: DUF77; pfam01910 319225000661 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 319225000662 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 319225000663 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 319225000664 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 319225000665 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 319225000666 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 319225000667 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 319225000668 P-loop; other site 319225000669 V4R domain; Region: V4R; cl15268 319225000670 Bacterial Ig-like domain; Region: Big_5; pfam13205 319225000671 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 319225000672 Bacterial Ig-like domain; Region: Big_5; pfam13205 319225000673 glycogen synthase; Provisional; Region: PRK14098 319225000674 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 319225000675 ADP-binding pocket [chemical binding]; other site 319225000676 homodimer interface [polypeptide binding]; other site 319225000677 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 319225000678 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 319225000679 active site 319225000680 motif I; other site 319225000681 motif II; other site 319225000682 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 319225000683 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 319225000684 FeS/SAM binding site; other site 319225000685 HemN C-terminal domain; Region: HemN_C; pfam06969 319225000686 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 319225000687 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 319225000688 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 319225000689 active site 319225000690 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 319225000691 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 319225000692 nucleotide binding site [chemical binding]; other site 319225000693 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 319225000694 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225000695 active site 319225000696 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 319225000697 RNA methyltransferase, RsmE family; Region: TIGR00046 319225000698 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 319225000699 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 319225000700 active site 319225000701 multimer interface [polypeptide binding]; other site 319225000702 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 319225000703 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 319225000704 catalytic triad [active] 319225000705 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 319225000706 Domain of unknown function DUF21; Region: DUF21; pfam01595 319225000707 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 319225000708 Transporter associated domain; Region: CorC_HlyC; smart01091 319225000709 Helix-turn-helix domain; Region: HTH_25; pfam13413 319225000710 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 319225000711 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 319225000712 dimer interface [polypeptide binding]; other site 319225000713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000714 catalytic residue [active] 319225000715 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 319225000716 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 319225000717 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319225000718 catalytic residue [active] 319225000719 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 319225000720 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 319225000721 trimerization site [polypeptide binding]; other site 319225000722 active site 319225000723 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 319225000724 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14340 319225000725 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 319225000726 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 319225000727 FeS/SAM binding site; other site 319225000728 TRAM domain; Region: TRAM; pfam01938 319225000729 bacteriochlorophyll c synthase; Provisional; Region: PRK12392 319225000730 UbiA prenyltransferase family; Region: UbiA; pfam01040 319225000731 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 319225000732 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319225000733 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 319225000734 putative active site [active] 319225000735 putative metal binding site [ion binding]; other site 319225000736 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 319225000737 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 319225000738 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 319225000739 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225000740 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 319225000741 active site 319225000742 FOG: WD40 repeat [General function prediction only]; Region: COG2319 319225000743 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 319225000744 structural tetrad; other site 319225000745 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 319225000746 DNA-binding site [nucleotide binding]; DNA binding site 319225000747 RNA-binding motif; other site 319225000748 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 319225000749 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 319225000750 hypothetical protein; Provisional; Region: PRK09256 319225000751 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 319225000752 Peptidase family M23; Region: Peptidase_M23; pfam01551 319225000753 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 319225000754 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 319225000755 putative dimer interface [polypeptide binding]; other site 319225000756 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 319225000757 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 319225000758 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 319225000759 FeS/SAM binding site; other site 319225000760 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 319225000761 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 319225000762 S-adenosylmethionine binding site [chemical binding]; other site 319225000763 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 319225000764 magnesium chelatase subunit H; Provisional; Region: PRK12493 319225000765 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 319225000766 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225000767 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225000768 magnesium chelatase, H subunit; Region: BchH; TIGR02025 319225000769 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225000770 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225000771 Cna protein B-type domain; Region: Cna_B_2; pfam13715 319225000772 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 319225000773 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 319225000774 N-terminal plug; other site 319225000775 ligand-binding site [chemical binding]; other site 319225000776 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 319225000777 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 319225000778 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319225000779 catalytic residue [active] 319225000780 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 319225000781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225000782 NAD(P) binding site [chemical binding]; other site 319225000783 active site 319225000784 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 319225000785 DNA polymerase III, delta subunit; Region: holA; TIGR01128 319225000786 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 319225000787 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 319225000788 dimer interface [polypeptide binding]; other site 319225000789 ssDNA binding site [nucleotide binding]; other site 319225000790 tetramer (dimer of dimers) interface [polypeptide binding]; other site 319225000791 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 319225000792 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 319225000793 FAD binding pocket [chemical binding]; other site 319225000794 FAD binding motif [chemical binding]; other site 319225000795 phosphate binding motif [ion binding]; other site 319225000796 beta-alpha-beta structure motif; other site 319225000797 NAD binding pocket [chemical binding]; other site 319225000798 Iron coordination center [ion binding]; other site 319225000799 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225000800 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 319225000801 P loop; other site 319225000802 Nucleotide binding site [chemical binding]; other site 319225000803 Switch I; other site 319225000804 Chlorosome envelope protein C; Region: Chlorosome_CsmC; pfam11098 319225000805 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 319225000806 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225000807 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 319225000808 P loop; other site 319225000809 Nucleotide binding site [chemical binding]; other site 319225000810 DTAP/Switch II; other site 319225000811 Switch I; other site 319225000812 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 319225000813 catalytic center binding site [active] 319225000814 ATP binding site [chemical binding]; other site 319225000815 Dihydroneopterin aldolase; Region: FolB; smart00905 319225000816 active site 319225000817 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 319225000818 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 319225000819 dimerization interface [polypeptide binding]; other site 319225000820 active site 319225000821 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14663 319225000822 trigger factor; Region: tig; TIGR00115 319225000823 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 319225000824 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 319225000825 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319225000826 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319225000827 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319225000828 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 319225000829 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 319225000830 putative NADP binding site [chemical binding]; other site 319225000831 putative substrate binding site [chemical binding]; other site 319225000832 active site 319225000833 recombinase A; Provisional; Region: recA; PRK09354 319225000834 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 319225000835 hexamer interface [polypeptide binding]; other site 319225000836 Walker A motif; other site 319225000837 ATP binding site [chemical binding]; other site 319225000838 Walker B motif; other site 319225000839 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 319225000840 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 319225000841 FMN binding site [chemical binding]; other site 319225000842 active site 319225000843 catalytic residues [active] 319225000844 substrate binding site [chemical binding]; other site 319225000845 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 319225000846 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 319225000847 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 319225000848 alanine racemase; Reviewed; Region: alr; PRK00053 319225000849 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 319225000850 active site 319225000851 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319225000852 dimer interface [polypeptide binding]; other site 319225000853 substrate binding site [chemical binding]; other site 319225000854 catalytic residues [active] 319225000855 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 319225000856 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 319225000857 dimer interface [polypeptide binding]; other site 319225000858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225000859 catalytic residue [active] 319225000860 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 319225000861 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 319225000862 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 319225000863 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 319225000864 hinge; other site 319225000865 active site 319225000866 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225000867 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 319225000868 TAP-like protein; Region: Abhydrolase_4; pfam08386 319225000869 YtxH-like protein; Region: YtxH; pfam12732 319225000870 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 319225000871 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319225000872 Zn2+ binding site [ion binding]; other site 319225000873 Mg2+ binding site [ion binding]; other site 319225000874 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 319225000875 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 319225000876 Walker A/P-loop; other site 319225000877 ATP binding site [chemical binding]; other site 319225000878 Q-loop/lid; other site 319225000879 ABC transporter signature motif; other site 319225000880 Walker B; other site 319225000881 D-loop; other site 319225000882 H-loop/switch region; other site 319225000883 Transcription elongation factor Spt4; Region: Spt4; cl12033 319225000884 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 319225000885 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 319225000886 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 319225000887 trimer interface [polypeptide binding]; other site 319225000888 putative metal binding site [ion binding]; other site 319225000889 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 319225000890 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319225000891 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319225000892 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 319225000893 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319225000894 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 319225000895 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 319225000896 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 319225000897 Peptidase family U32; Region: Peptidase_U32; pfam01136 319225000898 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 319225000899 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 319225000900 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 319225000901 Ligand Binding Site [chemical binding]; other site 319225000902 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 319225000903 AAA domain; Region: AAA_32; pfam13654 319225000904 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 319225000905 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 319225000906 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 319225000907 NAD(P) binding site [chemical binding]; other site 319225000908 catalytic residues [active] 319225000909 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 319225000910 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 319225000911 nucleophile elbow; other site 319225000912 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 319225000913 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 319225000914 putative deacylase active site [active] 319225000915 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225000916 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 319225000917 PAS domain S-box; Region: sensory_box; TIGR00229 319225000918 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 319225000919 dimer interface [polypeptide binding]; other site 319225000920 phosphorylation site [posttranslational modification] 319225000921 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 319225000922 ATP binding site [chemical binding]; other site 319225000923 Mg2+ binding site [ion binding]; other site 319225000924 G-X-G motif; other site 319225000925 Response regulator receiver domain; Region: Response_reg; pfam00072 319225000926 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 319225000927 active site 319225000928 phosphorylation site [posttranslational modification] 319225000929 intermolecular recognition site; other site 319225000930 dimerization interface [polypeptide binding]; other site 319225000931 Hpt domain; Region: Hpt; pfam01627 319225000932 putative binding surface; other site 319225000933 active site 319225000934 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 319225000935 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 319225000936 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 319225000937 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 319225000938 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 319225000939 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 319225000940 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 319225000941 putative active site [active] 319225000942 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 319225000943 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 319225000944 TPP-binding site [chemical binding]; other site 319225000945 dimer interface [polypeptide binding]; other site 319225000946 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 319225000947 PYR/PP interface [polypeptide binding]; other site 319225000948 dimer interface [polypeptide binding]; other site 319225000949 TPP binding site [chemical binding]; other site 319225000950 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 319225000951 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 319225000952 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 319225000953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 319225000954 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 319225000955 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 319225000956 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 319225000957 putative hydrophobic ligand binding site [chemical binding]; other site 319225000958 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 319225000959 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 319225000960 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 319225000961 substrate binding pocket [chemical binding]; other site 319225000962 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 319225000963 B12 binding site [chemical binding]; other site 319225000964 cobalt ligand [ion binding]; other site 319225000965 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 319225000966 Predicted esterase [General function prediction only]; Region: COG0400 319225000967 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 319225000968 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 319225000969 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 319225000970 Ligand Binding Site [chemical binding]; other site 319225000971 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 319225000972 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 319225000973 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 319225000974 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 319225000975 MgtE intracellular N domain; Region: MgtE_N; pfam03448 319225000976 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 319225000977 Divalent cation transporter; Region: MgtE; pfam01769 319225000978 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 319225000979 active site 319225000980 DNA binding site [nucleotide binding] 319225000981 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 319225000982 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 319225000983 P-loop; other site 319225000984 Magnesium ion binding site [ion binding]; other site 319225000985 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 319225000986 Magnesium ion binding site [ion binding]; other site 319225000987 ParB-like nuclease domain; Region: ParB; smart00470 319225000988 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 319225000989 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 319225000990 dihydrodipicolinate reductase; Provisional; Region: PRK00048 319225000991 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 319225000992 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 319225000993 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 319225000994 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 319225000995 acyl-activating enzyme (AAE) consensus motif; other site 319225000996 putative AMP binding site [chemical binding]; other site 319225000997 putative active site [active] 319225000998 putative CoA binding site [chemical binding]; other site 319225000999 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 319225001000 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 319225001001 active site 319225001002 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 319225001003 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 319225001004 substrate binding site [chemical binding]; other site 319225001005 oxyanion hole (OAH) forming residues; other site 319225001006 trimer interface [polypeptide binding]; other site 319225001007 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 319225001008 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 319225001009 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 319225001010 active site 319225001011 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 319225001012 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 319225001013 dimer interface [polypeptide binding]; other site 319225001014 tetramer interface [polypeptide binding]; other site 319225001015 PYR/PP interface [polypeptide binding]; other site 319225001016 TPP binding site [chemical binding]; other site 319225001017 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 319225001018 TPP-binding site; other site 319225001019 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 319225001020 chorismate binding enzyme; Region: Chorismate_bind; cl10555 319225001021 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 319225001022 binding surface 319225001023 Tetratricopeptide repeat; Region: TPR_16; pfam13432 319225001024 TPR motif; other site 319225001025 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 319225001026 binding surface 319225001027 TPR motif; other site 319225001028 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 319225001029 metal-binding site [ion binding] 319225001030 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 319225001031 putative metal binding site [ion binding]; other site 319225001032 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 319225001033 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 319225001034 Citrate synthase; Region: Citrate_synt; pfam00285 319225001035 oxalacetate binding site [chemical binding]; other site 319225001036 citrylCoA binding site [chemical binding]; other site 319225001037 coenzyme A binding site [chemical binding]; other site 319225001038 catalytic triad [active] 319225001039 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 319225001040 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 319225001041 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 319225001042 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 319225001043 Ligand binding site; other site 319225001044 oligomer interface; other site 319225001045 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 319225001046 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 319225001047 generic binding surface II; other site 319225001048 generic binding surface I; other site 319225001049 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 319225001050 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 319225001051 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 319225001052 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 319225001053 dimer interface [polypeptide binding]; other site 319225001054 phosphorylation site [posttranslational modification] 319225001055 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 319225001056 ATP binding site [chemical binding]; other site 319225001057 Mg2+ binding site [ion binding]; other site 319225001058 G-X-G motif; other site 319225001059 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319225001060 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 319225001061 active site 319225001062 phosphorylation site [posttranslational modification] 319225001063 intermolecular recognition site; other site 319225001064 dimerization interface [polypeptide binding]; other site 319225001065 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 319225001066 Walker A motif; other site 319225001067 ATP binding site [chemical binding]; other site 319225001068 Walker B motif; other site 319225001069 arginine finger; other site 319225001070 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319225001071 ribosome recycling factor; Reviewed; Region: frr; PRK00083 319225001072 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 319225001073 hinge region; other site 319225001074 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 319225001075 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 319225001076 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 319225001077 generic binding surface II; other site 319225001078 ssDNA binding site; other site 319225001079 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 319225001080 ATP binding site [chemical binding]; other site 319225001081 putative Mg++ binding site [ion binding]; other site 319225001082 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 319225001083 nucleotide binding region [chemical binding]; other site 319225001084 ATP-binding site [chemical binding]; other site 319225001085 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 319225001086 GTPase RsgA; Reviewed; Region: PRK00098 319225001087 RNA binding site [nucleotide binding]; other site 319225001088 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 319225001089 GTPase/Zn-binding domain interface [polypeptide binding]; other site 319225001090 GTP/Mg2+ binding site [chemical binding]; other site 319225001091 G4 box; other site 319225001092 G5 box; other site 319225001093 G1 box; other site 319225001094 Switch I region; other site 319225001095 G2 box; other site 319225001096 G3 box; other site 319225001097 Switch II region; other site 319225001098 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 319225001099 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 319225001100 NAD(P) binding site [chemical binding]; other site 319225001101 catalytic residues [active] 319225001102 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 319225001103 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 319225001104 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 319225001105 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 319225001106 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 319225001107 putative trimer interface [polypeptide binding]; other site 319225001108 putative CoA binding site [chemical binding]; other site 319225001109 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 319225001110 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 319225001111 glutamine binding [chemical binding]; other site 319225001112 catalytic triad [active] 319225001113 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 319225001114 Haem-binding domain; Region: Haem_bd; pfam14376 319225001115 Predicted transcriptional regulator [General function prediction only]; Region: COG2522 319225001116 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 319225001117 sequence-specific DNA binding site [nucleotide binding]; other site 319225001118 salt bridge; other site 319225001119 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 319225001120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 319225001121 stationary phase survival protein SurE; Provisional; Region: PRK13932 319225001122 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 319225001123 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 319225001124 active site 319225001125 nucleophile elbow; other site 319225001126 Surface antigen; Region: Bac_surface_Ag; pfam01103 319225001127 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 319225001128 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 319225001129 Bacterial Ig-like domain; Region: Big_5; pfam13205 319225001130 Bacterial Ig-like domain; Region: Big_5; pfam13205 319225001131 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 319225001132 active site 319225001133 catalytic triad [active] 319225001134 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 319225001135 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225001136 putative ADP-binding pocket [chemical binding]; other site 319225001137 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 319225001138 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 319225001139 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 319225001140 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 319225001141 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 319225001142 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 319225001143 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 319225001144 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 319225001145 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 319225001146 calcium mediated ligand binding site; other site 319225001147 intermolecular salt bridges; other site 319225001148 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 319225001149 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 319225001150 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001151 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001152 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 319225001153 ligand binding surface [chemical binding]; other site 319225001154 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001155 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001156 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001157 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001158 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001159 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001160 Outer membrane efflux protein; Region: OEP; pfam02321 319225001161 Outer membrane efflux protein; Region: OEP; pfam02321 319225001162 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319225001163 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225001164 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225001165 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225001166 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 319225001167 Peptidase family M50; Region: Peptidase_M50; pfam02163 319225001168 active site 319225001169 putative substrate binding region [chemical binding]; other site 319225001170 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225001171 Outer membrane efflux protein; Region: OEP; pfam02321 319225001172 Outer membrane efflux protein; Region: OEP; pfam02321 319225001173 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225001174 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 319225001175 active site 319225001176 phosphorylation site [posttranslational modification] 319225001177 intermolecular recognition site; other site 319225001178 dimerization interface [polypeptide binding]; other site 319225001179 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 319225001180 DNA binding site [nucleotide binding] 319225001181 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 319225001182 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319225001183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319225001184 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 319225001185 dimer interface [polypeptide binding]; other site 319225001186 phosphorylation site [posttranslational modification] 319225001187 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 319225001188 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 319225001189 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319225001190 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319225001191 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 319225001192 dimer interface [polypeptide binding]; other site 319225001193 phosphorylation site [posttranslational modification] 319225001194 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 319225001195 ATP binding site [chemical binding]; other site 319225001196 Mg2+ binding site [ion binding]; other site 319225001197 G-X-G motif; other site 319225001198 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 319225001199 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001200 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001201 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001202 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225001203 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 319225001204 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 319225001205 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319225001206 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 319225001207 Walker A/P-loop; other site 319225001208 ATP binding site [chemical binding]; other site 319225001209 Q-loop/lid; other site 319225001210 ABC transporter signature motif; other site 319225001211 Walker B; other site 319225001212 D-loop; other site 319225001213 H-loop/switch region; other site 319225001214 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 319225001215 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225001216 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 319225001217 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 319225001218 Clp protease; Region: CLP_protease; pfam00574 319225001219 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 319225001220 oligomer interface [polypeptide binding]; other site 319225001221 active site residues [active] 319225001222 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 319225001223 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225001224 active site 319225001225 HIGH motif; other site 319225001226 nucleotide binding site [chemical binding]; other site 319225001227 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 319225001228 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 319225001229 active site 319225001230 KMSKS motif; other site 319225001231 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 319225001232 tRNA binding surface [nucleotide binding]; other site 319225001233 anticodon binding site; other site 319225001234 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 319225001235 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 319225001236 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 319225001237 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319225001238 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 319225001239 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 319225001240 DNA binding residues [nucleotide binding] 319225001241 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 319225001242 Predicted permeases [General function prediction only]; Region: COG0795 319225001243 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 319225001244 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 319225001245 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319225001246 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319225001247 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 319225001248 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 319225001249 excinuclease ABC subunit B; Provisional; Region: PRK05298 319225001250 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 319225001251 ATP binding site [chemical binding]; other site 319225001252 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 319225001253 nucleotide binding region [chemical binding]; other site 319225001254 ATP-binding site [chemical binding]; other site 319225001255 Ultra-violet resistance protein B; Region: UvrB; pfam12344 319225001256 UvrB/uvrC motif; Region: UVR; pfam02151 319225001257 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 319225001258 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319225001259 Zn2+ binding site [ion binding]; other site 319225001260 Mg2+ binding site [ion binding]; other site 319225001261 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 319225001262 synthetase active site [active] 319225001263 NTP binding site [chemical binding]; other site 319225001264 metal binding site [ion binding]; metal-binding site 319225001265 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 319225001266 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 319225001267 LemA family; Region: LemA; cl00742 319225001268 Repair protein; Region: Repair_PSII; pfam04536 319225001269 Repair protein; Region: Repair_PSII; cl01535 319225001270 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 319225001271 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 319225001272 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 319225001273 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 319225001274 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 319225001275 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 319225001276 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 319225001277 Domain of unknown function DUF59; Region: DUF59; pfam01883 319225001278 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 319225001279 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 319225001280 Walker A motif; other site 319225001281 GTP-binding protein Der; Reviewed; Region: PRK00093 319225001282 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 319225001283 G1 box; other site 319225001284 GTP/Mg2+ binding site [chemical binding]; other site 319225001285 Switch I region; other site 319225001286 G2 box; other site 319225001287 Switch II region; other site 319225001288 G3 box; other site 319225001289 G4 box; other site 319225001290 G5 box; other site 319225001291 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 319225001292 G1 box; other site 319225001293 GTP/Mg2+ binding site [chemical binding]; other site 319225001294 Switch I region; other site 319225001295 G2 box; other site 319225001296 G3 box; other site 319225001297 Switch II region; other site 319225001298 G4 box; other site 319225001299 G5 box; other site 319225001300 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 319225001301 23S rRNA interface [nucleotide binding]; other site 319225001302 L3 interface [polypeptide binding]; other site 319225001303 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 319225001304 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 319225001305 rRNA interaction site [nucleotide binding]; other site 319225001306 S8 interaction site; other site 319225001307 putative laminin-1 binding site; other site 319225001308 elongation factor Ts; Provisional; Region: tsf; PRK09377 319225001309 UBA/TS-N domain; Region: UBA; pfam00627 319225001310 Elongation factor TS; Region: EF_TS; pfam00889 319225001311 Elongation factor TS; Region: EF_TS; pfam00889 319225001312 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 319225001313 putative nucleotide binding site [chemical binding]; other site 319225001314 uridine monophosphate binding site [chemical binding]; other site 319225001315 homohexameric interface [polypeptide binding]; other site 319225001316 recombination regulator RecX; Reviewed; Region: recX; PRK00117 319225001317 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 319225001318 B12 binding site [chemical binding]; other site 319225001319 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 319225001320 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 319225001321 FeS/SAM binding site; other site 319225001322 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 319225001323 short chain dehydrogenase; Validated; Region: PRK08324 319225001324 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 319225001325 active site 319225001326 Zn2+ binding site [ion binding]; other site 319225001327 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 319225001328 putative NAD(P) binding site [chemical binding]; other site 319225001329 active site 319225001330 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 319225001331 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 319225001332 putative active site; other site 319225001333 catalytic residue [active] 319225001334 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 319225001335 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 319225001336 dimer interface [polypeptide binding]; other site 319225001337 catalytic residue [active] 319225001338 metal binding site [ion binding]; metal-binding site 319225001339 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 319225001340 classical (c) SDRs; Region: SDR_c; cd05233 319225001341 NAD(P) binding site [chemical binding]; other site 319225001342 active site 319225001343 HEPN domain; Region: HEPN; cl00824 319225001344 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 319225001345 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 319225001346 substrate binding site; other site 319225001347 tetramer interface; other site 319225001348 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 319225001349 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 319225001350 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 319225001351 NADP binding site [chemical binding]; other site 319225001352 active site 319225001353 putative substrate binding site [chemical binding]; other site 319225001354 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 319225001355 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 319225001356 NAD binding site [chemical binding]; other site 319225001357 substrate binding site [chemical binding]; other site 319225001358 homodimer interface [polypeptide binding]; other site 319225001359 active site 319225001360 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 319225001361 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 319225001362 NAD binding site [chemical binding]; other site 319225001363 homodimer interface [polypeptide binding]; other site 319225001364 active site 319225001365 substrate binding site [chemical binding]; other site 319225001366 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 319225001367 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 319225001368 Substrate binding site; other site 319225001369 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 319225001370 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 319225001371 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225001372 active site 319225001373 HIGH motif; other site 319225001374 nucleotide binding site [chemical binding]; other site 319225001375 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225001376 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225001377 active site 319225001378 KMSKS motif; other site 319225001379 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 319225001380 tRNA binding surface [nucleotide binding]; other site 319225001381 anticodon binding site; other site 319225001382 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 319225001383 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 319225001384 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 319225001385 active site 319225001386 tetramer interface [polypeptide binding]; other site 319225001387 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225001388 active site 319225001389 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 319225001390 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 319225001391 endonuclease IV; Provisional; Region: PRK01060 319225001392 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 319225001393 AP (apurinic/apyrimidinic) site pocket; other site 319225001394 DNA interaction; other site 319225001395 Metal-binding active site; metal-binding site 319225001396 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 319225001397 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 319225001398 Ligand binding site; other site 319225001399 Putative Catalytic site; other site 319225001400 DXD motif; other site 319225001401 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 319225001402 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 319225001403 FeS/SAM binding site; other site 319225001404 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 319225001405 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 319225001406 active site 319225001407 substrate binding site [chemical binding]; other site 319225001408 cosubstrate binding site; other site 319225001409 catalytic site [active] 319225001410 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 319225001411 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 319225001412 purine monophosphate binding site [chemical binding]; other site 319225001413 dimer interface [polypeptide binding]; other site 319225001414 putative catalytic residues [active] 319225001415 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 319225001416 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 319225001417 Protein of unknown function (DUF456); Region: DUF456; pfam04306 319225001418 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 319225001419 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 319225001420 Uncharacterized conserved protein [Function unknown]; Region: COG3349 319225001421 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319225001422 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 319225001423 iron-sulfur cluster [ion binding]; other site 319225001424 [2Fe-2S] cluster binding site [ion binding]; other site 319225001425 Transposase [DNA replication, recombination, and repair]; Region: COG5421 319225001426 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 319225001427 Beta-lactamase; Region: Beta-lactamase; pfam00144 319225001428 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 319225001429 mce related protein; Region: MCE; pfam02470 319225001430 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 319225001431 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 319225001432 Walker A/P-loop; other site 319225001433 ATP binding site [chemical binding]; other site 319225001434 Q-loop/lid; other site 319225001435 ABC transporter signature motif; other site 319225001436 Walker B; other site 319225001437 D-loop; other site 319225001438 H-loop/switch region; other site 319225001439 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 319225001440 Permease; Region: Permease; pfam02405 319225001441 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 319225001442 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 319225001443 active site 319225001444 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 319225001445 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 319225001446 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 319225001447 active site 319225001448 dimerization interface [polypeptide binding]; other site 319225001449 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 319225001450 active site 319225001451 hydrophilic channel; other site 319225001452 dimerization interface [polypeptide binding]; other site 319225001453 catalytic residues [active] 319225001454 active site lid [active] 319225001455 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 319225001456 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 319225001457 Walker A/P-loop; other site 319225001458 ATP binding site [chemical binding]; other site 319225001459 Q-loop/lid; other site 319225001460 ABC transporter signature motif; other site 319225001461 Walker B; other site 319225001462 D-loop; other site 319225001463 H-loop/switch region; other site 319225001464 Smr domain; Region: Smr; pfam01713 319225001465 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 319225001466 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 319225001467 tetramer interfaces [polypeptide binding]; other site 319225001468 binuclear metal-binding site [ion binding]; other site 319225001469 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 319225001470 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 319225001471 TPP-binding site; other site 319225001472 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 319225001473 PYR/PP interface [polypeptide binding]; other site 319225001474 dimer interface [polypeptide binding]; other site 319225001475 TPP binding site [chemical binding]; other site 319225001476 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 319225001477 Uncharacterized conserved protein [Function unknown]; Region: COG0432 319225001478 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_1; cd11347 319225001479 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 319225001480 active site 319225001481 catalytic site [active] 319225001482 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 319225001483 Part of AAA domain; Region: AAA_19; pfam13245 319225001484 Family description; Region: UvrD_C_2; pfam13538 319225001485 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 319225001486 Flavoprotein; Region: Flavoprotein; cl08021 319225001487 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 319225001488 FMN binding site [chemical binding]; other site 319225001489 dimer interface [polypeptide binding]; other site 319225001490 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 319225001491 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 319225001492 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 319225001493 DTAP/Switch II; other site 319225001494 Switch I; other site 319225001495 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 319225001496 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 319225001497 NAD binding site [chemical binding]; other site 319225001498 homotetramer interface [polypeptide binding]; other site 319225001499 homodimer interface [polypeptide binding]; other site 319225001500 substrate binding site [chemical binding]; other site 319225001501 active site 319225001502 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 319225001503 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 319225001504 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 319225001505 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319225001506 putative active site [active] 319225001507 metal binding site [ion binding]; metal-binding site 319225001508 homodimer binding site [polypeptide binding]; other site 319225001509 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 319225001510 AMP binding site [chemical binding]; other site 319225001511 metal binding site [ion binding]; metal-binding site 319225001512 active site 319225001513 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 319225001514 DHH family; Region: DHH; pfam01368 319225001515 DHHA1 domain; Region: DHHA1; pfam02272 319225001516 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 319225001517 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 319225001518 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 319225001519 Ligand binding site; other site 319225001520 Putative Catalytic site; other site 319225001521 DXD motif; other site 319225001522 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 319225001523 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 319225001524 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 319225001525 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 319225001526 active site 319225001527 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 319225001528 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 319225001529 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 319225001530 putative active site [active] 319225001531 putative substrate binding site [chemical binding]; other site 319225001532 putative cosubstrate binding site; other site 319225001533 catalytic site [active] 319225001534 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 319225001535 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 319225001536 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 319225001537 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 319225001538 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319225001539 NAD(P) binding site [chemical binding]; other site 319225001540 putative active site [active] 319225001541 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 319225001542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225001543 Walker A/P-loop; other site 319225001544 ATP binding site [chemical binding]; other site 319225001545 Q-loop/lid; other site 319225001546 ABC transporter signature motif; other site 319225001547 Walker B; other site 319225001548 D-loop; other site 319225001549 H-loop/switch region; other site 319225001550 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 319225001551 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319225001552 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225001553 Walker A/P-loop; other site 319225001554 ATP binding site [chemical binding]; other site 319225001555 Q-loop/lid; other site 319225001556 ABC transporter signature motif; other site 319225001557 Walker B; other site 319225001558 D-loop; other site 319225001559 H-loop/switch region; other site 319225001560 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 319225001561 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 319225001562 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 319225001563 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 319225001564 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 319225001565 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 319225001566 purine nucleoside phosphorylase; Provisional; Region: PRK08202 319225001567 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 319225001568 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319225001569 catalytic residue [active] 319225001570 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 319225001571 active site 319225001572 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 319225001573 binding surface 319225001574 TPR motif; other site 319225001575 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 319225001576 active site 319225001577 lipoprotein signal peptidase; Provisional; Region: PRK14787 319225001578 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 319225001579 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 319225001580 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 319225001581 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 319225001582 shikimate binding site; other site 319225001583 NAD(P) binding site [chemical binding]; other site 319225001584 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 319225001585 binding surface 319225001586 TPR motif; other site 319225001587 TPR repeat; Region: TPR_11; pfam13414 319225001588 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 319225001589 binding surface 319225001590 TPR motif; other site 319225001591 TPR repeat; Region: TPR_11; pfam13414 319225001592 TPR repeat; Region: TPR_11; pfam13414 319225001593 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 319225001594 binding surface 319225001595 TPR motif; other site 319225001596 TPR repeat; Region: TPR_11; pfam13414 319225001597 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 319225001598 binding surface 319225001599 TPR motif; other site 319225001600 TPR repeat; Region: TPR_11; pfam13414 319225001601 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 319225001602 binding surface 319225001603 TPR motif; other site 319225001604 TPR repeat; Region: TPR_11; pfam13414 319225001605 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14671 319225001606 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 319225001607 GIY-YIG motif/motif A; other site 319225001608 active site 319225001609 catalytic site [active] 319225001610 putative DNA binding site [nucleotide binding]; other site 319225001611 metal binding site [ion binding]; metal-binding site 319225001612 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 319225001613 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 319225001614 DNA binding site [nucleotide binding] 319225001615 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 319225001616 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 319225001617 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 319225001618 Na binding site [ion binding]; other site 319225001619 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 319225001620 Domain of unknown function DUF302; Region: DUF302; pfam03625 319225001621 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 319225001622 nudix motif; other site 319225001623 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 319225001624 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 319225001625 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 319225001626 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 319225001627 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 319225001628 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319225001629 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319225001630 ABC transporter; Region: ABC_tran_2; pfam12848 319225001631 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319225001632 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225001633 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 319225001634 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225001635 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 319225001636 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319225001637 Walker A/P-loop; other site 319225001638 ATP binding site [chemical binding]; other site 319225001639 Q-loop/lid; other site 319225001640 ABC transporter signature motif; other site 319225001641 Walker B; other site 319225001642 D-loop; other site 319225001643 H-loop/switch region; other site 319225001644 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225001645 FtsX-like permease family; Region: FtsX; pfam02687 319225001646 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 319225001647 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 319225001648 CoA-ligase; Region: Ligase_CoA; pfam00549 319225001649 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 319225001650 nucleoside/Zn binding site; other site 319225001651 dimer interface [polypeptide binding]; other site 319225001652 catalytic motif [active] 319225001653 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 319225001654 FMN binding site [chemical binding]; other site 319225001655 substrate binding site [chemical binding]; other site 319225001656 putative catalytic residue [active] 319225001657 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 319225001658 catalytic core [active] 319225001659 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 319225001660 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 319225001661 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 319225001662 active site 319225001663 dimer interface [polypeptide binding]; other site 319225001664 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 319225001665 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 319225001666 active site 319225001667 FMN binding site [chemical binding]; other site 319225001668 substrate binding site [chemical binding]; other site 319225001669 3Fe-4S cluster binding site [ion binding]; other site 319225001670 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 319225001671 domain interface; other site 319225001672 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 319225001673 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319225001674 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 319225001675 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 319225001676 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 319225001677 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 319225001678 Walker A motif; other site 319225001679 ATP binding site [chemical binding]; other site 319225001680 Walker B motif; other site 319225001681 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 319225001682 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 319225001683 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319225001684 putative active site [active] 319225001685 putative metal binding site [ion binding]; other site 319225001686 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225001687 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 319225001688 Predicted transcriptional regulator [Transcription]; Region: COG5340 319225001689 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225001690 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 319225001691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 319225001692 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 319225001693 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 319225001694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 319225001695 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 319225001696 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 319225001697 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 319225001698 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 319225001699 Class I aldolases; Region: Aldolase_Class_I; cl17187 319225001700 catalytic residue [active] 319225001701 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 319225001702 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 319225001703 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 319225001704 DsbD alpha interface [polypeptide binding]; other site 319225001705 catalytic residues [active] 319225001706 ribonuclease R; Region: RNase_R; TIGR02063 319225001707 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 319225001708 RNB domain; Region: RNB; pfam00773 319225001709 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 319225001710 RNA binding site [nucleotide binding]; other site 319225001711 photolyase PhrII; Region: phr2; TIGR00591 319225001712 DNA photolyase; Region: DNA_photolyase; pfam00875 319225001713 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 319225001714 catalytic triad [active] 319225001715 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 319225001716 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 319225001717 metal binding site [ion binding]; metal-binding site 319225001718 dimer interface [polypeptide binding]; other site 319225001719 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 319225001720 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 319225001721 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 319225001722 active site 319225001723 catalytic site [active] 319225001724 substrate binding site [chemical binding]; other site 319225001725 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 319225001726 non-specific DNA binding site [nucleotide binding]; other site 319225001727 salt bridge; other site 319225001728 sequence-specific DNA binding site [nucleotide binding]; other site 319225001729 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 319225001730 metal ion-dependent adhesion site (MIDAS); other site 319225001731 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 319225001732 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 319225001733 active site residue [active] 319225001734 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225001735 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 319225001736 substrate binding pocket [chemical binding]; other site 319225001737 Ion channel; Region: Ion_trans_2; pfam07885 319225001738 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 319225001739 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225001740 membrane-bound complex binding site; other site 319225001741 hinge residues; other site 319225001742 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 319225001743 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 319225001744 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225001745 catalytic residue [active] 319225001746 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 319225001747 OstA-like protein; Region: OstA; cl00844 319225001748 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 319225001749 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 319225001750 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 319225001751 catalytic site [active] 319225001752 Rrf2 family protein; Region: rrf2_super; TIGR00738 319225001753 Transcriptional regulator; Region: Rrf2; pfam02082 319225001754 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 319225001755 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 319225001756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225001757 ABC transporter signature motif; other site 319225001758 Walker B; other site 319225001759 D-loop; other site 319225001760 H-loop/switch region; other site 319225001761 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 319225001762 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 319225001763 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 319225001764 oligomerisation interface [polypeptide binding]; other site 319225001765 mobile loop; other site 319225001766 roof hairpin; other site 319225001767 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 319225001768 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 319225001769 ring oligomerisation interface [polypeptide binding]; other site 319225001770 ATP/Mg binding site [chemical binding]; other site 319225001771 stacking interactions; other site 319225001772 hinge regions; other site 319225001773 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 319225001774 Ligand Binding Site [chemical binding]; other site 319225001775 CAAX protease self-immunity; Region: Abi; cl00558 319225001776 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 319225001777 substrate binding site [chemical binding]; other site 319225001778 active site 319225001779 catalytic residues [active] 319225001780 heterodimer interface [polypeptide binding]; other site 319225001781 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 319225001782 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 319225001783 Probable Catalytic site; other site 319225001784 metal-binding site 319225001785 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 319225001786 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 319225001787 NADP binding site [chemical binding]; other site 319225001788 putative substrate binding site [chemical binding]; other site 319225001789 active site 319225001790 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_11; cd08866 319225001791 putative hydrophobic ligand binding site [chemical binding]; other site 319225001792 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 319225001793 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 319225001794 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 319225001795 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 319225001796 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 319225001797 Cation efflux family; Region: Cation_efflux; cl00316 319225001798 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 319225001799 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 319225001800 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 319225001801 rod shape-determining protein MreB; Provisional; Region: PRK13930 319225001802 MreB and similar proteins; Region: MreB_like; cd10225 319225001803 nucleotide binding site [chemical binding]; other site 319225001804 Mg binding site [ion binding]; other site 319225001805 putative protofilament interaction site [polypeptide binding]; other site 319225001806 RodZ interaction site [polypeptide binding]; other site 319225001807 SAC3/GANP/Nin1/mts3/eIF-3 p25 family; Region: SAC3_GANP; cl17791 319225001808 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 319225001809 histidinol dehydrogenase; Region: hisD; TIGR00069 319225001810 NAD binding site [chemical binding]; other site 319225001811 dimerization interface [polypeptide binding]; other site 319225001812 product binding site; other site 319225001813 substrate binding site [chemical binding]; other site 319225001814 zinc binding site [ion binding]; other site 319225001815 catalytic residues [active] 319225001816 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 319225001817 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 319225001818 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 319225001819 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 319225001820 substrate binding site [chemical binding]; other site 319225001821 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 319225001822 substrate binding site [chemical binding]; other site 319225001823 ligand binding site [chemical binding]; other site 319225001824 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 319225001825 Membrane transport protein; Region: Mem_trans; cl09117 319225001826 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 319225001827 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 319225001828 hinge; other site 319225001829 active site 319225001830 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 319225001831 Peptidase family M23; Region: Peptidase_M23; pfam01551 319225001832 NAD synthetase; Provisional; Region: PRK13980 319225001833 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 319225001834 homodimer interface [polypeptide binding]; other site 319225001835 NAD binding pocket [chemical binding]; other site 319225001836 ATP binding pocket [chemical binding]; other site 319225001837 Mg binding site [ion binding]; other site 319225001838 active-site loop [active] 319225001839 L-aspartate oxidase; Provisional; Region: PRK09077 319225001840 L-aspartate oxidase; Provisional; Region: PRK06175 319225001841 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319225001842 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 319225001843 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 319225001844 pyruvoyl-dependent arginine decarboxylase; Reviewed; Region: PRK01285 319225001845 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 319225001846 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 319225001847 active site 319225001848 HIGH motif; other site 319225001849 dimer interface [polypeptide binding]; other site 319225001850 KMSKS motif; other site 319225001851 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 319225001852 RNA binding surface [nucleotide binding]; other site 319225001853 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 319225001854 SmpB-tmRNA interface; other site 319225001855 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 319225001856 FAD binding domain; Region: FAD_binding_4; pfam01565 319225001857 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 319225001858 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 319225001859 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 319225001860 rod shape-determining protein MreC; Provisional; Region: PRK13922 319225001861 rod shape-determining protein MreC; Region: MreC; pfam04085 319225001862 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 319225001863 oligomerisation interface [polypeptide binding]; other site 319225001864 mobile loop; other site 319225001865 roof hairpin; other site 319225001866 quinolinate synthetase; Provisional; Region: PRK09375 319225001867 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 319225001868 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 319225001869 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 319225001870 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 319225001871 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 319225001872 protein-splicing catalytic site; other site 319225001873 thioester formation/cholesterol transfer; other site 319225001874 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 319225001875 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 319225001876 protein-splicing catalytic site; other site 319225001877 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 319225001878 TSCPD domain; Region: TSCPD; pfam12637 319225001879 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 319225001880 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225001881 Walker A/P-loop; other site 319225001882 ATP binding site [chemical binding]; other site 319225001883 Q-loop/lid; other site 319225001884 ABC transporter signature motif; other site 319225001885 Walker B; other site 319225001886 D-loop; other site 319225001887 H-loop/switch region; other site 319225001888 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 319225001889 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 319225001890 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 319225001891 peroxiredoxin; Provisional; Region: PRK13189 319225001892 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 319225001893 dimer interface [polypeptide binding]; other site 319225001894 decamer (pentamer of dimers) interface [polypeptide binding]; other site 319225001895 catalytic triad [active] 319225001896 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 319225001897 Ferritin-like domain; Region: Ferritin; pfam00210 319225001898 diiron binding motif [ion binding]; other site 319225001899 Rubrerythrin [Energy production and conversion]; Region: COG1592 319225001900 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 319225001901 binuclear metal center [ion binding]; other site 319225001902 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 319225001903 iron binding site [ion binding]; other site 319225001904 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 319225001905 metal binding site 2 [ion binding]; metal-binding site 319225001906 putative DNA binding helix; other site 319225001907 metal binding site 1 [ion binding]; metal-binding site 319225001908 dimer interface [polypeptide binding]; other site 319225001909 structural Zn2+ binding site [ion binding]; other site 319225001910 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; cl17315 319225001911 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 319225001912 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 319225001913 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 319225001914 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 319225001915 ATP binding site [chemical binding]; other site 319225001916 Mg++ binding site [ion binding]; other site 319225001917 motif III; other site 319225001918 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 319225001919 nucleotide binding region [chemical binding]; other site 319225001920 ATP-binding site [chemical binding]; other site 319225001921 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 319225001922 putative RNA binding site [nucleotide binding]; other site 319225001923 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 319225001924 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 319225001925 Beta-Casp domain; Region: Beta-Casp; smart01027 319225001926 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 319225001927 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 319225001928 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 319225001929 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 319225001930 active site 319225001931 Int/Topo IB signature motif; other site 319225001932 16S rRNA methyltransferase B; Provisional; Region: PRK14904 319225001933 NusB family; Region: NusB; pfam01029 319225001934 putative RNA binding site [nucleotide binding]; other site 319225001935 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 319225001936 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 319225001937 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 319225001938 homodimer interface [polypeptide binding]; other site 319225001939 substrate-cofactor binding pocket; other site 319225001940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225001941 catalytic residue [active] 319225001942 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 319225001943 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 319225001944 seryl-tRNA synthetase; Provisional; Region: PRK05431 319225001945 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 319225001946 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 319225001947 dimer interface [polypeptide binding]; other site 319225001948 active site 319225001949 motif 1; other site 319225001950 motif 2; other site 319225001951 motif 3; other site 319225001952 Yqey-like protein; Region: YqeY; pfam09424 319225001953 classical (c) SDRs; Region: SDR_c; cd05233 319225001954 NAD(P) binding site [chemical binding]; other site 319225001955 active site 319225001956 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 319225001957 DNA-binding site [nucleotide binding]; DNA binding site 319225001958 RNA-binding motif; other site 319225001959 hypothetical protein; Reviewed; Region: PRK00024 319225001960 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 319225001961 MPN+ (JAMM) motif; other site 319225001962 Zinc-binding site [ion binding]; other site 319225001963 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 319225001964 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 319225001965 active site 319225001966 catalytic residues [active] 319225001967 metal binding site [ion binding]; metal-binding site 319225001968 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 319225001969 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 319225001970 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 319225001971 substrate binding site [chemical binding]; other site 319225001972 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 319225001973 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 319225001974 substrate binding site [chemical binding]; other site 319225001975 ligand binding site [chemical binding]; other site 319225001976 2-isopropylmalate synthase; Validated; Region: PRK00915 319225001977 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 319225001978 active site 319225001979 catalytic residues [active] 319225001980 metal binding site [ion binding]; metal-binding site 319225001981 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 319225001982 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 319225001983 tartrate dehydrogenase; Region: TTC; TIGR02089 319225001984 ketol-acid reductoisomerase; Provisional; Region: PRK05479 319225001985 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 319225001986 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 319225001987 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 319225001988 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 319225001989 putative valine binding site [chemical binding]; other site 319225001990 dimer interface [polypeptide binding]; other site 319225001991 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 319225001992 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 319225001993 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 319225001994 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 319225001995 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 319225001996 PYR/PP interface [polypeptide binding]; other site 319225001997 dimer interface [polypeptide binding]; other site 319225001998 TPP binding site [chemical binding]; other site 319225001999 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 319225002000 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 319225002001 TPP-binding site [chemical binding]; other site 319225002002 dimer interface [polypeptide binding]; other site 319225002003 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 319225002004 6-phosphogluconate dehydratase; Region: edd; TIGR01196 319225002005 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 319225002006 Integral membrane protein DUF92; Region: DUF92; pfam01940 319225002007 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 319225002008 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 319225002009 TolR protein; Region: tolR; TIGR02801 319225002010 TonB C terminal; Region: TonB_2; pfam13103 319225002011 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 319225002012 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319225002013 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319225002014 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319225002015 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 319225002016 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319225002017 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 319225002018 ligand binding site [chemical binding]; other site 319225002019 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 319225002020 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319225002021 ligand binding site [chemical binding]; other site 319225002022 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 319225002023 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 319225002024 binding surface 319225002025 TPR motif; other site 319225002026 Helix-turn-helix domain; Region: HTH_25; pfam13413 319225002027 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 319225002028 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 319225002029 Photosystem P840 reaction centre protein PscD; Region: RC-P840_PscD; pfam10657 319225002030 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 319225002031 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 319225002032 nucleotide binding site [chemical binding]; other site 319225002033 NEF interaction site [polypeptide binding]; other site 319225002034 SBD interface [polypeptide binding]; other site 319225002035 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 319225002036 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 319225002037 putative dimer interface [polypeptide binding]; other site 319225002038 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 319225002039 dimerization interface [polypeptide binding]; other site 319225002040 putative DNA binding site [nucleotide binding]; other site 319225002041 putative Zn2+ binding site [ion binding]; other site 319225002042 Putative zinc-finger; Region: zf-HC2; pfam13490 319225002043 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 319225002044 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319225002045 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 319225002046 DNA binding residues [nucleotide binding] 319225002047 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319225002048 carotene isomerase; Region: carot_isom; TIGR02730 319225002049 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 319225002050 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 319225002051 hexamer interface [polypeptide binding]; other site 319225002052 ligand binding site [chemical binding]; other site 319225002053 putative active site [active] 319225002054 NAD(P) binding site [chemical binding]; other site 319225002055 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 319225002056 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 319225002057 catalytic loop [active] 319225002058 iron binding site [ion binding]; other site 319225002059 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 319225002060 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 319225002061 catalytic loop [active] 319225002062 iron binding site [ion binding]; other site 319225002063 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 319225002064 DEAD-like helicases superfamily; Region: DEXDc; smart00487 319225002065 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 319225002066 ATP binding site [chemical binding]; other site 319225002067 putative Mg++ binding site [ion binding]; other site 319225002068 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 319225002069 nucleotide binding region [chemical binding]; other site 319225002070 ATP-binding site [chemical binding]; other site 319225002071 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 319225002072 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 319225002073 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 319225002074 Walker A/P-loop; other site 319225002075 ATP binding site [chemical binding]; other site 319225002076 Q-loop/lid; other site 319225002077 ABC transporter signature motif; other site 319225002078 Walker B; other site 319225002079 D-loop; other site 319225002080 H-loop/switch region; other site 319225002081 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 319225002082 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225002083 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 319225002084 active site 319225002085 phosphorylation site [posttranslational modification] 319225002086 intermolecular recognition site; other site 319225002087 dimerization interface [polypeptide binding]; other site 319225002088 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 319225002089 DNA binding site [nucleotide binding] 319225002090 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 319225002091 dimerization interface [polypeptide binding]; other site 319225002092 PAS domain; Region: PAS; smart00091 319225002093 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 319225002094 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 319225002095 dimer interface [polypeptide binding]; other site 319225002096 phosphorylation site [posttranslational modification] 319225002097 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 319225002098 ATP binding site [chemical binding]; other site 319225002099 Mg2+ binding site [ion binding]; other site 319225002100 G-X-G motif; other site 319225002101 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 319225002102 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319225002103 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 319225002104 nudix motif; other site 319225002105 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 319225002106 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 319225002107 catalytic triad [active] 319225002108 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 319225002109 Virulence protein [General function prediction only]; Region: COG3943 319225002110 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 319225002111 BRO family, N-terminal domain; Region: Bro-N; smart01040 319225002112 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 319225002113 DNA-binding interface [nucleotide binding]; DNA binding site 319225002114 Winged helix-turn helix; Region: HTH_29; pfam13551 319225002115 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 319225002116 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225002117 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 319225002118 putative active site [active] 319225002119 putative metal binding site [ion binding]; other site 319225002120 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 319225002121 non-specific DNA binding site [nucleotide binding]; other site 319225002122 salt bridge; other site 319225002123 sequence-specific DNA binding site [nucleotide binding]; other site 319225002124 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 319225002125 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 319225002126 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 319225002127 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 319225002128 putative active site [active] 319225002129 putative NTP binding site [chemical binding]; other site 319225002130 putative nucleic acid binding site [nucleotide binding]; other site 319225002131 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 319225002132 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 319225002133 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319225002134 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 319225002135 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319225002136 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 319225002137 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 319225002138 ATP binding site [chemical binding]; other site 319225002139 Walker A motif; other site 319225002140 hexamer interface [polypeptide binding]; other site 319225002141 Walker B motif; other site 319225002142 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 319225002143 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 319225002144 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 319225002145 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 319225002146 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 319225002147 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 319225002148 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 319225002149 TadE-like protein; Region: TadE; pfam07811 319225002150 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 319225002151 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 319225002152 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 319225002153 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 319225002154 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 319225002155 Protein of unknown function DUF45; Region: DUF45; pfam01863 319225002156 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 319225002157 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 319225002158 hexamer interface [polypeptide binding]; other site 319225002159 ligand binding site [chemical binding]; other site 319225002160 putative active site [active] 319225002161 NAD(P) binding site [chemical binding]; other site 319225002162 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 319225002163 trimer interface [polypeptide binding]; other site 319225002164 putative Zn binding site [ion binding]; other site 319225002165 TspO/MBR family; Region: TspO_MBR; pfam03073 319225002166 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 319225002167 putative transporter; Provisional; Region: PRK11660 319225002168 Sulfate transporter family; Region: Sulfate_transp; pfam00916 319225002169 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 319225002170 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 319225002171 putative cation:proton antiport protein; Provisional; Region: PRK10669 319225002172 TrkA-N domain; Region: TrkA_N; pfam02254 319225002173 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 319225002174 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 319225002175 TAP-like protein; Region: Abhydrolase_4; pfam08386 319225002176 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 319225002177 active site 319225002178 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 319225002179 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 319225002180 homotetramer interface [polypeptide binding]; other site 319225002181 ligand binding site [chemical binding]; other site 319225002182 catalytic site [active] 319225002183 NAD binding site [chemical binding]; other site 319225002184 S-adenosylmethionine synthetase; Validated; Region: PRK05250 319225002185 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 319225002186 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 319225002187 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 319225002188 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 319225002189 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 319225002190 active site 319225002191 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 319225002192 putative trimer interface [polypeptide binding]; other site 319225002193 putative CoA binding site [chemical binding]; other site 319225002194 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 319225002195 Sel1-like repeats; Region: SEL1; smart00671 319225002196 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319225002197 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 319225002198 sequence-specific DNA binding site [nucleotide binding]; other site 319225002199 salt bridge; other site 319225002200 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 319225002201 putative active site [active] 319225002202 heme pocket [chemical binding]; other site 319225002203 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002204 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002205 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002206 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002207 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002208 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002209 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002210 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002211 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002212 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002213 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002214 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002215 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002216 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002217 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002218 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002219 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002220 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002221 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002222 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002223 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002224 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002225 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002226 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002227 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002228 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002229 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002230 VCBS repeat; Region: VCBS_repeat; TIGR01965 319225002231 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 319225002232 non-specific DNA binding site [nucleotide binding]; other site 319225002233 salt bridge; other site 319225002234 sequence-specific DNA binding site [nucleotide binding]; other site 319225002235 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 319225002236 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 319225002237 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319225002238 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 319225002239 Walker A/P-loop; other site 319225002240 ATP binding site [chemical binding]; other site 319225002241 Q-loop/lid; other site 319225002242 ABC transporter signature motif; other site 319225002243 Walker B; other site 319225002244 D-loop; other site 319225002245 H-loop/switch region; other site 319225002246 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 319225002247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319225002248 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 319225002249 Walker A/P-loop; other site 319225002250 ATP binding site [chemical binding]; other site 319225002251 Q-loop/lid; other site 319225002252 ABC transporter signature motif; other site 319225002253 Walker B; other site 319225002254 D-loop; other site 319225002255 H-loop/switch region; other site 319225002256 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 319225002257 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225002258 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 319225002259 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; cl17315 319225002260 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319225002261 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 319225002262 non-specific DNA binding site [nucleotide binding]; other site 319225002263 salt bridge; other site 319225002264 sequence-specific DNA binding site [nucleotide binding]; other site 319225002265 Gas vesicle protein; Region: Gas_vesicle; cl02954 319225002266 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 319225002267 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 319225002268 non-specific DNA binding site [nucleotide binding]; other site 319225002269 salt bridge; other site 319225002270 sequence-specific DNA binding site [nucleotide binding]; other site 319225002271 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 319225002272 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 319225002273 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 319225002274 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 319225002275 Walker A motif; other site 319225002276 ATP binding site [chemical binding]; other site 319225002277 Walker B motif; other site 319225002278 arginine finger; other site 319225002279 Gas vesicle protein; Region: Gas_vesicle; pfam00741 319225002280 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 319225002281 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 319225002282 putative dimer interface [polypeptide binding]; other site 319225002283 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225002284 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 319225002285 P loop; other site 319225002286 Nucleotide binding site [chemical binding]; other site 319225002287 DTAP/Switch II; other site 319225002288 Switch I; other site 319225002289 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 319225002290 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 319225002291 Cell division protein 48 (CDC48), domain 2; Region: CDC48_2; pfam02933 319225002292 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 319225002293 Walker A motif; other site 319225002294 ATP binding site [chemical binding]; other site 319225002295 Walker B motif; other site 319225002296 arginine finger; other site 319225002297 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 319225002298 Walker A motif; other site 319225002299 ATP binding site [chemical binding]; other site 319225002300 Walker B motif; other site 319225002301 arginine finger; other site 319225002302 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002303 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002304 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002305 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 319225002306 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002307 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 319225002308 Gas vesicle protein K; Region: GvpK; pfam05121 319225002309 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 319225002310 nudix motif; other site 319225002311 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225002312 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225002313 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319225002314 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 319225002315 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 319225002316 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 319225002317 putative tRNA-binding site [nucleotide binding]; other site 319225002318 B3/4 domain; Region: B3_4; pfam03483 319225002319 tRNA synthetase B5 domain; Region: B5; pfam03484 319225002320 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 319225002321 dimer interface [polypeptide binding]; other site 319225002322 motif 1; other site 319225002323 motif 3; other site 319225002324 motif 2; other site 319225002325 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 319225002326 phosphodiesterase; Provisional; Region: PRK12704 319225002327 KH domain; Region: KH_1; pfam00013 319225002328 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319225002329 Zn2+ binding site [ion binding]; other site 319225002330 Mg2+ binding site [ion binding]; other site 319225002331 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225002332 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 319225002333 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 319225002334 putative active site pocket [active] 319225002335 4-fold oligomerization interface [polypeptide binding]; other site 319225002336 metal binding residues [ion binding]; metal-binding site 319225002337 3-fold/trimer interface [polypeptide binding]; other site 319225002338 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 319225002339 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 319225002340 Predicted permeases [General function prediction only]; Region: COG0795 319225002341 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 319225002342 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 319225002343 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 319225002344 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 319225002345 Domain of unknown function (DUF814); Region: DUF814; pfam05670 319225002346 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 319225002347 catalytic motif [active] 319225002348 Zn binding site [ion binding]; other site 319225002349 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 319225002350 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 319225002351 catalytic motif [active] 319225002352 Zn binding site [ion binding]; other site 319225002353 RibD C-terminal domain; Region: RibD_C; cl17279 319225002354 Predicted membrane protein [Function unknown]; Region: COG2259 319225002355 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 319225002356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225002357 Walker A/P-loop; other site 319225002358 ATP binding site [chemical binding]; other site 319225002359 Q-loop/lid; other site 319225002360 ABC transporter signature motif; other site 319225002361 Walker B; other site 319225002362 D-loop; other site 319225002363 H-loop/switch region; other site 319225002364 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 319225002365 dimer interface [polypeptide binding]; other site 319225002366 catalytic triad [active] 319225002367 peroxidatic and resolving cysteines [active] 319225002368 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 319225002369 Lumazine binding domain; Region: Lum_binding; pfam00677 319225002370 Lumazine binding domain; Region: Lum_binding; pfam00677 319225002371 recombination factor protein RarA; Reviewed; Region: PRK13342 319225002372 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 319225002373 Walker A motif; other site 319225002374 ATP binding site [chemical binding]; other site 319225002375 Walker B motif; other site 319225002376 arginine finger; other site 319225002377 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 319225002378 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 319225002379 Methyltransferase domain; Region: Methyltransf_23; pfam13489 319225002380 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 319225002381 S-adenosylmethionine binding site [chemical binding]; other site 319225002382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 319225002383 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 319225002384 nucleotide binding site/active site [active] 319225002385 HIT family signature motif; other site 319225002386 catalytic residue [active] 319225002387 KilA-N domain; Region: KilA-N; pfam04383 319225002388 AAA domain; Region: AAA_14; pfam13173 319225002389 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319225002390 Ferrochelatase; Region: Ferrochelatase; pfam00762 319225002391 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 319225002392 C-terminal domain interface [polypeptide binding]; other site 319225002393 active site 319225002394 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 319225002395 active site 319225002396 N-terminal domain interface [polypeptide binding]; other site 319225002397 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 319225002398 binding surface 319225002399 TPR motif; other site 319225002400 TPR repeat; Region: TPR_11; pfam13414 319225002401 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 319225002402 binding surface 319225002403 TPR repeat; Region: TPR_11; pfam13414 319225002404 TPR motif; other site 319225002405 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 319225002406 NADH dehydrogenase subunit B; Provisional; Region: PRK14813 319225002407 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 319225002408 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 319225002409 NADH dehydrogenase subunit D; Validated; Region: PRK06075 319225002410 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 319225002411 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 319225002412 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 319225002413 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 319225002414 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 319225002415 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 319225002416 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 319225002417 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 319225002418 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 319225002419 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 319225002420 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 319225002421 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 319225002422 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 319225002423 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 319225002424 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 319225002425 GTP cyclohydrolase I; Provisional; Region: PLN03044 319225002426 homodecamer interface [polypeptide binding]; other site 319225002427 active site 319225002428 putative catalytic site residues [active] 319225002429 zinc binding site [ion binding]; other site 319225002430 GTP-CH-I/GFRP interaction surface; other site 319225002431 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 319225002432 active site 319225002433 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 319225002434 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319225002435 catalytic residues [active] 319225002436 CAAX protease self-immunity; Region: Abi; pfam02517 319225002437 SLBB domain; Region: SLBB; pfam10531 319225002438 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 319225002439 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 319225002440 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 319225002441 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 319225002442 Bacterial sugar transferase; Region: Bac_transf; pfam02397 319225002443 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 319225002444 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 319225002445 inhibitor-cofactor binding pocket; inhibition site 319225002446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225002447 catalytic residue [active] 319225002448 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 319225002449 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 319225002450 WbqC-like protein family; Region: WbqC; pfam08889 319225002451 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 319225002452 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 319225002453 active site 319225002454 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 319225002455 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 319225002456 active site 319225002457 O-methyltransferase; Region: Methyltransf_2; pfam00891 319225002458 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225002459 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 319225002460 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 319225002461 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 319225002462 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 319225002463 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225002464 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 319225002465 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225002466 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 319225002467 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 319225002468 FeS/SAM binding site; other site 319225002469 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 319225002470 Predicted integral membrane protein [Function unknown]; Region: COG5652 319225002471 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 319225002472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225002473 Walker A/P-loop; other site 319225002474 ATP binding site [chemical binding]; other site 319225002475 Q-loop/lid; other site 319225002476 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319225002477 ABC transporter signature motif; other site 319225002478 Walker B; other site 319225002479 D-loop; other site 319225002480 ABC transporter; Region: ABC_tran_2; pfam12848 319225002481 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 319225002482 ABC transporter; Region: ABC_tran_2; pfam12848 319225002483 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 319225002484 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 319225002485 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 319225002486 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 319225002487 RNA binding surface [nucleotide binding]; other site 319225002488 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 319225002489 active site 319225002490 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 319225002491 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225002492 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 319225002493 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 319225002494 AAA ATPase domain; Region: AAA_16; pfam13191 319225002495 Walker A motif; other site 319225002496 ATP binding site [chemical binding]; other site 319225002497 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 319225002498 magnesium chelatase ATPase subunit D; Region: BchD-ChlD; TIGR02031 319225002499 Walker A motif; other site 319225002500 ATP binding site [chemical binding]; other site 319225002501 Walker B motif; other site 319225002502 arginine finger; other site 319225002503 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 319225002504 metal ion-dependent adhesion site (MIDAS); other site 319225002505 magnesium chelatase, H subunit; Region: BchH; TIGR02025 319225002506 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 319225002507 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225002508 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 319225002509 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 319225002510 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 319225002511 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 319225002512 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 319225002513 active site 319225002514 RloB-like protein; Region: RloB; pfam13707 319225002515 Methyltransferase domain; Region: Methyltransf_31; pfam13847 319225002516 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 319225002517 S-adenosylmethionine binding site [chemical binding]; other site 319225002518 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 319225002519 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319225002520 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 319225002521 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 319225002522 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 319225002523 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 319225002524 ATP binding site [chemical binding]; other site 319225002525 Walker A motif; other site 319225002526 hexamer interface [polypeptide binding]; other site 319225002527 Walker B motif; other site 319225002528 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 319225002529 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 319225002530 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 319225002531 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 319225002532 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 319225002533 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 319225002534 TadE-like protein; Region: TadE; pfam07811 319225002535 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 319225002536 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 319225002537 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 319225002538 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 319225002539 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 319225002540 amino acid transporter; Region: 2A0306; TIGR00909 319225002541 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 319225002542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 319225002543 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225002544 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 319225002545 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225002546 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319225002547 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 319225002548 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 319225002549 FAD binding pocket [chemical binding]; other site 319225002550 FAD binding motif [chemical binding]; other site 319225002551 phosphate binding motif [ion binding]; other site 319225002552 beta-alpha-beta structure motif; other site 319225002553 NAD binding pocket [chemical binding]; other site 319225002554 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 319225002555 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 319225002556 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 319225002557 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 319225002558 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 319225002559 active site 319225002560 metal binding site [ion binding]; metal-binding site 319225002561 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 319225002562 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 319225002563 PLD-like domain; Region: PLDc_2; pfam13091 319225002564 putative homodimer interface [polypeptide binding]; other site 319225002565 putative active site [active] 319225002566 catalytic site [active] 319225002567 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 319225002568 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 319225002569 ATP binding site [chemical binding]; other site 319225002570 putative Mg++ binding site [ion binding]; other site 319225002571 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 319225002572 nucleotide binding region [chemical binding]; other site 319225002573 ATP-binding site [chemical binding]; other site 319225002574 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 319225002575 Bacterial PH domain; Region: DUF304; pfam03703 319225002576 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 319225002577 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 319225002578 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319225002579 salt bridge; other site 319225002580 non-specific DNA binding site [nucleotide binding]; other site 319225002581 sequence-specific DNA binding site [nucleotide binding]; other site 319225002582 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 319225002583 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 319225002584 non-specific DNA binding site [nucleotide binding]; other site 319225002585 salt bridge; other site 319225002586 sequence-specific DNA binding site [nucleotide binding]; other site 319225002587 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 319225002588 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 319225002589 Protein of unknown function (DUF524); Region: DUF524; pfam04411 319225002590 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 319225002591 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 319225002592 HTH domain; Region: HTH_11; cl17392 319225002593 Predicted transcriptional regulator [Transcription]; Region: COG2378 319225002594 WYL domain; Region: WYL; pfam13280 319225002595 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 319225002596 metal ion-dependent adhesion site (MIDAS); other site 319225002597 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 319225002598 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 319225002599 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 319225002600 Sel1-like repeats; Region: SEL1; smart00671 319225002601 Sel1-like repeats; Region: SEL1; smart00671 319225002602 Sel1-like repeats; Region: SEL1; smart00671 319225002603 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 319225002604 binding surface 319225002605 TPR motif; other site 319225002606 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 319225002607 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 319225002608 PEGA domain; Region: PEGA; pfam08308 319225002609 PAS domain S-box; Region: sensory_box; TIGR00229 319225002610 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 319225002611 putative active site [active] 319225002612 heme pocket [chemical binding]; other site 319225002613 GAF domain; Region: GAF_2; pfam13185 319225002614 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 319225002615 dimer interface [polypeptide binding]; other site 319225002616 phosphorylation site [posttranslational modification] 319225002617 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 319225002618 ATP binding site [chemical binding]; other site 319225002619 Mg2+ binding site [ion binding]; other site 319225002620 G-X-G motif; other site 319225002621 Response regulator receiver domain; Region: Response_reg; pfam00072 319225002622 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 319225002623 active site 319225002624 phosphorylation site [posttranslational modification] 319225002625 intermolecular recognition site; other site 319225002626 dimerization interface [polypeptide binding]; other site 319225002627 KilA-N domain; Region: KilA-N; pfam04383 319225002628 Predicted transcriptional regulator [Transcription]; Region: COG2944 319225002629 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 319225002630 non-specific DNA binding site [nucleotide binding]; other site 319225002631 salt bridge; other site 319225002632 sequence-specific DNA binding site [nucleotide binding]; other site 319225002633 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 319225002634 multiple promoter invertase; Provisional; Region: mpi; PRK13413 319225002635 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 319225002636 catalytic residues [active] 319225002637 catalytic nucleophile [active] 319225002638 Presynaptic Site I dimer interface [polypeptide binding]; other site 319225002639 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 319225002640 Synaptic Flat tetramer interface [polypeptide binding]; other site 319225002641 Synaptic Site I dimer interface [polypeptide binding]; other site 319225002642 DNA binding site [nucleotide binding] 319225002643 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 319225002644 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 319225002645 NMT1/THI5 like; Region: NMT1; pfam09084 319225002646 Cache domain; Region: Cache_1; pfam02743 319225002647 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 319225002648 dimerization interface [polypeptide binding]; other site 319225002649 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 319225002650 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 319225002651 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002652 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 319225002653 membrane-bound complex binding site; other site 319225002654 hinge residues; other site 319225002655 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 319225002656 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002657 substrate binding pocket [chemical binding]; other site 319225002658 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002659 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 319225002660 membrane-bound complex binding site; other site 319225002661 hinge residues; other site 319225002662 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002663 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 319225002664 substrate binding pocket [chemical binding]; other site 319225002665 membrane-bound complex binding site; other site 319225002666 hinge residues; other site 319225002667 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002668 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 319225002669 substrate binding pocket [chemical binding]; other site 319225002670 membrane-bound complex binding site; other site 319225002671 hinge residues; other site 319225002672 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 319225002673 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002674 substrate binding pocket [chemical binding]; other site 319225002675 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 319225002676 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 319225002677 dimer interface [polypeptide binding]; other site 319225002678 conserved gate region; other site 319225002679 putative PBP binding loops; other site 319225002680 ABC-ATPase subunit interface; other site 319225002681 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002682 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 319225002683 membrane-bound complex binding site; other site 319225002684 hinge residues; other site 319225002685 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 319225002686 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225002687 substrate binding pocket [chemical binding]; other site 319225002688 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 319225002689 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 319225002690 dimer interface [polypeptide binding]; other site 319225002691 conserved gate region; other site 319225002692 putative PBP binding loops; other site 319225002693 ABC-ATPase subunit interface; other site 319225002694 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 319225002695 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 319225002696 Walker A/P-loop; other site 319225002697 ATP binding site [chemical binding]; other site 319225002698 Q-loop/lid; other site 319225002699 ABC transporter signature motif; other site 319225002700 Walker B; other site 319225002701 D-loop; other site 319225002702 H-loop/switch region; other site 319225002703 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 319225002704 anti sigma factor interaction site; other site 319225002705 regulatory phosphorylation site [posttranslational modification]; other site 319225002706 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 319225002707 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 319225002708 xanthine permease; Region: pbuX; TIGR03173 319225002709 Cache domain; Region: Cache_1; pfam02743 319225002710 nif11-like leader peptide domain; Region: ocin_TIGR03798 319225002711 nif11-like leader peptide domain; Region: ocin_TIGR03798 319225002712 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 319225002713 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 319225002714 putative active site [active] 319225002715 putative NTP binding site [chemical binding]; other site 319225002716 putative nucleic acid binding site [nucleotide binding]; other site 319225002717 putative geopeptide radical SAM maturase; Region: geopep_mat_rSAM; TIGR04280 319225002718 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 319225002719 FeS/SAM binding site; other site 319225002720 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 319225002721 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 319225002722 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225002723 Outer membrane efflux protein; Region: OEP; pfam02321 319225002724 Outer membrane efflux protein; Region: OEP; pfam02321 319225002725 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 319225002726 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 319225002727 putative active site [active] 319225002728 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319225002729 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225002730 Walker A/P-loop; other site 319225002731 ATP binding site [chemical binding]; other site 319225002732 Q-loop/lid; other site 319225002733 ABC transporter signature motif; other site 319225002734 Walker B; other site 319225002735 D-loop; other site 319225002736 H-loop/switch region; other site 319225002737 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 319225002738 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319225002739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225002740 Walker A/P-loop; other site 319225002741 ATP binding site [chemical binding]; other site 319225002742 Q-loop/lid; other site 319225002743 ABC transporter signature motif; other site 319225002744 Walker B; other site 319225002745 D-loop; other site 319225002746 H-loop/switch region; other site 319225002747 nif11-like leader peptide domain; Region: ocin_TIGR03798 319225002748 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 319225002749 putative FMN binding site [chemical binding]; other site 319225002750 NADPH bind site [chemical binding]; other site 319225002751 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 319225002752 Leucine carboxyl methyltransferase; Region: LCM; cl01306 319225002753 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 319225002754 YcaO-like family; Region: YcaO; pfam02624 319225002755 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 319225002756 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 319225002757 nif11-like leader peptide domain; Region: ocin_TIGR03798 319225002758 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319225002759 Coenzyme A binding pocket [chemical binding]; other site 319225002760 nif11-like leader peptide domain; Region: ocin_TIGR03798 319225002761 nif11-like leader peptide domain; Region: ocin_TIGR03798 319225002762 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 319225002763 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 319225002764 Response regulator receiver domain; Region: Response_reg; pfam00072 319225002765 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 319225002766 active site 319225002767 phosphorylation site [posttranslational modification] 319225002768 intermolecular recognition site; other site 319225002769 dimerization interface [polypeptide binding]; other site 319225002770 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 319225002771 PAS fold; Region: PAS_4; pfam08448 319225002772 putative active site [active] 319225002773 heme pocket [chemical binding]; other site 319225002774 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 319225002775 dimer interface [polypeptide binding]; other site 319225002776 phosphorylation site [posttranslational modification] 319225002777 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 319225002778 ATP binding site [chemical binding]; other site 319225002779 Mg2+ binding site [ion binding]; other site 319225002780 G-X-G motif; other site 319225002781 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 319225002782 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 319225002783 catalytic loop [active] 319225002784 iron binding site [ion binding]; other site 319225002785 cell division protein FtsZ; Validated; Region: PRK09330 319225002786 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 319225002787 nucleotide binding site [chemical binding]; other site 319225002788 SulA interaction site; other site 319225002789 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 319225002790 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 319225002791 Malic enzyme, N-terminal domain; Region: malic; pfam00390 319225002792 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 319225002793 NAD(P) binding pocket [chemical binding]; other site 319225002794 NlpC/P60 family; Region: NLPC_P60; pfam00877 319225002795 SNF2 Helicase protein; Region: DUF3670; pfam12419 319225002796 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 319225002797 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 319225002798 ATP binding site [chemical binding]; other site 319225002799 putative Mg++ binding site [ion binding]; other site 319225002800 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 319225002801 nucleotide binding region [chemical binding]; other site 319225002802 ATP-binding site [chemical binding]; other site 319225002803 Uncharacterized conserved protein [Function unknown]; Region: COG4279 319225002804 SWIM zinc finger; Region: SWIM; pfam04434 319225002805 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 319225002806 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 319225002807 methionine sulfoxide reductase A; Provisional; Region: PRK14054 319225002808 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 319225002809 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 319225002810 DNA binding residues [nucleotide binding] 319225002811 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 319225002812 zinc transporter ZupT; Provisional; Region: PRK04201 319225002813 ZIP Zinc transporter; Region: Zip; pfam02535 319225002814 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 319225002815 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225002816 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 319225002817 active site 319225002818 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 319225002819 UbiA prenyltransferase family; Region: UbiA; pfam01040 319225002820 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 319225002821 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 319225002822 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 319225002823 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 319225002824 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 319225002825 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 319225002826 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 319225002827 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 319225002828 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 319225002829 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 319225002830 Cl- selectivity filter; other site 319225002831 Cl- binding residues [ion binding]; other site 319225002832 pore gating glutamate residue; other site 319225002833 dimer interface [polypeptide binding]; other site 319225002834 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 319225002835 Protein of unknown function DUF89; Region: DUF89; cl15397 319225002836 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 319225002837 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 319225002838 TM-ABC transporter signature motif; other site 319225002839 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 319225002840 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 319225002841 Walker A/P-loop; other site 319225002842 ATP binding site [chemical binding]; other site 319225002843 Q-loop/lid; other site 319225002844 ABC transporter signature motif; other site 319225002845 Walker B; other site 319225002846 D-loop; other site 319225002847 H-loop/switch region; other site 319225002848 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 319225002849 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 319225002850 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 319225002851 putative NAD(P) binding site [chemical binding]; other site 319225002852 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 319225002853 Na binding site [ion binding]; other site 319225002854 Membrane protein of unknown function; Region: DUF360; pfam04020 319225002855 DNA repair protein RadA; Provisional; Region: PRK11823 319225002856 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 319225002857 Walker A motif/ATP binding site; other site 319225002858 ATP binding site [chemical binding]; other site 319225002859 Walker B motif; other site 319225002860 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 319225002861 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14174 319225002862 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 319225002863 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 319225002864 homodimer interface [polypeptide binding]; other site 319225002865 NADP binding site [chemical binding]; other site 319225002866 substrate binding site [chemical binding]; other site 319225002867 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 319225002868 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 319225002869 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 319225002870 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 319225002871 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 319225002872 active site 319225002873 HslU subunit interaction site [polypeptide binding]; other site 319225002874 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 319225002875 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 319225002876 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 319225002877 Walker A motif; other site 319225002878 ATP binding site [chemical binding]; other site 319225002879 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 319225002880 Walker B motif; other site 319225002881 arginine finger; other site 319225002882 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 319225002883 Dehydroquinase class II; Region: DHquinase_II; pfam01220 319225002884 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 319225002885 trimer interface [polypeptide binding]; other site 319225002886 active site 319225002887 dimer interface [polypeptide binding]; other site 319225002888 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 319225002889 TPR motif; other site 319225002890 binding surface 319225002891 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 319225002892 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 319225002893 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 319225002894 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 319225002895 B12 binding site [chemical binding]; other site 319225002896 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 319225002897 FeS/SAM binding site; other site 319225002898 bacteriochlorophyll c synthase; Provisional; Region: PRK12392 319225002899 UbiA prenyltransferase family; Region: UbiA; pfam01040 319225002900 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319225002901 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 319225002902 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319225002903 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 319225002904 putative active site [active] 319225002905 heme pocket [chemical binding]; other site 319225002906 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 319225002907 heme pocket [chemical binding]; other site 319225002908 putative active site [active] 319225002909 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319225002910 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 319225002911 putative active site [active] 319225002912 heme pocket [chemical binding]; other site 319225002913 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 319225002914 putative active site [active] 319225002915 heme pocket [chemical binding]; other site 319225002916 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319225002917 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 319225002918 dimer interface [polypeptide binding]; other site 319225002919 phosphorylation site [posttranslational modification] 319225002920 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 319225002921 ATP binding site [chemical binding]; other site 319225002922 Mg2+ binding site [ion binding]; other site 319225002923 G-X-G motif; other site 319225002924 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225002925 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 319225002926 active site 319225002927 phosphorylation site [posttranslational modification] 319225002928 intermolecular recognition site; other site 319225002929 dimerization interface [polypeptide binding]; other site 319225002930 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 319225002931 DNA binding site [nucleotide binding] 319225002932 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 319225002933 Ligand Binding Site [chemical binding]; other site 319225002934 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 319225002935 Ligand Binding Site [chemical binding]; other site 319225002936 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 319225002937 high affinity sulphate transporter 1; Region: sulP; TIGR00815 319225002938 Sulfate transporter family; Region: Sulfate_transp; pfam00916 319225002939 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 319225002940 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 319225002941 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 319225002942 dimer interface [polypeptide binding]; other site 319225002943 active site 319225002944 metal binding site [ion binding]; metal-binding site 319225002945 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 319225002946 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 319225002947 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319225002948 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 319225002949 Soluble P-type ATPase [General function prediction only]; Region: COG4087 319225002950 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 319225002951 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 319225002952 primosomal protein N' Region: priA; TIGR00595 319225002953 ATP binding site [chemical binding]; other site 319225002954 putative Mg++ binding site [ion binding]; other site 319225002955 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 319225002956 ATP-binding site [chemical binding]; other site 319225002957 adenylate kinase; Reviewed; Region: adk; PRK00279 319225002958 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 319225002959 AMP-binding site [chemical binding]; other site 319225002960 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 319225002961 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14456 319225002962 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 319225002963 FeS/SAM binding site; other site 319225002964 Transcriptional regulators [Transcription]; Region: MarR; COG1846 319225002965 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 319225002966 putative Zn2+ binding site [ion binding]; other site 319225002967 putative DNA binding site [nucleotide binding]; other site 319225002968 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 319225002969 DHH family; Region: DHH; pfam01368 319225002970 DHHA1 domain; Region: DHHA1; pfam02272 319225002971 multifunctional aminopeptidase A; Provisional; Region: PRK00913 319225002972 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 319225002973 interface (dimer of trimers) [polypeptide binding]; other site 319225002974 Substrate-binding/catalytic site; other site 319225002975 Zn-binding sites [ion binding]; other site 319225002976 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225002977 PGAP1-like protein; Region: PGAP1; pfam07819 319225002978 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 319225002979 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 319225002980 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 319225002981 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 319225002982 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 319225002983 dimer interface [polypeptide binding]; other site 319225002984 substrate binding site [chemical binding]; other site 319225002985 ATP binding site [chemical binding]; other site 319225002986 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 319225002987 thiamine phosphate binding site [chemical binding]; other site 319225002988 active site 319225002989 pyrophosphate binding site [ion binding]; other site 319225002990 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 319225002991 active site 319225002992 thiamine phosphate binding site [chemical binding]; other site 319225002993 pyrophosphate binding site [ion binding]; other site 319225002994 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 319225002995 homotrimer interaction site [polypeptide binding]; other site 319225002996 putative active site [active] 319225002997 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 319225002998 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 319225002999 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 319225003000 protein binding site [polypeptide binding]; other site 319225003001 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 319225003002 Catalytic dyad [active] 319225003003 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 319225003004 putative lipid binding site [chemical binding]; other site 319225003005 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 319225003006 putative lipid binding site [chemical binding]; other site 319225003007 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 319225003008 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 319225003009 putative ribose interaction site [chemical binding]; other site 319225003010 putative ADP binding site [chemical binding]; other site 319225003011 signal recognition particle protein; Provisional; Region: PRK10867 319225003012 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 319225003013 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 319225003014 P loop; other site 319225003015 GTP binding site [chemical binding]; other site 319225003016 Signal peptide binding domain; Region: SRP_SPB; pfam02978 319225003017 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 319225003018 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 319225003019 RimM N-terminal domain; Region: RimM; pfam01782 319225003020 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 319225003021 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 319225003022 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 319225003023 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 319225003024 endonuclease III; Region: ENDO3c; smart00478 319225003025 minor groove reading motif; other site 319225003026 helix-hairpin-helix signature motif; other site 319225003027 substrate binding pocket [chemical binding]; other site 319225003028 active site 319225003029 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 319225003030 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 319225003031 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 319225003032 acyl-activating enzyme (AAE) consensus motif; other site 319225003033 putative AMP binding site [chemical binding]; other site 319225003034 putative active site [active] 319225003035 putative CoA binding site [chemical binding]; other site 319225003036 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 319225003037 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 319225003038 ligand binding site; other site 319225003039 tetramer interface; other site 319225003040 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 319225003041 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 319225003042 active site 319225003043 NAD binding site [chemical binding]; other site 319225003044 metal binding site [ion binding]; metal-binding site 319225003045 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 319225003046 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 319225003047 inhibitor-cofactor binding pocket; inhibition site 319225003048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225003049 catalytic residue [active] 319225003050 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 319225003051 Predicted transcriptional regulator [Transcription]; Region: COG3905 319225003052 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 319225003053 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225003054 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 319225003055 DXD motif; other site 319225003056 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 319225003057 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 319225003058 NodB motif; other site 319225003059 active site 319225003060 catalytic site [active] 319225003061 metal binding site [ion binding]; metal-binding site 319225003062 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 319225003063 Fungal chitosanase of glycosyl hydrolase group 75; Region: Glyco_hydro_75; pfam07335 319225003064 RmuC family; Region: RmuC; pfam02646 319225003065 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 319225003066 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 319225003067 ATP binding site [chemical binding]; other site 319225003068 Mg++ binding site [ion binding]; other site 319225003069 motif III; other site 319225003070 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 319225003071 nucleotide binding region [chemical binding]; other site 319225003072 ATP-binding site [chemical binding]; other site 319225003073 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 319225003074 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 319225003075 binding surface 319225003076 TPR motif; other site 319225003077 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 319225003078 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225003079 DXD motif; other site 319225003080 Cellulose synthase-like protein; Region: PLN02893 319225003081 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 319225003082 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 319225003083 active site 319225003084 metal binding site [ion binding]; metal-binding site 319225003085 DNA binding site [nucleotide binding] 319225003086 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319225003087 AAA domain; Region: AAA_23; pfam13476 319225003088 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225003089 Walker A/P-loop; other site 319225003090 ATP binding site [chemical binding]; other site 319225003091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225003092 Q-loop/lid; other site 319225003093 ABC transporter signature motif; other site 319225003094 Walker B; other site 319225003095 D-loop; other site 319225003096 H-loop/switch region; other site 319225003097 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 319225003098 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 319225003099 Part of AAA domain; Region: AAA_19; pfam13245 319225003100 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 319225003101 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 319225003102 AAA domain; Region: AAA_30; pfam13604 319225003103 Family description; Region: UvrD_C_2; pfam13538 319225003104 5-oxoprolinase; Region: PLN02666 319225003105 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 319225003106 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 319225003107 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 319225003108 HTH domain; Region: HTH_11; cl17392 319225003109 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 319225003110 active site 319225003111 dimer interfaces [polypeptide binding]; other site 319225003112 catalytic residues [active] 319225003113 DsrE/DsrF-like family; Region: DrsE; cl00672 319225003114 Uncharacterized conserved protein [Function unknown]; Region: COG1434 319225003115 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 319225003116 putative active site [active] 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 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003119 substrate binding pocket [chemical binding]; other site 319225003120 membrane-bound complex binding site; other site 319225003121 hinge residues; other site 319225003122 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 319225003123 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 319225003124 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319225003125 catalytic residue [active] 319225003126 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 319225003127 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 319225003128 P-loop; other site 319225003129 Magnesium ion binding site [ion binding]; other site 319225003130 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 319225003131 Magnesium ion binding site [ion binding]; other site 319225003132 CHAD domain; Region: CHAD; pfam05235 319225003133 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 319225003134 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 319225003135 ligand binding site [chemical binding]; other site 319225003136 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 319225003137 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 319225003138 putative NADP binding site [chemical binding]; other site 319225003139 putative substrate binding site [chemical binding]; other site 319225003140 active site 319225003141 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 319225003142 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 319225003143 ligand binding site [chemical binding]; other site 319225003144 flexible hinge region; other site 319225003145 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 319225003146 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 319225003147 metal binding triad; other site 319225003148 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225003149 Q-loop/lid; other site 319225003150 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 319225003151 active site 319225003152 catalytic site [active] 319225003153 substrate binding site [chemical binding]; other site 319225003154 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 319225003155 S-adenosylmethionine binding site [chemical binding]; other site 319225003156 dihydroorotase; Validated; Region: pyrC; PRK09357 319225003157 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 319225003158 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 319225003159 active site 319225003160 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 319225003161 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 319225003162 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 319225003163 polyphosphate kinase; Provisional; Region: PRK05443 319225003164 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 319225003165 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 319225003166 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 319225003167 putative domain interface [polypeptide binding]; other site 319225003168 putative active site [active] 319225003169 catalytic site [active] 319225003170 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 319225003171 putative domain interface [polypeptide binding]; other site 319225003172 putative active site [active] 319225003173 catalytic site [active] 319225003174 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 319225003175 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 319225003176 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319225003177 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 319225003178 non-specific DNA binding site [nucleotide binding]; other site 319225003179 salt bridge; other site 319225003180 sequence-specific DNA binding site [nucleotide binding]; other site 319225003181 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 319225003182 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 319225003183 Catalytic site [active] 319225003184 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 319225003185 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 319225003186 metal binding site [ion binding]; metal-binding site 319225003187 dimer interface [polypeptide binding]; other site 319225003188 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 319225003189 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 319225003190 intersubunit interface [polypeptide binding]; other site 319225003191 active site 319225003192 zinc binding site [ion binding]; other site 319225003193 Na+ binding site [ion binding]; other site 319225003194 carboxy-terminal protease; Provisional; Region: PRK11186 319225003195 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 319225003196 protein binding site [polypeptide binding]; other site 319225003197 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 319225003198 Catalytic dyad [active] 319225003199 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 319225003200 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 319225003201 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 319225003202 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319225003203 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319225003204 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 319225003205 dimer interface [polypeptide binding]; other site 319225003206 phosphorylation site [posttranslational modification] 319225003207 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 319225003208 ATP binding site [chemical binding]; other site 319225003209 Mg2+ binding site [ion binding]; other site 319225003210 G-X-G motif; other site 319225003211 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225003212 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 319225003213 active site 319225003214 phosphorylation site [posttranslational modification] 319225003215 intermolecular recognition site; other site 319225003216 dimerization interface [polypeptide binding]; other site 319225003217 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 319225003218 DNA binding site [nucleotide binding] 319225003219 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; cd00028 319225003220 dimerization interface [polypeptide binding]; other site 319225003221 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 319225003222 mannose binding site [chemical binding]; other site 319225003223 Plant protein of unknown function (DUF946); Region: DUF946; pfam06101 319225003224 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 319225003225 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 319225003226 binding surface 319225003227 TPR repeat; Region: TPR_11; pfam13414 319225003228 TPR motif; other site 319225003229 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 319225003230 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 319225003231 Plant protein of unknown function (DUF946); Region: DUF946; pfam06101 319225003232 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 319225003233 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 319225003234 catalytic site [active] 319225003235 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 319225003236 NMT1/THI5 like; Region: NMT1; pfam09084 319225003237 Cache domain; Region: Cache_1; pfam02743 319225003238 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 319225003239 dimerization interface [polypeptide binding]; other site 319225003240 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 319225003241 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 319225003242 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003243 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 319225003244 membrane-bound complex binding site; other site 319225003245 hinge residues; other site 319225003246 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 319225003247 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003248 substrate binding pocket [chemical binding]; other site 319225003249 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003250 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 319225003251 membrane-bound complex binding site; other site 319225003252 hinge residues; other site 319225003253 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003254 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 319225003255 substrate binding pocket [chemical binding]; other site 319225003256 membrane-bound complex binding site; other site 319225003257 hinge residues; other site 319225003258 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003259 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 319225003260 substrate binding pocket [chemical binding]; other site 319225003261 membrane-bound complex binding site; other site 319225003262 hinge residues; other site 319225003263 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 319225003264 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003265 substrate binding pocket [chemical binding]; other site 319225003266 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 319225003267 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 319225003268 dimer interface [polypeptide binding]; other site 319225003269 conserved gate region; other site 319225003270 putative PBP binding loops; other site 319225003271 ABC-ATPase subunit interface; other site 319225003272 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003273 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 319225003274 membrane-bound complex binding site; other site 319225003275 hinge residues; other site 319225003276 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 319225003277 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 319225003278 substrate binding pocket [chemical binding]; other site 319225003279 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 319225003280 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 319225003281 dimer interface [polypeptide binding]; other site 319225003282 conserved gate region; other site 319225003283 putative PBP binding loops; other site 319225003284 ABC-ATPase subunit interface; other site 319225003285 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 319225003286 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 319225003287 Walker A/P-loop; other site 319225003288 ATP binding site [chemical binding]; other site 319225003289 Q-loop/lid; other site 319225003290 ABC transporter signature motif; other site 319225003291 Walker B; other site 319225003292 D-loop; other site 319225003293 H-loop/switch region; other site 319225003294 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 319225003295 anti sigma factor interaction site; other site 319225003296 regulatory phosphorylation site [posttranslational modification]; other site 319225003297 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 319225003298 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 319225003299 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 319225003300 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 319225003301 non-specific DNA binding site [nucleotide binding]; other site 319225003302 salt bridge; other site 319225003303 sequence-specific DNA binding site [nucleotide binding]; other site 319225003304 argininosuccinate lyase; Provisional; Region: PRK00855 319225003305 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 319225003306 active sites [active] 319225003307 tetramer interface [polypeptide binding]; other site 319225003308 argininosuccinate synthase; Provisional; Region: PRK13820 319225003309 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 319225003310 ANP binding site [chemical binding]; other site 319225003311 Substrate Binding Site II [chemical binding]; other site 319225003312 Substrate Binding Site I [chemical binding]; other site 319225003313 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 319225003314 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 319225003315 ornithine carbamoyltransferase; Provisional; Region: PRK00779 319225003316 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 319225003317 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 319225003318 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 319225003319 feedback inhibition sensing region; other site 319225003320 homohexameric interface [polypeptide binding]; other site 319225003321 nucleotide binding site [chemical binding]; other site 319225003322 N-acetyl-L-glutamate binding site [chemical binding]; other site 319225003323 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 319225003324 heterotetramer interface [polypeptide binding]; other site 319225003325 active site pocket [active] 319225003326 cleavage site 319225003327 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 319225003328 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 319225003329 PBP superfamily domain; Region: PBP_like_2; pfam12849 319225003330 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 319225003331 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 319225003332 metal binding site [ion binding]; metal-binding site 319225003333 active site 319225003334 I-site; other site 319225003335 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225003336 FtsX-like permease family; Region: FtsX; pfam02687 319225003337 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225003338 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 319225003339 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 319225003340 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 319225003341 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 319225003342 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319225003343 Coenzyme A binding pocket [chemical binding]; other site 319225003344 Predicted membrane protein [Function unknown]; Region: COG2119 319225003345 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 319225003346 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 319225003347 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 319225003348 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 319225003349 Walker A/P-loop; other site 319225003350 ATP binding site [chemical binding]; other site 319225003351 Q-loop/lid; other site 319225003352 ABC transporter signature motif; other site 319225003353 Walker B; other site 319225003354 D-loop; other site 319225003355 H-loop/switch region; other site 319225003356 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 319225003357 heat shock protein HtpX; Provisional; Region: PRK05457 319225003358 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 319225003359 Succinyl-CoA synthetase, beta subunit [Energy production and conversion]; Region: SucC; COG0045 319225003360 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 319225003361 ATP citrate (pro-S)-lyase; Region: PLN02522 319225003362 CoA binding domain; Region: CoA_binding; smart00881 319225003363 CoA-ligase; Region: Ligase_CoA; pfam00549 319225003364 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 319225003365 active site 319225003366 oxalacetate binding site [chemical binding]; other site 319225003367 citrylCoA binding site [chemical binding]; other site 319225003368 coenzyme A binding site [chemical binding]; other site 319225003369 catalytic triad [active] 319225003370 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 319225003371 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 319225003372 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 319225003373 alpha subunit interaction interface [polypeptide binding]; other site 319225003374 Walker A motif; other site 319225003375 ATP binding site [chemical binding]; other site 319225003376 Walker B motif; other site 319225003377 inhibitor binding site; inhibition site 319225003378 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319225003379 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 319225003380 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 319225003381 gamma subunit interface [polypeptide binding]; other site 319225003382 epsilon subunit interface [polypeptide binding]; other site 319225003383 LBP interface [polypeptide binding]; other site 319225003384 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 319225003385 F1/F0 ATPase, Methanosarcina type, subunit 2; Region: F1F0_chp_2; TIGR03165 319225003386 alternate F1F0 ATPase, F0 subunit A; Region: altF1_A; TIGR03306 319225003387 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 319225003388 alternate F1F0 ATPase, F0 subunit C; Region: alt_F1F0_F0_C; TIGR03322 319225003389 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 319225003390 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 319225003391 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 319225003392 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 319225003393 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 319225003394 Walker A motif; other site 319225003395 ATP binding site [chemical binding]; other site 319225003396 Walker B motif; other site 319225003397 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319225003398 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 319225003399 core domain interface [polypeptide binding]; other site 319225003400 delta subunit interface [polypeptide binding]; other site 319225003401 epsilon subunit interface [polypeptide binding]; other site 319225003402 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 319225003403 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 319225003404 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 319225003405 dimer interface [polypeptide binding]; other site 319225003406 PYR/PP interface [polypeptide binding]; other site 319225003407 TPP binding site [chemical binding]; other site 319225003408 substrate binding site [chemical binding]; other site 319225003409 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 319225003410 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 319225003411 TPP-binding site [chemical binding]; other site 319225003412 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 319225003413 phosphate acetyltransferase; Provisional; Region: PRK11890 319225003414 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 319225003415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225003416 NAD(P) binding site [chemical binding]; other site 319225003417 active site 319225003418 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 319225003419 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 319225003420 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 319225003421 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 319225003422 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 319225003423 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 319225003424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225003425 Walker A/P-loop; other site 319225003426 ATP binding site [chemical binding]; other site 319225003427 Q-loop/lid; other site 319225003428 ABC transporter signature motif; other site 319225003429 Walker B; other site 319225003430 D-loop; other site 319225003431 H-loop/switch region; other site 319225003432 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 319225003433 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 319225003434 Walker A/P-loop; other site 319225003435 ATP binding site [chemical binding]; other site 319225003436 Q-loop/lid; other site 319225003437 ABC transporter signature motif; other site 319225003438 Walker B; other site 319225003439 D-loop; other site 319225003440 H-loop/switch region; other site 319225003441 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 319225003442 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225003443 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 319225003444 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 319225003445 lipoyl synthase; Provisional; Region: PRK05481 319225003446 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 319225003447 FeS/SAM binding site; other site 319225003448 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 319225003449 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319225003450 NAD(P) binding site [chemical binding]; other site 319225003451 putative active site [active] 319225003452 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 319225003453 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 319225003454 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 319225003455 helix-hairpin-helix signature motif; other site 319225003456 substrate binding pocket [chemical binding]; other site 319225003457 active site 319225003458 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 319225003459 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 319225003460 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 319225003461 nucleotide binding region [chemical binding]; other site 319225003462 ATP-binding site [chemical binding]; other site 319225003463 SEC-C motif; Region: SEC-C; pfam02810 319225003464 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 319225003465 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 319225003466 dimerization interface [polypeptide binding]; other site 319225003467 ATP binding site [chemical binding]; other site 319225003468 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 319225003469 dimerization interface [polypeptide binding]; other site 319225003470 ATP binding site [chemical binding]; other site 319225003471 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 319225003472 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 319225003473 putative substrate binding site [chemical binding]; other site 319225003474 putative ATP binding site [chemical binding]; other site 319225003475 PAS domain S-box; Region: sensory_box; TIGR00229 319225003476 PAS domain S-box; Region: sensory_box; TIGR00229 319225003477 PAS domain; Region: PAS_8; pfam13188 319225003478 putative active site [active] 319225003479 heme pocket [chemical binding]; other site 319225003480 GAF domain; Region: GAF_2; pfam13185 319225003481 GAF domain; Region: GAF_3; pfam13492 319225003482 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 319225003483 dimer interface [polypeptide binding]; other site 319225003484 phosphorylation site [posttranslational modification] 319225003485 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 319225003486 ATP binding site [chemical binding]; other site 319225003487 Mg2+ binding site [ion binding]; other site 319225003488 G-X-G motif; other site 319225003489 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 319225003490 PBP superfamily domain; Region: PBP_like_2; cl17296 319225003491 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 319225003492 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 319225003493 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319225003494 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 319225003495 dimer interface [polypeptide binding]; other site 319225003496 phosphorylation site [posttranslational modification] 319225003497 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 319225003498 ATP binding site [chemical binding]; other site 319225003499 Mg2+ binding site [ion binding]; other site 319225003500 G-X-G motif; other site 319225003501 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225003502 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 319225003503 active site 319225003504 phosphorylation site [posttranslational modification] 319225003505 intermolecular recognition site; other site 319225003506 dimerization interface [polypeptide binding]; other site 319225003507 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 319225003508 DNA binding site [nucleotide binding] 319225003509 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225003510 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 319225003511 DNA binding site [nucleotide binding] 319225003512 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 319225003513 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 319225003514 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 319225003515 aspartate aminotransferase; Provisional; Region: PRK08636 319225003516 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 319225003517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225003518 homodimer interface [polypeptide binding]; other site 319225003519 catalytic residue [active] 319225003520 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 319225003521 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 319225003522 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 319225003523 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 319225003524 Cysteine-rich domain; Region: CCG; pfam02754 319225003525 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 319225003526 Cysteine-rich domain; Region: CCG; pfam02754 319225003527 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 319225003528 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 319225003529 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 319225003530 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 319225003531 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 319225003532 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 319225003533 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 319225003534 FAD binding pocket [chemical binding]; other site 319225003535 FAD binding motif [chemical binding]; other site 319225003536 phosphate binding motif [ion binding]; other site 319225003537 beta-alpha-beta structure motif; other site 319225003538 NAD binding pocket [chemical binding]; other site 319225003539 Iron coordination center [ion binding]; other site 319225003540 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 319225003541 FAD binding domain; Region: FAD_binding_4; pfam01565 319225003542 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 319225003543 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 319225003544 putative heme binding site [chemical binding]; other site 319225003545 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 319225003546 dimer interface [polypeptide binding]; other site 319225003547 FMN binding site [chemical binding]; other site 319225003548 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 319225003549 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 319225003550 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 319225003551 Dicarboxylate transport; Region: DctA-YdbH; cl14674 319225003552 Dicarboxylate transport; Region: DctA-YdbH; cl14674 319225003553 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 319225003554 flavoprotein, HI0933 family; Region: TIGR00275 319225003555 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319225003556 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225003557 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225003558 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225003559 FtsX-like permease family; Region: FtsX; pfam02687 319225003560 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319225003561 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319225003562 Walker A/P-loop; other site 319225003563 ATP binding site [chemical binding]; other site 319225003564 Q-loop/lid; other site 319225003565 ABC transporter signature motif; other site 319225003566 Walker B; other site 319225003567 D-loop; other site 319225003568 H-loop/switch region; other site 319225003569 SET domain; Region: SET; pfam00856 319225003570 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 319225003571 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 319225003572 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 319225003573 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 319225003574 gating phenylalanine in ion channel; other site 319225003575 OsmC-like protein; Region: OsmC; pfam02566 319225003576 cobalamin synthase; Reviewed; Region: cobS; PRK00235 319225003577 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 319225003578 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 319225003579 putative dimer interface [polypeptide binding]; other site 319225003580 active site pocket [active] 319225003581 putative cataytic base [active] 319225003582 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 319225003583 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 319225003584 homotrimer interface [polypeptide binding]; other site 319225003585 Walker A motif; other site 319225003586 GTP binding site [chemical binding]; other site 319225003587 Walker B motif; other site 319225003588 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 319225003589 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 319225003590 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 319225003591 Walker A/P-loop; other site 319225003592 ATP binding site [chemical binding]; other site 319225003593 Q-loop/lid; other site 319225003594 ABC transporter signature motif; other site 319225003595 Walker B; other site 319225003596 D-loop; other site 319225003597 H-loop/switch region; other site 319225003598 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 319225003599 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 319225003600 ABC-ATPase subunit interface; other site 319225003601 dimer interface [polypeptide binding]; other site 319225003602 putative PBP binding regions; other site 319225003603 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 319225003604 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 319225003605 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 319225003606 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 319225003607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225003608 homodimer interface [polypeptide binding]; other site 319225003609 catalytic residue [active] 319225003610 cobyric acid synthase; Provisional; Region: PRK00784 319225003611 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 319225003612 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 319225003613 catalytic triad [active] 319225003614 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 319225003615 putative FMN binding site [chemical binding]; other site 319225003616 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 319225003617 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 319225003618 N-terminal plug; other site 319225003619 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 319225003620 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 319225003621 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 319225003622 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 319225003623 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 319225003624 NAD(P) binding site [chemical binding]; other site 319225003625 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 319225003626 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 319225003627 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 319225003628 PhoU domain; Region: PhoU; pfam01895 319225003629 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 319225003630 putative hydrophobic ligand binding site [chemical binding]; other site 319225003631 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 319225003632 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 319225003633 cobalamin binding residues [chemical binding]; other site 319225003634 putative BtuC binding residues; other site 319225003635 dimer interface [polypeptide binding]; other site 319225003636 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 319225003637 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319225003638 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 319225003639 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 319225003640 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 319225003641 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 319225003642 active site 319225003643 NTP binding site [chemical binding]; other site 319225003644 metal binding triad [ion binding]; metal-binding site 319225003645 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 319225003646 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319225003647 Zn2+ binding site [ion binding]; other site 319225003648 Mg2+ binding site [ion binding]; other site 319225003649 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 319225003650 adenylosuccinate lyase; Provisional; Region: PRK07492 319225003651 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 319225003652 tetramer interface [polypeptide binding]; other site 319225003653 active site 319225003654 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 319225003655 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 319225003656 ferredoxin; Validated; Region: PRK07118 319225003657 Putative Fe-S cluster; Region: FeS; cl17515 319225003658 4Fe-4S binding domain; Region: Fer4; pfam00037 319225003659 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 319225003660 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 319225003661 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 319225003662 SLBB domain; Region: SLBB; pfam10531 319225003663 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 319225003664 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 319225003665 FMN-binding domain; Region: FMN_bind; cl01081 319225003666 electron transport complex RsxE subunit; Provisional; Region: PRK12405 319225003667 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 319225003668 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 319225003669 ApbE family; Region: ApbE; pfam02424 319225003670 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 319225003671 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 319225003672 active site 319225003673 dimer interface [polypeptide binding]; other site 319225003674 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 319225003675 dimer interface [polypeptide binding]; other site 319225003676 active site 319225003677 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 319225003678 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 319225003679 ATP binding site [chemical binding]; other site 319225003680 Mg2+ binding site [ion binding]; other site 319225003681 G-X-G motif; other site 319225003682 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 319225003683 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 319225003684 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319225003685 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 319225003686 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 319225003687 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 319225003688 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 319225003689 PAS fold; Region: PAS_3; pfam08447 319225003690 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 319225003691 PAS domain S-box; Region: sensory_box; TIGR00229 319225003692 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 319225003693 putative active site [active] 319225003694 heme pocket [chemical binding]; other site 319225003695 GAF domain; Region: GAF_2; pfam13185 319225003696 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 319225003697 dimer interface [polypeptide binding]; other site 319225003698 phosphorylation site [posttranslational modification] 319225003699 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 319225003700 ATP binding site [chemical binding]; other site 319225003701 Mg2+ binding site [ion binding]; other site 319225003702 G-X-G motif; other site 319225003703 Response regulator receiver domain; Region: Response_reg; pfam00072 319225003704 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 319225003705 active site 319225003706 phosphorylation site [posttranslational modification] 319225003707 intermolecular recognition site; other site 319225003708 dimerization interface [polypeptide binding]; other site 319225003709 Integrase core domain; Region: rve_3; cl15866 319225003710 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 319225003711 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 319225003712 P loop; other site 319225003713 Nucleotide binding site [chemical binding]; other site 319225003714 DTAP/Switch II; other site 319225003715 Switch I; other site 319225003716 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 319225003717 N-acetyl-D-glucosamine binding site [chemical binding]; other site 319225003718 catalytic residue [active] 319225003719 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319225003720 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 319225003721 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 319225003722 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 319225003723 dimerization interface 3.5A [polypeptide binding]; other site 319225003724 active site 319225003725 Alpha amylase catalytic domain found in maltosyltransferase; Region: AmyAc_MTase_N; cd11335 319225003726 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 319225003727 homodimer interface [polypeptide binding]; other site 319225003728 active site 319225003729 catalytic site [active] 319225003730 maltose binding site 2 [chemical binding]; other site 319225003731 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 319225003732 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 319225003733 substrate binding site [chemical binding]; other site 319225003734 ATP binding site [chemical binding]; other site 319225003735 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 319225003736 Na binding site [ion binding]; other site 319225003737 Maf-like protein; Region: Maf; pfam02545 319225003738 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 319225003739 active site 319225003740 dimer interface [polypeptide binding]; other site 319225003741 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 319225003742 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 319225003743 Protein of unknown function, DUF481; Region: DUF481; pfam04338 319225003744 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 319225003745 anti sigma factor interaction site; other site 319225003746 regulatory phosphorylation site [posttranslational modification]; other site 319225003747 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 319225003748 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 319225003749 S-adenosylmethionine binding site [chemical binding]; other site 319225003750 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 319225003751 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 319225003752 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 319225003753 active site 319225003754 HIGH motif; other site 319225003755 KMSKS motif; other site 319225003756 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 319225003757 tRNA binding surface [nucleotide binding]; other site 319225003758 anticodon binding site; other site 319225003759 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 319225003760 dimer interface [polypeptide binding]; other site 319225003761 putative tRNA-binding site [nucleotide binding]; other site 319225003762 PSP1 C-terminal conserved region; Region: PSP1; pfam04468 319225003763 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 319225003764 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 319225003765 putative acyl-acceptor binding pocket; other site 319225003766 aspartate aminotransferase; Provisional; Region: PRK05764 319225003767 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 319225003768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225003769 homodimer interface [polypeptide binding]; other site 319225003770 catalytic residue [active] 319225003771 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 319225003772 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 319225003773 active site 319225003774 (T/H)XGH motif; other site 319225003775 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 319225003776 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 319225003777 S-adenosylmethionine binding site [chemical binding]; other site 319225003778 transketolase; Reviewed; Region: PRK05899 319225003779 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 319225003780 TPP-binding site [chemical binding]; other site 319225003781 dimer interface [polypeptide binding]; other site 319225003782 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 319225003783 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 319225003784 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 319225003785 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 319225003786 ATP binding site [chemical binding]; other site 319225003787 active site 319225003788 substrate binding site [chemical binding]; other site 319225003789 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 319225003790 putative catalytic site [active] 319225003791 putative metal binding site [ion binding]; other site 319225003792 putative phosphate binding site [ion binding]; other site 319225003793 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 319225003794 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 319225003795 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 319225003796 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 319225003797 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 319225003798 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 319225003799 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 319225003800 active site 319225003801 DNA binding site [nucleotide binding] 319225003802 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 319225003803 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 319225003804 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 319225003805 Catalytic site [active] 319225003806 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 319225003807 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 319225003808 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 319225003809 putative active site [active] 319225003810 catalytic residue [active] 319225003811 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 319225003812 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225003813 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 319225003814 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 319225003815 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 319225003816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225003817 homodimer interface [polypeptide binding]; other site 319225003818 catalytic residue [active] 319225003819 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 319225003820 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 319225003821 DNA binding residues [nucleotide binding] 319225003822 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 319225003823 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 319225003824 NADP binding site [chemical binding]; other site 319225003825 homopentamer interface [polypeptide binding]; other site 319225003826 substrate binding site [chemical binding]; other site 319225003827 active site 319225003828 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 319225003829 PhoH-like protein; Region: PhoH; pfam02562 319225003830 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 319225003831 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 319225003832 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 319225003833 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 319225003834 active site 319225003835 phosphorylation site [posttranslational modification] 319225003836 intermolecular recognition site; other site 319225003837 dimerization interface [polypeptide binding]; other site 319225003838 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 319225003839 DNA binding site [nucleotide binding] 319225003840 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 319225003841 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 319225003842 dimerization interface [polypeptide binding]; other site 319225003843 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 319225003844 dimer interface [polypeptide binding]; other site 319225003845 phosphorylation site [posttranslational modification] 319225003846 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 319225003847 ATP binding site [chemical binding]; other site 319225003848 Mg2+ binding site [ion binding]; other site 319225003849 G-X-G motif; other site 319225003850 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 319225003851 DNA binding residues [nucleotide binding] 319225003852 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 319225003853 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 319225003854 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 319225003855 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 319225003856 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 319225003857 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 319225003858 substrate binding pocket [chemical binding]; other site 319225003859 chain length determination region; other site 319225003860 substrate-Mg2+ binding site; other site 319225003861 catalytic residues [active] 319225003862 aspartate-rich region 1; other site 319225003863 active site lid residues [active] 319225003864 aspartate-rich region 2; other site 319225003865 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 319225003866 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 319225003867 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 319225003868 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 319225003869 CoA-binding site [chemical binding]; other site 319225003870 ATP-binding [chemical binding]; other site 319225003871 Chorismate mutase type II; Region: CM_2; cl00693 319225003872 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 319225003873 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 319225003874 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 319225003875 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 319225003876 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 319225003877 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 319225003878 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 319225003879 putative RNA binding site [nucleotide binding]; other site 319225003880 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 319225003881 S-adenosylmethionine binding site [chemical binding]; other site 319225003882 Uncharacterized conserved protein [Function unknown]; Region: COG4748 319225003883 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 319225003884 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 319225003885 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 319225003886 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 319225003887 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319225003888 catalytic residues [active] 319225003889 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 319225003890 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 319225003891 metal-binding site [ion binding] 319225003892 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319225003893 Soluble P-type ATPase [General function prediction only]; Region: COG4087 319225003894 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 319225003895 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 319225003896 motif II; other site 319225003897 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 319225003898 PAS domain; Region: PAS_9; pfam13426 319225003899 putative active site [active] 319225003900 heme pocket [chemical binding]; other site 319225003901 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 319225003902 dimer interface [polypeptide binding]; other site 319225003903 phosphorylation site [posttranslational modification] 319225003904 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 319225003905 ATP binding site [chemical binding]; other site 319225003906 Mg2+ binding site [ion binding]; other site 319225003907 G-X-G motif; other site 319225003908 Response regulator receiver domain; Region: Response_reg; pfam00072 319225003909 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 319225003910 active site 319225003911 phosphorylation site [posttranslational modification] 319225003912 intermolecular recognition site; other site 319225003913 dimerization interface [polypeptide binding]; other site 319225003914 WYL domain; Region: WYL; pfam13280 319225003915 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 319225003916 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 319225003917 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 319225003918 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 319225003919 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 319225003920 motif II; other site 319225003921 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 319225003922 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 319225003923 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 319225003924 FAD binding domain; Region: FAD_binding_4; pfam01565 319225003925 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 319225003926 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 319225003927 Cysteine-rich domain; Region: CCG; pfam02754 319225003928 Cysteine-rich domain; Region: CCG; pfam02754 319225003929 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 319225003930 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 319225003931 active site 319225003932 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 319225003933 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003934 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003935 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003936 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003937 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225003938 DoxX-like family; Region: DoxX_3; pfam13781 319225003939 PhoU domain; Region: PhoU; pfam01895 319225003940 PhoU domain; Region: PhoU; pfam01895 319225003941 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 319225003942 PhoU domain; Region: PhoU; pfam01895 319225003943 PhoU domain; Region: PhoU; pfam01895 319225003944 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14275 319225003945 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 319225003946 Walker A/P-loop; other site 319225003947 ATP binding site [chemical binding]; other site 319225003948 Q-loop/lid; other site 319225003949 ABC transporter signature motif; other site 319225003950 Walker B; other site 319225003951 D-loop; other site 319225003952 H-loop/switch region; other site 319225003953 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 319225003954 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 319225003955 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 319225003956 dimer interface [polypeptide binding]; other site 319225003957 conserved gate region; other site 319225003958 putative PBP binding loops; other site 319225003959 ABC-ATPase subunit interface; other site 319225003960 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 319225003961 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 319225003962 dimer interface [polypeptide binding]; other site 319225003963 conserved gate region; other site 319225003964 putative PBP binding loops; other site 319225003965 ABC-ATPase subunit interface; other site 319225003966 PBP superfamily domain; Region: PBP_like_2; cl17296 319225003967 PBP superfamily domain; Region: PBP_like_2; cl17296 319225003968 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 319225003969 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 319225003970 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 319225003971 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 319225003972 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 319225003973 putative acyl-acceptor binding pocket; other site 319225003974 Methyltransferase domain; Region: Methyltransf_23; pfam13489 319225003975 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 319225003976 S-adenosylmethionine binding site [chemical binding]; other site 319225003977 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 319225003978 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 319225003979 motif II; other site 319225003980 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 319225003981 putative active site [active] 319225003982 putative metal binding site [ion binding]; other site 319225003983 Polymerase and Histidinol Phosphatase domain of Thermotoga like; Region: PHP_HisPPase_Thermotoga_like; cd12111 319225003984 PHP domain; Region: PHP; pfam02811 319225003985 active site 319225003986 dimer interface [polypeptide binding]; other site 319225003987 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 319225003988 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 319225003989 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 319225003990 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319225003991 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 319225003992 active site 319225003993 phosphorylation site [posttranslational modification] 319225003994 intermolecular recognition site; other site 319225003995 dimerization interface [polypeptide binding]; other site 319225003996 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 319225003997 Walker A motif; other site 319225003998 ATP binding site [chemical binding]; other site 319225003999 Walker B motif; other site 319225004000 arginine finger; other site 319225004001 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319225004002 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 319225004003 nudix motif; other site 319225004004 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 319225004005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319225004006 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225004007 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 319225004008 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319225004009 catalytic residues [active] 319225004010 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 319225004011 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 319225004012 active site 319225004013 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 319225004014 generic binding surface II; other site 319225004015 generic binding surface I; other site 319225004016 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 319225004017 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225004018 putative ADP-binding pocket [chemical binding]; other site 319225004019 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 319225004020 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 319225004021 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 319225004022 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 319225004023 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 319225004024 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 319225004025 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 319225004026 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 319225004027 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 319225004028 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 319225004029 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 319225004030 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 319225004031 active site 319225004032 catalytic residues [active] 319225004033 metal binding site [ion binding]; metal-binding site 319225004034 homodimer binding site [polypeptide binding]; other site 319225004035 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 319225004036 carboxyltransferase (CT) interaction site; other site 319225004037 biotinylation site [posttranslational modification]; other site 319225004038 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 319225004039 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 319225004040 Fumarase C-terminus; Region: Fumerase_C; pfam05683 319225004041 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 319225004042 Ligand Binding Site [chemical binding]; other site 319225004043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 319225004044 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 319225004045 AAA domain; Region: AAA_33; pfam13671 319225004046 active site 319225004047 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 319225004048 diiron binding motif [ion binding]; other site 319225004049 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 319225004050 heat shock protein 90; Provisional; Region: PRK05218 319225004051 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 319225004052 ATP binding site [chemical binding]; other site 319225004053 Mg2+ binding site [ion binding]; other site 319225004054 G-X-G motif; other site 319225004055 NeuB family; Region: NeuB; pfam03102 319225004056 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 319225004057 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 319225004058 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 319225004059 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 319225004060 dimer interface [polypeptide binding]; other site 319225004061 substrate binding site [chemical binding]; other site 319225004062 metal binding sites [ion binding]; metal-binding site 319225004063 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 319225004064 Mechanosensitive ion channel; Region: MS_channel; pfam00924 319225004065 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 319225004066 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 319225004067 G1 box; other site 319225004068 putative GEF interaction site [polypeptide binding]; other site 319225004069 GTP/Mg2+ binding site [chemical binding]; other site 319225004070 Switch I region; other site 319225004071 G2 box; other site 319225004072 G3 box; other site 319225004073 Switch II region; other site 319225004074 G4 box; other site 319225004075 G5 box; other site 319225004076 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 319225004077 phytoene desaturase; Region: phytoene_desat; TIGR02731 319225004078 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319225004079 recombination protein RecR; Reviewed; Region: recR; PRK00076 319225004080 RecR protein; Region: RecR; pfam02132 319225004081 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 319225004082 putative active site [active] 319225004083 putative metal-binding site [ion binding]; other site 319225004084 tetramer interface [polypeptide binding]; other site 319225004085 hypothetical protein; Provisional; Region: PRK14621 319225004086 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 319225004087 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 319225004088 PYR/PP interface [polypeptide binding]; other site 319225004089 dimer interface [polypeptide binding]; other site 319225004090 TPP binding site [chemical binding]; other site 319225004091 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 319225004092 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 319225004093 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 319225004094 S-adenosylmethionine binding site [chemical binding]; other site 319225004095 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 319225004096 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 319225004097 acyl-activating enzyme (AAE) consensus motif; other site 319225004098 putative AMP binding site [chemical binding]; other site 319225004099 putative active site [active] 319225004100 putative CoA binding site [chemical binding]; other site 319225004101 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319225004102 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 319225004103 dimer interface [polypeptide binding]; other site 319225004104 metal binding site [ion binding]; metal-binding site 319225004105 substrate binding site [chemical binding]; other site 319225004106 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 319225004107 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 319225004108 substrate binding site [chemical binding]; other site 319225004109 oxyanion hole (OAH) forming residues; other site 319225004110 trimer interface [polypeptide binding]; other site 319225004111 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 319225004112 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 319225004113 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 319225004114 heterodimer interface [polypeptide binding]; other site 319225004115 substrate interaction site [chemical binding]; other site 319225004116 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 319225004117 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 319225004118 active site 319225004119 substrate binding site [chemical binding]; other site 319225004120 coenzyme B12 binding site [chemical binding]; other site 319225004121 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 319225004122 B12 binding site [chemical binding]; other site 319225004123 cobalt ligand [ion binding]; other site 319225004124 membrane ATPase/protein kinase; Provisional; Region: PRK09435 319225004125 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 319225004126 Walker A; other site 319225004127 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 319225004128 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 319225004129 Ligand Binding Site [chemical binding]; other site 319225004130 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 319225004131 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 319225004132 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 319225004133 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 319225004134 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 319225004135 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 319225004136 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 319225004137 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 319225004138 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 319225004139 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 319225004140 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 319225004141 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 319225004142 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 319225004143 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 319225004144 active site 319225004145 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 319225004146 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 319225004147 amino acid transporter; Region: 2A0306; TIGR00909 319225004148 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 319225004149 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 319225004150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225004151 NAD(P) binding site [chemical binding]; other site 319225004152 active site 319225004153 thymidylate kinase; Validated; Region: tmk; PRK00698 319225004154 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 319225004155 TMP-binding site; other site 319225004156 ATP-binding site [chemical binding]; other site 319225004157 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 319225004158 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 319225004159 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 319225004160 motif II; other site 319225004161 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 319225004162 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 319225004163 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 319225004164 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 319225004165 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 319225004166 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 319225004167 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 319225004168 substrate binding site; other site 319225004169 dimer interface; other site 319225004170 HipA N-terminal domain; Region: Couple_hipA; pfam13657 319225004171 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 319225004172 HipA-like N-terminal domain; Region: HipA_N; pfam07805 319225004173 HipA-like C-terminal domain; Region: HipA_C; pfam07804 319225004174 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 319225004175 non-specific DNA binding site [nucleotide binding]; other site 319225004176 salt bridge; other site 319225004177 sequence-specific DNA binding site [nucleotide binding]; other site 319225004178 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 319225004179 CoenzymeA binding site [chemical binding]; other site 319225004180 subunit interaction site [polypeptide binding]; other site 319225004181 PHB binding site; other site 319225004182 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 319225004183 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 319225004184 B12 binding site [chemical binding]; other site 319225004185 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 319225004186 FeS/SAM binding site; other site 319225004187 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 319225004188 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 319225004189 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 319225004190 dimer interface [polypeptide binding]; other site 319225004191 anticodon binding site; other site 319225004192 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 319225004193 homodimer interface [polypeptide binding]; other site 319225004194 motif 1; other site 319225004195 active site 319225004196 motif 2; other site 319225004197 GAD domain; Region: GAD; pfam02938 319225004198 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 319225004199 active site 319225004200 motif 3; other site 319225004201 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14955 319225004202 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 319225004203 Walker A motif; other site 319225004204 ATP binding site [chemical binding]; other site 319225004205 Walker B motif; other site 319225004206 arginine finger; other site 319225004207 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 319225004208 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 319225004209 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 319225004210 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 319225004211 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 319225004212 putative active site [active] 319225004213 catalytic triad [active] 319225004214 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 319225004215 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 319225004216 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 319225004217 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 319225004218 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 319225004219 oligomerization interface [polypeptide binding]; other site 319225004220 active site 319225004221 metal binding site [ion binding]; metal-binding site 319225004222 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 319225004223 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 319225004224 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 319225004225 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 319225004226 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 319225004227 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 319225004228 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225004229 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 319225004230 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225004231 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319225004232 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319225004233 Walker A/P-loop; other site 319225004234 ATP binding site [chemical binding]; other site 319225004235 Q-loop/lid; other site 319225004236 ABC transporter signature motif; other site 319225004237 Walker B; other site 319225004238 D-loop; other site 319225004239 H-loop/switch region; other site 319225004240 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225004241 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 319225004242 FtsX-like permease family; Region: FtsX; pfam02687 319225004243 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225004244 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 319225004245 FtsX-like permease family; Region: FtsX; pfam02687 319225004246 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 319225004247 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 319225004248 ligand binding site [chemical binding]; other site 319225004249 SnoaL-like domain; Region: SnoaL_3; pfam13474 319225004250 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 319225004251 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 319225004252 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 319225004253 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 319225004254 trimer interface [polypeptide binding]; other site 319225004255 active site 319225004256 UDP-GlcNAc binding site [chemical binding]; other site 319225004257 lipid binding site [chemical binding]; lipid-binding site 319225004258 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 319225004259 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 319225004260 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225004261 active site 319225004262 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 319225004263 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 319225004264 5S rRNA interface [nucleotide binding]; other site 319225004265 CTC domain interface [polypeptide binding]; other site 319225004266 L16 interface [polypeptide binding]; other site 319225004267 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 319225004268 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 319225004269 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 319225004270 putative PBP binding loops; other site 319225004271 dimer interface [polypeptide binding]; other site 319225004272 ABC-ATPase subunit interface; other site 319225004273 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 319225004274 dimer interface [polypeptide binding]; other site 319225004275 ADP-ribose binding site [chemical binding]; other site 319225004276 active site 319225004277 nudix motif; other site 319225004278 metal binding site [ion binding]; metal-binding site 319225004279 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 319225004280 Competence protein; Region: Competence; pfam03772 319225004281 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 319225004282 FAD binding site [chemical binding]; other site 319225004283 diaminopimelate decarboxylase; Region: lysA; TIGR01048 319225004284 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 319225004285 active site 319225004286 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 319225004287 substrate binding site [chemical binding]; other site 319225004288 catalytic residues [active] 319225004289 dimer interface [polypeptide binding]; other site 319225004290 ribosomal protein L33; Region: rpl33; CHL00104 319225004291 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 319225004292 Putative zinc ribbon domain; Region: DUF164; pfam02591 319225004293 PAS domain S-box; Region: sensory_box; TIGR00229 319225004294 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 319225004295 putative active site [active] 319225004296 heme pocket [chemical binding]; other site 319225004297 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 319225004298 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319225004299 putative active site [active] 319225004300 heme pocket [chemical binding]; other site 319225004301 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 319225004302 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 319225004303 putative active site [active] 319225004304 heme pocket [chemical binding]; other site 319225004305 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 319225004306 dimer interface [polypeptide binding]; other site 319225004307 phosphorylation site [posttranslational modification] 319225004308 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 319225004309 ATP binding site [chemical binding]; other site 319225004310 Mg2+ binding site [ion binding]; other site 319225004311 G-X-G motif; other site 319225004312 Response regulator receiver domain; Region: Response_reg; pfam00072 319225004313 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 319225004314 active site 319225004315 phosphorylation site [posttranslational modification] 319225004316 intermolecular recognition site; other site 319225004317 dimerization interface [polypeptide binding]; other site 319225004318 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 319225004319 hypothetical protein; Provisional; Region: PRK08912 319225004320 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 319225004321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004322 homodimer interface [polypeptide binding]; other site 319225004323 catalytic residue [active] 319225004324 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 319225004325 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 319225004326 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 319225004327 HflX GTPase family; Region: HflX; cd01878 319225004328 G1 box; other site 319225004329 GTP/Mg2+ binding site [chemical binding]; other site 319225004330 Switch I region; other site 319225004331 G2 box; other site 319225004332 G3 box; other site 319225004333 Switch II region; other site 319225004334 G4 box; other site 319225004335 G5 box; other site 319225004336 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 319225004337 active site lid residues [active] 319225004338 substrate binding pocket [chemical binding]; other site 319225004339 catalytic residues [active] 319225004340 substrate-Mg2+ binding site; other site 319225004341 aspartate-rich region 1; other site 319225004342 aspartate-rich region 2; other site 319225004343 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 319225004344 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 319225004345 dimer interface [polypeptide binding]; other site 319225004346 putative anticodon binding site; other site 319225004347 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 319225004348 motif 1; other site 319225004349 active site 319225004350 motif 2; other site 319225004351 motif 3; other site 319225004352 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 319225004353 PAS fold; Region: PAS_3; pfam08447 319225004354 putative active site [active] 319225004355 heme pocket [chemical binding]; other site 319225004356 PAS domain S-box; Region: sensory_box; TIGR00229 319225004357 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 319225004358 putative active site [active] 319225004359 heme pocket [chemical binding]; other site 319225004360 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319225004361 GAF domain; Region: GAF; pfam01590 319225004362 PAS domain S-box; Region: sensory_box; TIGR00229 319225004363 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 319225004364 putative active site [active] 319225004365 heme pocket [chemical binding]; other site 319225004366 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 319225004367 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 319225004368 dimer interface [polypeptide binding]; other site 319225004369 phosphorylation site [posttranslational modification] 319225004370 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 319225004371 ATP binding site [chemical binding]; other site 319225004372 Mg2+ binding site [ion binding]; other site 319225004373 G-X-G motif; other site 319225004374 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 319225004375 PAS domain; Region: PAS_9; pfam13426 319225004376 putative active site [active] 319225004377 heme pocket [chemical binding]; other site 319225004378 Response regulator receiver domain; Region: Response_reg; pfam00072 319225004379 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 319225004380 active site 319225004381 phosphorylation site [posttranslational modification] 319225004382 intermolecular recognition site; other site 319225004383 dimerization interface [polypeptide binding]; other site 319225004384 PAS domain S-box; Region: sensory_box; TIGR00229 319225004385 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 319225004386 putative active site [active] 319225004387 heme pocket [chemical binding]; other site 319225004388 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 319225004389 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 319225004390 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 319225004391 Walker A motif; other site 319225004392 ATP binding site [chemical binding]; other site 319225004393 Walker B motif; other site 319225004394 arginine finger; other site 319225004395 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319225004396 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 319225004397 Bacterial sugar transferase; Region: Bac_transf; pfam02397 319225004398 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 319225004399 anti sigma factor interaction site; other site 319225004400 regulatory phosphorylation site [posttranslational modification]; other site 319225004401 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 319225004402 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 319225004403 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 319225004404 anti sigma factor interaction site; other site 319225004405 regulatory phosphorylation site [posttranslational modification]; other site 319225004406 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 319225004407 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 319225004408 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 319225004409 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 319225004410 Probable Catalytic site; other site 319225004411 metal-binding site 319225004412 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 319225004413 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 319225004414 SLBB domain; Region: SLBB; pfam10531 319225004415 SLBB domain; Region: SLBB; pfam10531 319225004416 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 319225004417 AAA domain; Region: AAA_31; pfam13614 319225004418 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 319225004419 trimer interface [polypeptide binding]; other site 319225004420 active site 319225004421 substrate binding site [chemical binding]; other site 319225004422 CoA binding site [chemical binding]; other site 319225004423 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 319225004424 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225004425 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 319225004426 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 319225004427 Radical SAM superfamily; Region: Radical_SAM; pfam04055 319225004428 FeS/SAM binding site; other site 319225004429 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 319225004430 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225004431 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 319225004432 active site 319225004433 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 319225004434 putative ADP-binding pocket [chemical binding]; other site 319225004435 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225004436 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 319225004437 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 319225004438 DXD motif; other site 319225004439 Acyltransferase family; Region: Acyl_transf_3; pfam01757 319225004440 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 319225004441 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225004442 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 319225004443 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 319225004444 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225004445 Walker A/P-loop; other site 319225004446 ATP binding site [chemical binding]; other site 319225004447 Q-loop/lid; other site 319225004448 ABC transporter signature motif; other site 319225004449 Walker B; other site 319225004450 D-loop; other site 319225004451 H-loop/switch region; other site 319225004452 Acyltransferase family; Region: Acyl_transf_3; pfam01757 319225004453 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 319225004454 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 319225004455 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 319225004456 PEP-CTERM motif; Region: VPEP; pfam07589 319225004457 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 319225004458 TPR motif; other site 319225004459 binding surface 319225004460 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 319225004461 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 319225004462 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 319225004463 PAS domain; Region: PAS_9; pfam13426 319225004464 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 319225004465 dimer interface [polypeptide binding]; other site 319225004466 phosphorylation site [posttranslational modification] 319225004467 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 319225004468 ATP binding site [chemical binding]; other site 319225004469 Mg2+ binding site [ion binding]; other site 319225004470 G-X-G motif; other site 319225004471 GAF domain; Region: GAF_2; pfam13185 319225004472 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 319225004473 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 319225004474 dimer interface [polypeptide binding]; other site 319225004475 phosphorylation site [posttranslational modification] 319225004476 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 319225004477 ATP binding site [chemical binding]; other site 319225004478 Mg2+ binding site [ion binding]; other site 319225004479 G-X-G motif; other site 319225004480 CheD chemotactic sensory transduction; Region: CheD; cl00810 319225004481 Response regulator receiver domain; Region: Response_reg; pfam00072 319225004482 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 319225004483 active site 319225004484 phosphorylation site [posttranslational modification] 319225004485 intermolecular recognition site; other site 319225004486 dimerization interface [polypeptide binding]; other site 319225004487 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 319225004488 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 319225004489 catalytic residues [active] 319225004490 catalytic nucleophile [active] 319225004491 Presynaptic Site I dimer interface [polypeptide binding]; other site 319225004492 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 319225004493 Synaptic Flat tetramer interface [polypeptide binding]; other site 319225004494 Synaptic Site I dimer interface [polypeptide binding]; other site 319225004495 DNA binding site [nucleotide binding] 319225004496 Divergent AAA domain; Region: AAA_4; pfam04326 319225004497 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 319225004498 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 319225004499 putative NAD(P) binding site [chemical binding]; other site 319225004500 active site 319225004501 putative substrate binding site [chemical binding]; other site 319225004502 Uncharacterized conserved protein [Function unknown]; Region: COG2308 319225004503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 319225004504 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 319225004505 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 319225004506 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 319225004507 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 319225004508 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 319225004509 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 319225004510 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 319225004511 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 319225004512 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 319225004513 FeS/SAM binding site; other site 319225004514 shikimate kinase; Reviewed; Region: aroK; PRK00131 319225004515 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 319225004516 ADP binding site [chemical binding]; other site 319225004517 magnesium binding site [ion binding]; other site 319225004518 putative shikimate binding site; other site 319225004519 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 319225004520 active site 319225004521 dimer interface [polypeptide binding]; other site 319225004522 metal binding site [ion binding]; metal-binding site 319225004523 pantothenate kinase; Reviewed; Region: PRK13320 319225004524 Uncharacterized conserved protein [Function unknown]; Region: COG0432 319225004525 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 319225004526 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319225004527 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 319225004528 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 319225004529 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 319225004530 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 319225004531 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 319225004532 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 319225004533 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 319225004534 putative DNA binding site [nucleotide binding]; other site 319225004535 putative Zn2+ binding site [ion binding]; other site 319225004536 AsnC family; Region: AsnC_trans_reg; pfam01037 319225004537 phytoene desaturase; Region: phytoene_desat; TIGR02731 319225004538 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319225004539 chlorosome envelope protein H repeat; Region: rpt_csmH; TIGR03058 319225004540 chlorosome envelope protein H repeat; Region: rpt_csmH; TIGR03058 319225004541 chlorosome envelope protein H repeat; Region: rpt_csmH; TIGR03058 319225004542 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 319225004543 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 319225004544 active site 319225004545 phosphorylation site [posttranslational modification] 319225004546 intermolecular recognition site; other site 319225004547 dimerization interface [polypeptide binding]; other site 319225004548 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 319225004549 Walker A motif; other site 319225004550 ATP binding site [chemical binding]; other site 319225004551 Walker B motif; other site 319225004552 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319225004553 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 319225004554 trimer interface [polypeptide binding]; other site 319225004555 active site 319225004556 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 319225004557 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 319225004558 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 319225004559 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 319225004560 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 319225004561 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 319225004562 putative NAD(P) binding site [chemical binding]; other site 319225004563 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 319225004564 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 319225004565 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 319225004566 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 319225004567 putative GEF interaction site [polypeptide binding]; other site 319225004568 G1 box; other site 319225004569 GTP/Mg2+ binding site [chemical binding]; other site 319225004570 Switch I region; other site 319225004571 G2 box; other site 319225004572 G3 box; other site 319225004573 Switch II region; other site 319225004574 G4 box; other site 319225004575 G5 box; other site 319225004576 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 319225004577 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 319225004578 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 319225004579 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 319225004580 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 319225004581 tRNA; other site 319225004582 putative tRNA binding site [nucleotide binding]; other site 319225004583 putative NADP binding site [chemical binding]; other site 319225004584 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 319225004585 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 319225004586 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 319225004587 domain interfaces; other site 319225004588 active site 319225004589 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 319225004590 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 319225004591 active site 319225004592 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 319225004593 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 319225004594 active site 319225004595 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 319225004596 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 319225004597 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 319225004598 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 319225004599 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 319225004600 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 319225004601 carboxyltransferase (CT) interaction site; other site 319225004602 biotinylation site [posttranslational modification]; other site 319225004603 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 319225004604 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 319225004605 dimer interface [polypeptide binding]; other site 319225004606 active site 319225004607 aspartate-rich active site metal binding site; other site 319225004608 allosteric magnesium binding site [ion binding]; other site 319225004609 Schiff base residues; other site 319225004610 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 319225004611 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 319225004612 Tetramer interface [polypeptide binding]; other site 319225004613 active site 319225004614 FMN-binding site [chemical binding]; other site 319225004615 serine acetyltransferase; Provisional; Region: cysE; PRK11132 319225004616 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 319225004617 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 319225004618 trimer interface [polypeptide binding]; other site 319225004619 active site 319225004620 substrate binding site [chemical binding]; other site 319225004621 CoA binding site [chemical binding]; other site 319225004622 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 319225004623 active site 319225004624 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 319225004625 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 319225004626 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 319225004627 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 319225004628 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 319225004629 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 319225004630 Carbon starvation protein CstA; Region: CstA; pfam02554 319225004631 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 319225004632 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 319225004633 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 319225004634 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 319225004635 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 319225004636 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 319225004637 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 319225004638 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 319225004639 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 319225004640 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 319225004641 putative substrate-binding site; other site 319225004642 nickel binding site [ion binding]; other site 319225004643 cobalt transport protein CbiM; Provisional; Region: PRK11909 319225004644 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 319225004645 cobalt transport protein CbiM; Provisional; Region: PRK07331 319225004646 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 319225004647 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 319225004648 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 319225004649 Walker A/P-loop; other site 319225004650 ATP binding site [chemical binding]; other site 319225004651 Q-loop/lid; other site 319225004652 ABC transporter signature motif; other site 319225004653 Walker B; other site 319225004654 D-loop; other site 319225004655 H-loop/switch region; other site 319225004656 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 319225004657 dimerization interface [polypeptide binding]; other site 319225004658 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 319225004659 ATP binding site [chemical binding]; other site 319225004660 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 319225004661 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 319225004662 HupF/HypC family; Region: HupF_HypC; pfam01455 319225004663 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 319225004664 HypF finger; Region: zf-HYPF; pfam07503 319225004665 HypF finger; Region: zf-HYPF; pfam07503 319225004666 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 319225004667 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 319225004668 G1 box; other site 319225004669 GTP/Mg2+ binding site [chemical binding]; other site 319225004670 G2 box; other site 319225004671 Switch I region; other site 319225004672 G3 box; other site 319225004673 Switch II region; other site 319225004674 G4 box; other site 319225004675 G5 box; other site 319225004676 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 319225004677 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 319225004678 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 319225004679 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 319225004680 Radical SAM superfamily; Region: Radical_SAM; pfam04055 319225004681 FeS/SAM binding site; other site 319225004682 PUCC protein; Region: PUCC; pfam03209 319225004683 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 319225004684 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 319225004685 AAA domain; Region: AAA_30; pfam13604 319225004686 Family description; Region: UvrD_C_2; pfam13538 319225004687 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 319225004688 ThiC-associated domain; Region: ThiC-associated; pfam13667 319225004689 ThiC family; Region: ThiC; pfam01964 319225004690 triosephosphate isomerase; Provisional; Region: PRK14567 319225004691 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 319225004692 substrate binding site [chemical binding]; other site 319225004693 dimer interface [polypeptide binding]; other site 319225004694 catalytic triad [active] 319225004695 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 319225004696 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 319225004697 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 319225004698 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 319225004699 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 319225004700 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 319225004701 protein binding site [polypeptide binding]; other site 319225004702 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 319225004703 protein binding site [polypeptide binding]; other site 319225004704 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 319225004705 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 319225004706 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 319225004707 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 319225004708 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 319225004709 Catalytic site [active] 319225004710 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 319225004711 GTP-binding protein LepA; Provisional; Region: PRK05433 319225004712 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 319225004713 G1 box; other site 319225004714 putative GEF interaction site [polypeptide binding]; other site 319225004715 GTP/Mg2+ binding site [chemical binding]; other site 319225004716 Switch I region; other site 319225004717 G2 box; other site 319225004718 G3 box; other site 319225004719 Switch II region; other site 319225004720 G4 box; other site 319225004721 G5 box; other site 319225004722 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 319225004723 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 319225004724 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 319225004725 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 319225004726 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 319225004727 putative active site [active] 319225004728 substrate binding site [chemical binding]; other site 319225004729 putative cosubstrate binding site; other site 319225004730 catalytic site [active] 319225004731 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 319225004732 substrate binding site [chemical binding]; other site 319225004733 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 319225004734 active site 319225004735 catalytic residues [active] 319225004736 metal binding site [ion binding]; metal-binding site 319225004737 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 319225004738 metal binding site 2 [ion binding]; metal-binding site 319225004739 putative DNA binding helix; other site 319225004740 metal binding site 1 [ion binding]; metal-binding site 319225004741 dimer interface [polypeptide binding]; other site 319225004742 structural Zn2+ binding site [ion binding]; other site 319225004743 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 319225004744 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 319225004745 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 319225004746 Ligand Binding Site [chemical binding]; other site 319225004747 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 319225004748 gamma-glutamyl kinase; Provisional; Region: PRK05429 319225004749 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 319225004750 nucleotide binding site [chemical binding]; other site 319225004751 homotetrameric interface [polypeptide binding]; other site 319225004752 putative phosphate binding site [ion binding]; other site 319225004753 putative allosteric binding site; other site 319225004754 PUA domain; Region: PUA; pfam01472 319225004755 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 319225004756 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 319225004757 PhnA protein; Region: PhnA; pfam03831 319225004758 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 319225004759 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 319225004760 putative catalytic cysteine [active] 319225004761 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319225004762 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319225004763 Walker A/P-loop; other site 319225004764 ATP binding site [chemical binding]; other site 319225004765 Q-loop/lid; other site 319225004766 ABC transporter signature motif; other site 319225004767 Walker B; other site 319225004768 D-loop; other site 319225004769 H-loop/switch region; other site 319225004770 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 319225004771 Major Facilitator Superfamily; Region: MFS_1; pfam07690 319225004772 putative substrate translocation pore; other site 319225004773 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 319225004774 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 319225004775 inhibitor-cofactor binding pocket; inhibition site 319225004776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004777 catalytic residue [active] 319225004778 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 319225004779 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225004780 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 319225004781 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319225004782 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225004783 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225004784 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 319225004785 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 319225004786 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 319225004787 Flavodoxin domain; Region: Flavodoxin_5; cl17428 319225004788 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 319225004789 chaperone protein DnaJ; Provisional; Region: PRK14281 319225004790 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 319225004791 HSP70 interaction site [polypeptide binding]; other site 319225004792 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 319225004793 substrate binding site [polypeptide binding]; other site 319225004794 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 319225004795 Zn binding sites [ion binding]; other site 319225004796 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 319225004797 dimer interface [polypeptide binding]; other site 319225004798 GrpE; Region: GrpE; pfam01025 319225004799 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 319225004800 dimer interface [polypeptide binding]; other site 319225004801 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 319225004802 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 319225004803 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 319225004804 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 319225004805 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 319225004806 S-adenosylmethionine binding site [chemical binding]; other site 319225004807 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 319225004808 prolyl-tRNA synthetase; Provisional; Region: PRK08661 319225004809 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 319225004810 dimer interface [polypeptide binding]; other site 319225004811 motif 1; other site 319225004812 active site 319225004813 motif 2; other site 319225004814 motif 3; other site 319225004815 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 319225004816 anticodon binding site; other site 319225004817 zinc-binding site [ion binding]; other site 319225004818 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 319225004819 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 319225004820 dimer interface [polypeptide binding]; other site 319225004821 decamer (pentamer of dimers) interface [polypeptide binding]; other site 319225004822 catalytic triad [active] 319225004823 peroxidatic and resolving cysteines [active] 319225004824 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 319225004825 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 319225004826 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 319225004827 putative active site [active] 319225004828 catalytic triad [active] 319225004829 putative dimer interface [polypeptide binding]; other site 319225004830 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14616 319225004831 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 319225004832 Sporulation related domain; Region: SPOR; pfam05036 319225004833 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 319225004834 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 319225004835 Walker A motif; other site 319225004836 ATP binding site [chemical binding]; other site 319225004837 Walker B motif; other site 319225004838 arginine finger; other site 319225004839 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 319225004840 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 319225004841 putative active site [active] 319225004842 catalytic triad [active] 319225004843 putative dimer interface [polypeptide binding]; other site 319225004844 Bacteriochlorophyll A protein; Region: BChl_A; pfam02327 319225004845 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 319225004846 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 319225004847 DNA binding residues [nucleotide binding] 319225004848 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 319225004849 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319225004850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225004851 Walker A/P-loop; other site 319225004852 ATP binding site [chemical binding]; other site 319225004853 Q-loop/lid; other site 319225004854 ABC transporter signature motif; other site 319225004855 Walker B; other site 319225004856 D-loop; other site 319225004857 H-loop/switch region; other site 319225004858 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 319225004859 B12 binding site [chemical binding]; other site 319225004860 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 319225004861 Radical SAM superfamily; Region: Radical_SAM; pfam04055 319225004862 FeS/SAM binding site; other site 319225004863 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 319225004864 PAS domain; Region: PAS_9; pfam13426 319225004865 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 319225004866 Zn2+ binding site [ion binding]; other site 319225004867 Mg2+ binding site [ion binding]; other site 319225004868 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 319225004869 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 319225004870 malate dehydrogenase; Reviewed; Region: PRK06223 319225004871 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 319225004872 NAD(P) binding site [chemical binding]; other site 319225004873 dimer interface [polypeptide binding]; other site 319225004874 tetramer (dimer of dimers) interface [polypeptide binding]; other site 319225004875 substrate binding site [chemical binding]; other site 319225004876 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 319225004877 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 319225004878 Peptidase family M48; Region: Peptidase_M48; pfam01435 319225004879 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 319225004880 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 319225004881 putative active site; other site 319225004882 catalytic triad [active] 319225004883 putative dimer interface [polypeptide binding]; other site 319225004884 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 319225004885 UbiA prenyltransferase family; Region: UbiA; pfam01040 319225004886 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 319225004887 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319225004888 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225004889 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 319225004890 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 319225004891 substrate binding site [chemical binding]; other site 319225004892 glutamase interaction surface [polypeptide binding]; other site 319225004893 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 319225004894 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 319225004895 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 319225004896 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 319225004897 oligomer interface [polypeptide binding]; other site 319225004898 metal binding site [ion binding]; metal-binding site 319225004899 metal binding site [ion binding]; metal-binding site 319225004900 Cl binding site [ion binding]; other site 319225004901 aspartate ring; other site 319225004902 basic sphincter; other site 319225004903 putative hydrophobic gate; other site 319225004904 periplasmic entrance; other site 319225004905 putative phosphoketolase; Provisional; Region: PRK05261 319225004906 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 319225004907 TPP-binding site; other site 319225004908 XFP C-terminal domain; Region: XFP_C; pfam09363 319225004909 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 319225004910 propionate/acetate kinase; Provisional; Region: PRK12379 319225004911 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 319225004912 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 319225004913 active site 319225004914 purine riboside binding site [chemical binding]; other site 319225004915 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225004916 active site 319225004917 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 319225004918 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 319225004919 active site 319225004920 catalytic residues [active] 319225004921 metal binding site [ion binding]; metal-binding site 319225004922 Nif-specific regulatory protein; Region: nifA; TIGR01817 319225004923 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 319225004924 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 319225004925 Walker A motif; other site 319225004926 ATP binding site [chemical binding]; other site 319225004927 Walker B motif; other site 319225004928 arginine finger; other site 319225004929 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 319225004930 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 319225004931 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 319225004932 Nucleotide-binding sites [chemical binding]; other site 319225004933 Walker A motif; other site 319225004934 Switch I region of nucleotide binding site; other site 319225004935 Fe4S4 binding sites [ion binding]; other site 319225004936 Switch II region of nucleotide binding site; other site 319225004937 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 319225004938 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319225004939 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 319225004940 Nitrogen regulatory protein P-II; Region: P-II; smart00938 319225004941 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 319225004942 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 319225004943 MoFe protein alpha/beta subunit interactions; other site 319225004944 Alpha subunit P cluster binding residues; other site 319225004945 FeMoco binding residues [chemical binding]; other site 319225004946 MoFe protein alpha subunit/Fe protein contacts; other site 319225004947 MoFe protein dimer/ dimer interactions; other site 319225004948 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 319225004949 MoFe protein beta/alpha subunit interactions; other site 319225004950 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 319225004951 Beta subunit P cluster binding residues; other site 319225004952 MoFe protein beta subunit/Fe protein contacts; other site 319225004953 MoFe protein dimer/ dimer interactions; other site 319225004954 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 319225004955 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 319225004956 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 319225004957 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 319225004958 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 319225004959 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 319225004960 FeS/SAM binding site; other site 319225004961 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 319225004962 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 319225004963 dimer interface [polypeptide binding]; other site 319225004964 [2Fe-2S] cluster binding site [ion binding]; other site 319225004965 Cytochrome c; Region: Cytochrom_C; pfam00034 319225004966 Cytochrome c; Region: Cytochrom_C; cl11414 319225004967 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 319225004968 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 319225004969 N-terminal plug; other site 319225004970 ligand-binding site [chemical binding]; other site 319225004971 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 319225004972 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 319225004973 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 319225004974 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 319225004975 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 319225004976 ABC-ATPase subunit interface; other site 319225004977 putative PBP binding loops; other site 319225004978 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 319225004979 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 319225004980 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 319225004981 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 319225004982 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 319225004983 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 319225004984 FeS/SAM binding site; other site 319225004985 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 319225004986 MOSC domain; Region: MOSC; pfam03473 319225004987 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 319225004988 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 319225004989 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 319225004990 homodimer interface [polypeptide binding]; other site 319225004991 substrate-cofactor binding pocket; other site 319225004992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004993 catalytic residue [active] 319225004994 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 319225004995 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 319225004996 homodimer interface [polypeptide binding]; other site 319225004997 substrate-cofactor binding pocket; other site 319225004998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225004999 catalytic residue [active] 319225005000 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 319225005001 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 319225005002 active site 319225005003 phosphorylation site [posttranslational modification] 319225005004 intermolecular recognition site; other site 319225005005 dimerization interface [polypeptide binding]; other site 319225005006 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 319225005007 DNA binding residues [nucleotide binding] 319225005008 dimerization interface [polypeptide binding]; other site 319225005009 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 319225005010 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 319225005011 dimer interface [polypeptide binding]; other site 319225005012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225005013 catalytic residue [active] 319225005014 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 319225005015 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 319225005016 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 319225005017 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 319225005018 dimer interface [polypeptide binding]; other site 319225005019 conserved gate region; other site 319225005020 putative PBP binding loops; other site 319225005021 ABC-ATPase subunit interface; other site 319225005022 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 319225005023 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 319225005024 dimer interface [polypeptide binding]; other site 319225005025 conserved gate region; other site 319225005026 putative PBP binding loops; other site 319225005027 ABC-ATPase subunit interface; other site 319225005028 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 319225005029 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 319225005030 Walker A/P-loop; other site 319225005031 ATP binding site [chemical binding]; other site 319225005032 Q-loop/lid; other site 319225005033 ABC transporter signature motif; other site 319225005034 Walker B; other site 319225005035 D-loop; other site 319225005036 H-loop/switch region; other site 319225005037 TOBE-like domain; Region: TOBE_3; pfam12857 319225005038 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 319225005039 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 319225005040 CysD dimerization site [polypeptide binding]; other site 319225005041 G1 box; other site 319225005042 putative GEF interaction site [polypeptide binding]; other site 319225005043 GTP/Mg2+ binding site [chemical binding]; other site 319225005044 Switch I region; other site 319225005045 G2 box; other site 319225005046 G3 box; other site 319225005047 Switch II region; other site 319225005048 G4 box; other site 319225005049 G5 box; other site 319225005050 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 319225005051 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 319225005052 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 319225005053 AAA domain; Region: AAA_18; pfam13238 319225005054 active site 319225005055 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 319225005056 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 319225005057 Active Sites [active] 319225005058 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 319225005059 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 319225005060 Active Sites [active] 319225005061 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 319225005062 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 319225005063 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 319225005064 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 319225005065 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 319225005066 homodimer interface [polypeptide binding]; other site 319225005067 substrate-cofactor binding pocket; other site 319225005068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225005069 catalytic residue [active] 319225005070 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 319225005071 thiS-thiF/thiG interaction site; other site 319225005072 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 319225005073 ThiS interaction site; other site 319225005074 putative active site [active] 319225005075 tetramer interface [polypeptide binding]; other site 319225005076 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 319225005077 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 319225005078 FeS/SAM binding site; other site 319225005079 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 319225005080 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 319225005081 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 319225005082 ATP binding site [chemical binding]; other site 319225005083 substrate interface [chemical binding]; other site 319225005084 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 319225005085 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 319225005086 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 319225005087 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 319225005088 DsbD alpha interface [polypeptide binding]; other site 319225005089 catalytic residues [active] 319225005090 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 319225005091 ApbE family; Region: ApbE; pfam02424 319225005092 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 319225005093 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 319225005094 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 319225005095 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 319225005096 catalytic residues [active] 319225005097 ResB-like family; Region: ResB; pfam05140 319225005098 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 319225005099 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 319225005100 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 319225005101 Coenzyme A binding pocket [chemical binding]; other site 319225005102 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 319225005103 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 319225005104 FeS/SAM binding site; other site 319225005105 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 319225005106 Transcriptional regulators [Transcription]; Region: MarR; COG1846 319225005107 MarR family; Region: MarR; pfam01047 319225005108 MarR family; Region: MarR_2; cl17246 319225005109 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 319225005110 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 319225005111 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 319225005112 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 319225005113 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 319225005114 FeS/SAM binding site; other site 319225005115 HemN C-terminal domain; Region: HemN_C; pfam06969 319225005116 AIR carboxylase; Region: AIRC; pfam00731 319225005117 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 319225005118 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 319225005119 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225005120 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225005121 acetylornithine aminotransferase; Provisional; Region: PRK02627 319225005122 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 319225005123 inhibitor-cofactor binding pocket; inhibition site 319225005124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225005125 catalytic residue [active] 319225005126 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 319225005127 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 319225005128 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 319225005129 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 319225005130 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 319225005131 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 319225005132 DNA primase; Validated; Region: dnaG; PRK05667 319225005133 CHC2 zinc finger; Region: zf-CHC2; pfam01807 319225005134 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 319225005135 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 319225005136 active site 319225005137 metal binding site [ion binding]; metal-binding site 319225005138 interdomain interaction site; other site 319225005139 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 319225005140 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 319225005141 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 319225005142 dimer interface [polypeptide binding]; other site 319225005143 active site 319225005144 glycine-pyridoxal phosphate binding site [chemical binding]; other site 319225005145 folate binding site [chemical binding]; other site 319225005146 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 319225005147 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 319225005148 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 319225005149 dimerization interface [polypeptide binding]; other site 319225005150 active site 319225005151 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 319225005152 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 319225005153 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319225005154 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 319225005155 ATP-grasp domain; Region: ATP-grasp_4; cl17255 319225005156 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 319225005157 IMP binding site; other site 319225005158 dimer interface [polypeptide binding]; other site 319225005159 interdomain contacts; other site 319225005160 partial ornithine binding site; other site 319225005161 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 319225005162 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 319225005163 putative active site [active] 319225005164 putative metal binding site [ion binding]; other site 319225005165 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 319225005166 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 319225005167 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 319225005168 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 319225005169 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 319225005170 heterodimer interface [polypeptide binding]; other site 319225005171 active site 319225005172 FMN binding site [chemical binding]; other site 319225005173 homodimer interface [polypeptide binding]; other site 319225005174 substrate binding site [chemical binding]; other site 319225005175 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 319225005176 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 319225005177 homotrimer interaction site [polypeptide binding]; other site 319225005178 zinc binding site [ion binding]; other site 319225005179 CDP-binding sites; other site 319225005180 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225005181 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225005182 FtsX-like permease family; Region: FtsX; pfam02687 319225005183 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 319225005184 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 319225005185 active site 319225005186 ADP/pyrophosphate binding site [chemical binding]; other site 319225005187 dimerization interface [polypeptide binding]; other site 319225005188 allosteric effector site; other site 319225005189 fructose-1,6-bisphosphate binding site; other site 319225005190 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 319225005191 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 319225005192 homodimer interface [polypeptide binding]; other site 319225005193 substrate-cofactor binding pocket; other site 319225005194 catalytic residue [active] 319225005195 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 319225005196 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 319225005197 Walker A motif; other site 319225005198 ATP binding site [chemical binding]; other site 319225005199 DNA polymerase III subunit delta'; Validated; Region: PRK08485 319225005200 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 319225005201 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 319225005202 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 319225005203 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 319225005204 active site 319225005205 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 319225005206 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 319225005207 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 319225005208 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 319225005209 UbiA prenyltransferase family; Region: UbiA; pfam01040 319225005210 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 319225005211 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 319225005212 RNA/DNA hybrid binding site [nucleotide binding]; other site 319225005213 active site 319225005214 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 319225005215 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 319225005216 Ligand Binding Site [chemical binding]; other site 319225005217 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 319225005218 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 319225005219 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 319225005220 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 319225005221 Walker A/P-loop; other site 319225005222 ATP binding site [chemical binding]; other site 319225005223 Q-loop/lid; other site 319225005224 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 319225005225 ABC transporter signature motif; other site 319225005226 Walker B; other site 319225005227 D-loop; other site 319225005228 H-loop/switch region; other site 319225005229 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 319225005230 dihydrodipicolinate synthase; Region: dapA; TIGR00674 319225005231 dimer interface [polypeptide binding]; other site 319225005232 active site 319225005233 catalytic residue [active] 319225005234 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 319225005235 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 319225005236 tetramer interface [polypeptide binding]; other site 319225005237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225005238 catalytic residue [active] 319225005239 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 319225005240 lipoyl attachment site [posttranslational modification]; other site 319225005241 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 319225005242 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 319225005243 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 319225005244 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 319225005245 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 319225005246 dimer interface [polypeptide binding]; other site 319225005247 PYR/PP interface [polypeptide binding]; other site 319225005248 TPP binding site [chemical binding]; other site 319225005249 substrate binding site [chemical binding]; other site 319225005250 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 319225005251 Domain of unknown function; Region: EKR; pfam10371 319225005252 4Fe-4S binding domain; Region: Fer4_6; pfam12837 319225005253 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 319225005254 TPP-binding site [chemical binding]; other site 319225005255 dimer interface [polypeptide binding]; other site 319225005256 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 319225005257 binding surface 319225005258 TPR repeat; Region: TPR_11; pfam13414 319225005259 TPR motif; other site 319225005260 TPR repeat; Region: TPR_11; pfam13414 319225005261 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 319225005262 TPR motif; other site 319225005263 binding surface 319225005264 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 319225005265 TPR motif; other site 319225005266 binding surface 319225005267 Tetratricopeptide repeat; Region: TPR_12; pfam13424 319225005268 Tetratricopeptide repeat; Region: TPR_12; pfam13424 319225005269 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 319225005270 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 319225005271 Walker A motif; other site 319225005272 ATP binding site [chemical binding]; other site 319225005273 Walker B motif; other site 319225005274 arginine finger; other site 319225005275 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 319225005276 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 319225005277 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 319225005278 dimer interface [polypeptide binding]; other site 319225005279 conserved gate region; other site 319225005280 putative PBP binding loops; other site 319225005281 ABC-ATPase subunit interface; other site 319225005282 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 319225005283 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 319225005284 peptide binding site [polypeptide binding]; other site 319225005285 HPr kinase/phosphorylase; Provisional; Region: PRK05428 319225005286 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 319225005287 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 319225005288 Hpr binding site; other site 319225005289 active site 319225005290 homohexamer subunit interaction site [polypeptide binding]; other site 319225005291 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 319225005292 30S subunit binding site; other site 319225005293 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 319225005294 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 319225005295 active site 319225005296 Int/Topo IB signature motif; other site 319225005297 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 319225005298 S-adenosylmethionine binding site [chemical binding]; other site 319225005299 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 319225005300 Photosystem P840 reaction-centre cytochrome c-551; Region: Cytochrome-c551; pfam10643 319225005301 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 319225005302 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 319225005303 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 319225005304 tandem repeat interface [polypeptide binding]; other site 319225005305 oligomer interface [polypeptide binding]; other site 319225005306 active site residues [active] 319225005307 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 319225005308 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 319225005309 tandem repeat interface [polypeptide binding]; other site 319225005310 oligomer interface [polypeptide binding]; other site 319225005311 active site residues [active] 319225005312 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 319225005313 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 319225005314 Walker A/P-loop; other site 319225005315 ATP binding site [chemical binding]; other site 319225005316 Q-loop/lid; other site 319225005317 ABC transporter signature motif; other site 319225005318 Walker B; other site 319225005319 D-loop; other site 319225005320 H-loop/switch region; other site 319225005321 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 319225005322 Predicted methyltransferases [General function prediction only]; Region: COG0313 319225005323 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 319225005324 putative SAM binding site [chemical binding]; other site 319225005325 putative homodimer interface [polypeptide binding]; other site 319225005326 Pantoate-beta-alanine ligase; Region: PanC; cd00560 319225005327 pantoate--beta-alanine ligase; Region: panC; TIGR00018 319225005328 active site 319225005329 ATP-binding site [chemical binding]; other site 319225005330 pantoate-binding site; other site 319225005331 HXXH motif; other site 319225005332 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 319225005333 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 319225005334 RNase E interface [polypeptide binding]; other site 319225005335 trimer interface [polypeptide binding]; other site 319225005336 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 319225005337 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 319225005338 RNase E interface [polypeptide binding]; other site 319225005339 trimer interface [polypeptide binding]; other site 319225005340 active site 319225005341 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 319225005342 putative nucleic acid binding region [nucleotide binding]; other site 319225005343 G-X-X-G motif; other site 319225005344 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 319225005345 RNA binding site [nucleotide binding]; other site 319225005346 domain interface; other site 319225005347 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 319225005348 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 319225005349 HIGH motif; other site 319225005350 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 319225005351 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 319225005352 active site 319225005353 KMSKS motif; other site 319225005354 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 319225005355 tRNA binding surface [nucleotide binding]; other site 319225005356 acetyl-CoA synthetase; Provisional; Region: PRK00174 319225005357 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 319225005358 active site 319225005359 CoA binding site [chemical binding]; other site 319225005360 acyl-activating enzyme (AAE) consensus motif; other site 319225005361 AMP binding site [chemical binding]; other site 319225005362 acetate binding site [chemical binding]; other site 319225005363 TspO/MBR family; Region: TspO_MBR; pfam03073 319225005364 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 319225005365 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 319225005366 active site 319225005367 dimerization interface [polypeptide binding]; other site 319225005368 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 319225005369 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 319225005370 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 319225005371 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 319225005372 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 319225005373 active site 319225005374 putative DNA-binding cleft [nucleotide binding]; other site 319225005375 dimer interface [polypeptide binding]; other site 319225005376 hypothetical protein; Validated; Region: PRK00110 319225005377 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 319225005378 Prephenate dehydratase; Region: PDT; pfam00800 319225005379 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 319225005380 putative L-Phe binding site [chemical binding]; other site 319225005381 DNA polymerase I; Provisional; Region: PRK05755 319225005382 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 319225005383 active site 319225005384 metal binding site 1 [ion binding]; metal-binding site 319225005385 putative 5' ssDNA interaction site; other site 319225005386 metal binding site 3; metal-binding site 319225005387 metal binding site 2 [ion binding]; metal-binding site 319225005388 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 319225005389 putative DNA binding site [nucleotide binding]; other site 319225005390 putative metal binding site [ion binding]; other site 319225005391 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 319225005392 active site 319225005393 catalytic site [active] 319225005394 substrate binding site [chemical binding]; other site 319225005395 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 319225005396 active site 319225005397 DNA binding site [nucleotide binding] 319225005398 catalytic site [active] 319225005399 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 319225005400 Peptidase family M23; Region: Peptidase_M23; pfam01551 319225005401 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 319225005402 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319225005403 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 319225005404 Surface antigen; Region: Bac_surface_Ag; pfam01103 319225005405 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 319225005406 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 319225005407 substrate binding site [chemical binding]; other site 319225005408 hexamer interface [polypeptide binding]; other site 319225005409 metal binding site [ion binding]; metal-binding site 319225005410 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 319225005411 active site 319225005412 ribulose/triose binding site [chemical binding]; other site 319225005413 phosphate binding site [ion binding]; other site 319225005414 substrate (anthranilate) binding pocket [chemical binding]; other site 319225005415 product (indole) binding pocket [chemical binding]; other site 319225005416 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319225005417 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 319225005418 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 319225005419 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 319225005420 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 319225005421 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 319225005422 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 319225005423 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 319225005424 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 319225005425 putative acyl-acceptor binding pocket; other site 319225005426 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 319225005427 Isochorismatase family; Region: Isochorismatase; pfam00857 319225005428 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 319225005429 catalytic triad [active] 319225005430 dimer interface [polypeptide binding]; other site 319225005431 conserved cis-peptide bond; other site 319225005432 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 319225005433 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; pfam09603 319225005434 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 319225005435 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 319225005436 conserved cys residue [active] 319225005437 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 319225005438 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 319225005439 TM-ABC transporter signature motif; other site 319225005440 pyruvate phosphate dikinase; Provisional; Region: PRK09279 319225005441 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 319225005442 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 319225005443 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 319225005444 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 319225005445 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 319225005446 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 319225005447 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 319225005448 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 319225005449 trimer interface [polypeptide binding]; other site 319225005450 putative Zn binding site [ion binding]; other site 319225005451 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 319225005452 Transcription antiterminator [Transcription]; Region: NusG; COG0250 319225005453 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 319225005454 Uncharacterized conserved protein [Function unknown]; Region: COG1434 319225005455 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 319225005456 putative active site [active] 319225005457 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 319225005458 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 319225005459 ATP binding site [chemical binding]; other site 319225005460 putative Mg++ binding site [ion binding]; other site 319225005461 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 319225005462 nucleotide binding region [chemical binding]; other site 319225005463 ATP-binding site [chemical binding]; other site 319225005464 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 319225005465 HRDC domain; Region: HRDC; pfam00570 319225005466 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 319225005467 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 319225005468 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 319225005469 FeS/SAM binding site; other site 319225005470 hybrid cluster protein; Provisional; Region: PRK05290 319225005471 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 319225005472 ACS interaction site; other site 319225005473 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 319225005474 hybrid metal cluster; other site 319225005475 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 319225005476 TPR motif; other site 319225005477 TPR repeat; Region: TPR_11; pfam13414 319225005478 binding surface 319225005479 4Fe-4S binding domain; Region: Fer4; cl02805 319225005480 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 319225005481 Rrf2 family protein; Region: rrf2_super; TIGR00738 319225005482 Transcriptional regulator; Region: Rrf2; pfam02082 319225005483 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 319225005484 Haem-binding domain; Region: Haem_bd; pfam14376 319225005485 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 319225005486 Peptidase family M50; Region: Peptidase_M50; pfam02163 319225005487 active site 319225005488 putative substrate binding region [chemical binding]; other site 319225005489 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 319225005490 dihydropteroate synthase; Region: DHPS; TIGR01496 319225005491 substrate binding pocket [chemical binding]; other site 319225005492 dimer interface [polypeptide binding]; other site 319225005493 inhibitor binding site; inhibition site 319225005494 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 319225005495 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 319225005496 Walker A/P-loop; other site 319225005497 ATP binding site [chemical binding]; other site 319225005498 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 319225005499 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 319225005500 Q-loop/lid; other site 319225005501 ABC transporter signature motif; other site 319225005502 Walker B; other site 319225005503 D-loop; other site 319225005504 H-loop/switch region; other site 319225005505 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 319225005506 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 319225005507 motif II; other site 319225005508 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 319225005509 putative RNA binding site [nucleotide binding]; other site 319225005510 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 319225005511 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 319225005512 active site 319225005513 metal binding site [ion binding]; metal-binding site 319225005514 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 319225005515 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 319225005516 minor groove reading motif; other site 319225005517 helix-hairpin-helix signature motif; other site 319225005518 substrate binding pocket [chemical binding]; other site 319225005519 active site 319225005520 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 319225005521 aminodeoxychorismate synthase; Provisional; Region: PRK07508 319225005522 chorismate binding enzyme; Region: Chorismate_bind; cl10555 319225005523 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 319225005524 homodimer interface [polypeptide binding]; other site 319225005525 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 319225005526 substrate-cofactor binding pocket; other site 319225005527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225005528 catalytic residue [active] 319225005529 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 319225005530 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 319225005531 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 319225005532 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 319225005533 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 319225005534 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 319225005535 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 319225005536 RNA binding surface [nucleotide binding]; other site 319225005537 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 319225005538 active site 319225005539 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 319225005540 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 319225005541 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 319225005542 catalytic residues [active] 319225005543 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 319225005544 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 319225005545 putative active site [active] 319225005546 oxyanion strand; other site 319225005547 catalytic triad [active] 319225005548 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 319225005549 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 319225005550 FAD binding pocket [chemical binding]; other site 319225005551 FAD binding motif [chemical binding]; other site 319225005552 phosphate binding motif [ion binding]; other site 319225005553 beta-alpha-beta structure motif; other site 319225005554 NAD binding pocket [chemical binding]; other site 319225005555 Iron coordination center [ion binding]; other site 319225005556 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 319225005557 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 319225005558 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319225005559 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225005560 Predicted permeases [General function prediction only]; Region: COG0679 319225005561 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225005562 HlyD family secretion protein; Region: HlyD_3; pfam13437 319225005563 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 319225005564 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 319225005565 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 319225005566 S-adenosylmethionine binding site [chemical binding]; other site 319225005567 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 319225005568 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 319225005569 nucleotide binding pocket [chemical binding]; other site 319225005570 K-X-D-G motif; other site 319225005571 catalytic site [active] 319225005572 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 319225005573 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 319225005574 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 319225005575 Dimer interface [polypeptide binding]; other site 319225005576 BRCT sequence motif; other site 319225005577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225005578 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 319225005579 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 319225005580 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 319225005581 Walker A/P-loop; other site 319225005582 ATP binding site [chemical binding]; other site 319225005583 Q-loop/lid; other site 319225005584 ABC transporter signature motif; other site 319225005585 Walker B; other site 319225005586 D-loop; other site 319225005587 H-loop/switch region; other site 319225005588 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 319225005589 arsenical-resistance protein; Region: acr3; TIGR00832 319225005590 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 319225005591 Low molecular weight phosphatase family; Region: LMWPc; cd00115 319225005592 active site 319225005593 Predicted permeases [General function prediction only]; Region: COG0701 319225005594 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 319225005595 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 319225005596 dimerization interface [polypeptide binding]; other site 319225005597 putative DNA binding site [nucleotide binding]; other site 319225005598 putative Zn2+ binding site [ion binding]; other site 319225005599 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 319225005600 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 319225005601 dimerization interface [polypeptide binding]; other site 319225005602 active site 319225005603 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 319225005604 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 319225005605 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 319225005606 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 319225005607 dimer interface [polypeptide binding]; other site 319225005608 conserved gate region; other site 319225005609 putative PBP binding loops; other site 319225005610 ABC-ATPase subunit interface; other site 319225005611 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225005612 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 319225005613 Walker A/P-loop; other site 319225005614 ATP binding site [chemical binding]; other site 319225005615 Q-loop/lid; other site 319225005616 ABC transporter signature motif; other site 319225005617 Walker B; other site 319225005618 D-loop; other site 319225005619 H-loop/switch region; other site 319225005620 TOBE domain; Region: TOBE; cl01440 319225005621 TOBE domain; Region: TOBE; cl01440 319225005622 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 319225005623 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 319225005624 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 319225005625 Walker A/P-loop; other site 319225005626 ATP binding site [chemical binding]; other site 319225005627 Q-loop/lid; other site 319225005628 ABC transporter signature motif; other site 319225005629 Walker B; other site 319225005630 D-loop; other site 319225005631 H-loop/switch region; other site 319225005632 pteridine reductase; Provisional; Region: PRK09135 319225005633 classical (c) SDRs; Region: SDR_c; cd05233 319225005634 NAD(P) binding site [chemical binding]; other site 319225005635 active site 319225005636 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 319225005637 active site 319225005638 catalytic site [active] 319225005639 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 319225005640 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 319225005641 intrachain domain interface; other site 319225005642 interchain domain interface [polypeptide binding]; other site 319225005643 heme bH binding site [chemical binding]; other site 319225005644 heme bL binding site [chemical binding]; other site 319225005645 Qo binding site; other site 319225005646 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 319225005647 intrachain domain interface; other site 319225005648 Qi binding site; other site 319225005649 interchain domain interface [polypeptide binding]; other site 319225005650 Qo binding site; other site 319225005651 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 319225005652 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 319225005653 iron-sulfur cluster [ion binding]; other site 319225005654 [2Fe-2S] cluster binding site [ion binding]; other site 319225005655 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 319225005656 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 319225005657 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 319225005658 active site 319225005659 HIGH motif; other site 319225005660 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 319225005661 active site 319225005662 KMSKS motif; other site 319225005663 FtsH Extracellular; Region: FtsH_ext; pfam06480 319225005664 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 319225005665 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 319225005666 Walker B motif; other site 319225005667 arginine finger; other site 319225005668 Peptidase family M41; Region: Peptidase_M41; pfam01434 319225005669 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 319225005670 IHF dimer interface [polypeptide binding]; other site 319225005671 IHF - DNA interface [nucleotide binding]; other site 319225005672 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 319225005673 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 319225005674 transmembrane helices; other site 319225005675 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225005676 active site 319225005677 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 319225005678 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 319225005679 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 319225005680 FeS/SAM binding site; other site 319225005681 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 319225005682 GTPase Era; Reviewed; Region: era; PRK00089 319225005683 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 319225005684 G1 box; other site 319225005685 GTP/Mg2+ binding site [chemical binding]; other site 319225005686 Switch I region; other site 319225005687 G2 box; other site 319225005688 Switch II region; other site 319225005689 G3 box; other site 319225005690 G4 box; other site 319225005691 G5 box; other site 319225005692 KH domain; Region: KH_2; pfam07650 319225005693 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 319225005694 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 319225005695 RNA binding site [nucleotide binding]; other site 319225005696 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 319225005697 RNA binding site [nucleotide binding]; other site 319225005698 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 319225005699 RNA binding site [nucleotide binding]; other site 319225005700 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 319225005701 RNA binding site [nucleotide binding]; other site 319225005702 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 319225005703 RNA binding site [nucleotide binding]; other site 319225005704 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 319225005705 RNA binding site [nucleotide binding]; other site 319225005706 cytidylate kinase; Provisional; Region: cmk; PRK00023 319225005707 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 319225005708 CMP-binding site; other site 319225005709 The sites determining sugar specificity; other site 319225005710 GTP-binding protein YchF; Reviewed; Region: PRK09601 319225005711 YchF GTPase; Region: YchF; cd01900 319225005712 G1 box; other site 319225005713 GTP/Mg2+ binding site [chemical binding]; other site 319225005714 Switch I region; other site 319225005715 G2 box; other site 319225005716 Switch II region; other site 319225005717 G3 box; other site 319225005718 G4 box; other site 319225005719 G5 box; other site 319225005720 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 319225005721 glutamate racemase; Provisional; Region: PRK00865 319225005722 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 319225005723 LytB protein; Region: LYTB; cl00507 319225005724 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 319225005725 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 319225005726 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 319225005727 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 319225005728 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 319225005729 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 319225005730 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 319225005731 active site 319225005732 substrate binding site [chemical binding]; other site 319225005733 metal binding site [ion binding]; metal-binding site 319225005734 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 319225005735 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 319225005736 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 319225005737 DNA binding residues [nucleotide binding] 319225005738 Heavy-metal resistance; Region: Metal_resist; pfam13801 319225005739 dimer interface [polypeptide binding]; other site 319225005740 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 319225005741 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 319225005742 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 319225005743 KpsF/GutQ family protein; Region: kpsF; TIGR00393 319225005744 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 319225005745 putative active site [active] 319225005746 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 319225005747 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 319225005748 CoA binding domain; Region: CoA_binding; smart00881 319225005749 CoA-ligase; Region: Ligase_CoA; pfam00549 319225005750 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 319225005751 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 319225005752 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 319225005753 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 319225005754 catalytic residue [active] 319225005755 putative FPP diphosphate binding site; other site 319225005756 putative FPP binding hydrophobic cleft; other site 319225005757 dimer interface [polypeptide binding]; other site 319225005758 putative IPP diphosphate binding site; other site 319225005759 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 319225005760 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319225005761 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319225005762 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319225005763 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 319225005764 Surface antigen; Region: Bac_surface_Ag; pfam01103 319225005765 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 319225005766 Bifunctional nuclease; Region: DNase-RNase; pfam02577 319225005767 UvrB/uvrC motif; Region: UVR; pfam02151 319225005768 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 319225005769 Ligand Binding Site [chemical binding]; other site 319225005770 Electron transfer flavoprotein domain; Region: ETF; smart00893 319225005771 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 319225005772 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 319225005773 Ligand binding site [chemical binding]; other site 319225005774 Electron transfer flavoprotein domain; Region: ETF; pfam01012 319225005775 transcription termination factor Rho; Provisional; Region: rho; PRK09376 319225005776 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 319225005777 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 319225005778 RNA binding site [nucleotide binding]; other site 319225005779 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 319225005780 multimer interface [polypeptide binding]; other site 319225005781 Walker A motif; other site 319225005782 ATP binding site [chemical binding]; other site 319225005783 Walker B motif; other site 319225005784 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 319225005785 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225005786 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 319225005787 RuvA N terminal domain; Region: RuvA_N; pfam01330 319225005788 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 319225005789 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 319225005790 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 319225005791 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 319225005792 active site 319225005793 substrate binding site [chemical binding]; other site 319225005794 metal binding site [ion binding]; metal-binding site 319225005795 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 319225005796 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319225005797 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 319225005798 Walker A/P-loop; other site 319225005799 ATP binding site [chemical binding]; other site 319225005800 Q-loop/lid; other site 319225005801 ABC transporter signature motif; other site 319225005802 Walker B; other site 319225005803 D-loop; other site 319225005804 H-loop/switch region; other site 319225005805 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 319225005806 active site 319225005807 NTP binding site [chemical binding]; other site 319225005808 metal binding triad [ion binding]; metal-binding site 319225005809 antibiotic binding site [chemical binding]; other site 319225005810 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 319225005811 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 319225005812 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 319225005813 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 319225005814 homotetramer interface [polypeptide binding]; other site 319225005815 FMN binding site [chemical binding]; other site 319225005816 homodimer contacts [polypeptide binding]; other site 319225005817 putative active site [active] 319225005818 putative substrate binding site [chemical binding]; other site 319225005819 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 319225005820 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 319225005821 substrate binding pocket [chemical binding]; other site 319225005822 chain length determination region; other site 319225005823 substrate-Mg2+ binding site; other site 319225005824 catalytic residues [active] 319225005825 aspartate-rich region 1; other site 319225005826 active site lid residues [active] 319225005827 aspartate-rich region 2; other site 319225005828 DNA protecting protein DprA; Region: dprA; TIGR00732 319225005829 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 319225005830 periplasmic chaperone; Provisional; Region: PRK10780 319225005831 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 319225005832 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 319225005833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 319225005834 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 319225005835 tetramerization interface [polypeptide binding]; other site 319225005836 active site 319225005837 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 319225005838 Substrate binding site; other site 319225005839 Mg++ binding site; other site 319225005840 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 319225005841 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 319225005842 active site 319225005843 metal binding site [ion binding]; metal-binding site 319225005844 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 319225005845 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 319225005846 catalytic site [active] 319225005847 G-X2-G-X-G-K; other site 319225005848 hypothetical protein; Provisional; Region: PRK11820 319225005849 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 319225005850 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 319225005851 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 319225005852 16S/18S rRNA binding site [nucleotide binding]; other site 319225005853 S13e-L30e interaction site [polypeptide binding]; other site 319225005854 25S rRNA binding site [nucleotide binding]; other site 319225005855 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 319225005856 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 319225005857 active site 319225005858 Riboflavin kinase; Region: Flavokinase; pfam01687 319225005859 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 319225005860 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 319225005861 RNA binding site [nucleotide binding]; other site 319225005862 active site 319225005863 Ribosome-binding factor A; Region: RBFA; pfam02033 319225005864 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 319225005865 translation initiation factor IF-2; Region: IF-2; TIGR00487 319225005866 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 319225005867 G1 box; other site 319225005868 putative GEF interaction site [polypeptide binding]; other site 319225005869 GTP/Mg2+ binding site [chemical binding]; other site 319225005870 Switch I region; other site 319225005871 G2 box; other site 319225005872 G3 box; other site 319225005873 Switch II region; other site 319225005874 G4 box; other site 319225005875 G5 box; other site 319225005876 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 319225005877 Translation-initiation factor 2; Region: IF-2; pfam11987 319225005878 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 319225005879 NusA N-terminal domain; Region: NusA_N; pfam08529 319225005880 transcription termination factor NusA; Region: NusA; TIGR01953 319225005881 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 319225005882 RNA binding site [nucleotide binding]; other site 319225005883 NusA-like KH domain; Region: KH_5; pfam13184 319225005884 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 319225005885 G-X-X-G motif; other site 319225005886 hypothetical protein; Provisional; Region: PRK14641 319225005887 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 319225005888 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 319225005889 AAA domain; Region: AAA_14; pfam13173 319225005890 Fic/DOC family; Region: Fic; pfam02661 319225005891 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 319225005892 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 319225005893 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 319225005894 dimer interface [polypeptide binding]; other site 319225005895 motif 1; other site 319225005896 active site 319225005897 motif 2; other site 319225005898 motif 3; other site 319225005899 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 319225005900 anticodon binding site; other site 319225005901 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 319225005902 active site 319225005903 phosphorylation site [posttranslational modification] 319225005904 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 319225005905 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 319225005906 CAAX protease self-immunity; Region: Abi; pfam02517 319225005907 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 319225005908 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 319225005909 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 319225005910 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 319225005911 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 319225005912 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 319225005913 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 319225005914 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 319225005915 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 319225005916 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 319225005917 putative active site [active] 319225005918 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 319225005919 active site 319225005920 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 319225005921 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 319225005922 Substrate binding site; other site 319225005923 metal-binding site 319225005924 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 319225005925 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 319225005926 putative metal binding site; other site 319225005927 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 319225005928 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 319225005929 putative active site [active] 319225005930 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225005931 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 319225005932 putative ADP-binding pocket [chemical binding]; other site 319225005933 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 319225005934 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 319225005935 putative acyl-acceptor binding pocket; other site 319225005936 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 319225005937 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 319225005938 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 319225005939 Walker A/P-loop; other site 319225005940 ATP binding site [chemical binding]; other site 319225005941 Q-loop/lid; other site 319225005942 ABC transporter signature motif; other site 319225005943 Walker B; other site 319225005944 D-loop; other site 319225005945 H-loop/switch region; other site 319225005946 O-Antigen ligase; Region: Wzy_C; pfam04932 319225005947 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 319225005948 putative active site [active] 319225005949 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 319225005950 non-specific DNA binding site [nucleotide binding]; other site 319225005951 salt bridge; other site 319225005952 sequence-specific DNA binding site [nucleotide binding]; other site 319225005953 Domain of unknown function (DUF955); Region: DUF955; pfam06114 319225005954 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 319225005955 non-specific DNA binding site [nucleotide binding]; other site 319225005956 salt bridge; other site 319225005957 sequence-specific DNA binding site [nucleotide binding]; other site 319225005958 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 319225005959 AAA domain; Region: AAA_14; pfam13173 319225005960 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319225005961 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 319225005962 Protein of unknown function DUF86; Region: DUF86; pfam01934 319225005963 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 319225005964 active site 319225005965 NTP binding site [chemical binding]; other site 319225005966 metal binding triad [ion binding]; metal-binding site 319225005967 antibiotic binding site [chemical binding]; other site 319225005968 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 319225005969 Predicted transcriptional regulator [Transcription]; Region: COG2944 319225005970 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 319225005971 non-specific DNA binding site [nucleotide binding]; other site 319225005972 salt bridge; other site 319225005973 sequence-specific DNA binding site [nucleotide binding]; other site 319225005974 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 319225005975 Transposase; Region: HTH_Tnp_1; pfam01527 319225005976 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 319225005977 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 319225005978 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 319225005979 putative active site [active] 319225005980 putative NTP binding site [chemical binding]; other site 319225005981 putative nucleic acid binding site [nucleotide binding]; other site 319225005982 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 319225005983 AAA domain; Region: AAA_22; pfam13401 319225005984 Domain of unknown function (DUF955); Region: DUF955; pfam06114 319225005985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 319225005986 Integrase core domain; Region: rve; pfam00665 319225005987 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 319225005988 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 319225005989 Walker A motif; other site 319225005990 ATP binding site [chemical binding]; other site 319225005991 Walker B motif; other site 319225005992 Predicted membrane protein (DUF2335); Region: DUF2335; pfam10097 319225005993 Domain of unknown function (DUF955); Region: DUF955; pfam06114 319225005994 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 319225005995 Helix-turn-helix domain; Region: HTH_31; pfam13560 319225005996 non-specific DNA binding site [nucleotide binding]; other site 319225005997 salt bridge; other site 319225005998 sequence-specific DNA binding site [nucleotide binding]; other site 319225005999 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 319225006000 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 319225006001 NAD(P) binding site [chemical binding]; other site 319225006002 homodimer interface [polypeptide binding]; other site 319225006003 substrate binding site [chemical binding]; other site 319225006004 active site 319225006005 Bacterial sugar transferase; Region: Bac_transf; cl00939 319225006006 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 319225006007 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 319225006008 putative NAD(P) binding site [chemical binding]; other site 319225006009 active site 319225006010 putative substrate binding site [chemical binding]; other site 319225006011 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 319225006012 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 319225006013 metal-binding site 319225006014 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225006015 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 319225006016 extended (e) SDRs; Region: SDR_e; cd08946 319225006017 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 319225006018 NAD(P) binding site [chemical binding]; other site 319225006019 active site 319225006020 substrate binding site [chemical binding]; other site 319225006021 Methyltransferase domain; Region: Methyltransf_23; pfam13489 319225006022 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 319225006023 S-adenosylmethionine binding site [chemical binding]; other site 319225006024 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 319225006025 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 319225006026 trimer interface [polypeptide binding]; other site 319225006027 active site 319225006028 substrate binding site [chemical binding]; other site 319225006029 CoA binding site [chemical binding]; other site 319225006030 hypothetical protein; Provisional; Region: PRK08317 319225006031 Methyltransferase domain; Region: Methyltransf_11; pfam08241 319225006032 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 319225006033 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 319225006034 active site 319225006035 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 319225006036 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 319225006037 active site 319225006038 dimer interface [polypeptide binding]; other site 319225006039 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 319225006040 Ligand Binding Site [chemical binding]; other site 319225006041 Molecular Tunnel; other site 319225006042 putative glycosyl transferase; Provisional; Region: PRK10063 319225006043 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 319225006044 metal-binding site 319225006045 putative transposase OrfB; Reviewed; Region: PHA02517 319225006046 Homeodomain-like domain; Region: HTH_32; pfam13565 319225006047 Integrase core domain; Region: rve; pfam00665 319225006048 Integrase core domain; Region: rve_3; pfam13683 319225006049 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 319225006050 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 319225006051 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 319225006052 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 319225006053 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 319225006054 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 319225006055 NADP-binding site; other site 319225006056 homotetramer interface [polypeptide binding]; other site 319225006057 substrate binding site [chemical binding]; other site 319225006058 homodimer interface [polypeptide binding]; other site 319225006059 active site 319225006060 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 319225006061 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 319225006062 NADP binding site [chemical binding]; other site 319225006063 active site 319225006064 putative substrate binding site [chemical binding]; other site 319225006065 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 319225006066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 319225006067 Walker A/P-loop; other site 319225006068 ATP binding site [chemical binding]; other site 319225006069 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 319225006070 Walker B; other site 319225006071 D-loop; other site 319225006072 H-loop/switch region; other site 319225006073 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 319225006074 putative active site [active] 319225006075 putative metal-binding site [ion binding]; other site 319225006076 Methyltransferase domain; Region: Methyltransf_31; pfam13847 319225006077 Methyltransferase domain; Region: Methyltransf_11; pfam08241 319225006078 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 319225006079 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 319225006080 RNA ligase; Region: RNA_ligase; pfam09414 319225006081 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 319225006082 AAA domain; Region: AAA_21; pfam13304 319225006083 AAA domain; Region: AAA_21; pfam13304 319225006084 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 319225006085 oligomeric interface; other site 319225006086 putative active site [active] 319225006087 homodimer interface [polypeptide binding]; other site 319225006088 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 319225006089 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 319225006090 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 319225006091 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225006092 Predicted transcriptional regulator [Transcription]; Region: COG5340 319225006093 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 319225006094 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 319225006095 active site 319225006096 DNA binding site [nucleotide binding] 319225006097 Int/Topo IB signature motif; other site 319225006098 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 319225006099 active site 319225006100 DNA binding site [nucleotide binding] 319225006101 Int/Topo IB signature motif; other site 319225006102 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 319225006103 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 319225006104 Mg++ binding site [ion binding]; other site 319225006105 putative catalytic motif [active] 319225006106 Chain length determinant protein; Region: Wzz; pfam02706 319225006107 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 319225006108 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 319225006109 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 319225006110 Mg++ binding site [ion binding]; other site 319225006111 putative catalytic motif [active] 319225006112 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 319225006113 Chain length determinant protein; Region: Wzz; pfam02706 319225006114 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 319225006115 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 319225006116 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 319225006117 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 319225006118 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 319225006119 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 319225006120 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319225006121 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 319225006122 non-specific DNA binding site [nucleotide binding]; other site 319225006123 salt bridge; other site 319225006124 sequence-specific DNA binding site [nucleotide binding]; other site 319225006125 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 319225006126 active site 319225006127 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 319225006128 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 319225006129 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 319225006130 non-specific DNA binding site [nucleotide binding]; other site 319225006131 salt bridge; other site 319225006132 sequence-specific DNA binding site [nucleotide binding]; other site 319225006133 PAS domain; Region: PAS_9; pfam13426 319225006134 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 319225006135 putative active site [active] 319225006136 heme pocket [chemical binding]; other site 319225006137 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319225006138 Uncharacterized conserved protein [Function unknown]; Region: COG4715 319225006139 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 319225006140 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 319225006141 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 319225006142 RloB-like protein; Region: RloB; pfam13707 319225006143 AAA domain; Region: AAA_21; pfam13304 319225006144 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 319225006145 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 319225006146 active site 319225006147 nucleotide binding site [chemical binding]; other site 319225006148 HIGH motif; other site 319225006149 KMSKS motif; other site 319225006150 Family of unknown function (DUF490); Region: DUF490; pfam04357 319225006151 mobile mystery protein A; Region: mob_myst_A; TIGR02612 319225006152 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 319225006153 non-specific DNA binding site [nucleotide binding]; other site 319225006154 salt bridge; other site 319225006155 sequence-specific DNA binding site [nucleotide binding]; other site 319225006156 Fic family protein [Function unknown]; Region: COG3177 319225006157 Fic/DOC family; Region: Fic; pfam02661 319225006158 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 319225006159 non-specific DNA binding site [nucleotide binding]; other site 319225006160 salt bridge; other site 319225006161 sequence-specific DNA binding site [nucleotide binding]; other site 319225006162 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 319225006163 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 319225006164 Flavoprotein; Region: Flavoprotein; pfam02441 319225006165 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 319225006166 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 319225006167 Fe-S cluster binding site [ion binding]; other site 319225006168 active site 319225006169 replicative DNA helicase; Region: DnaB; TIGR00665 319225006170 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 319225006171 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 319225006172 Walker A motif; other site 319225006173 ATP binding site [chemical binding]; other site 319225006174 Walker B motif; other site 319225006175 DNA binding loops [nucleotide binding] 319225006176 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 319225006177 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 319225006178 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 319225006179 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 319225006180 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 319225006181 non-specific DNA binding site [nucleotide binding]; other site 319225006182 salt bridge; other site 319225006183 sequence-specific DNA binding site [nucleotide binding]; other site 319225006184 HipA N-terminal domain; Region: Couple_hipA; pfam13657 319225006185 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 319225006186 HipA-like N-terminal domain; Region: HipA_N; pfam07805 319225006187 HipA-like C-terminal domain; Region: HipA_C; pfam07804 319225006188 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319225006189 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 319225006190 PemK-like protein; Region: PemK; pfam02452 319225006191 AAA domain; Region: AAA_14; pfam13173 319225006192 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319225006193 SurA N-terminal domain; Region: SurA_N_3; cl07813 319225006194 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 319225006195 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 319225006196 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 319225006197 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 319225006198 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 319225006199 S-adenosylmethionine binding site [chemical binding]; other site 319225006200 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 319225006201 GIY-YIG motif/motif A; other site 319225006202 putative active site [active] 319225006203 putative metal binding site [ion binding]; other site 319225006204 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 319225006205 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 319225006206 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 319225006207 P loop; other site 319225006208 GTP binding site [chemical binding]; other site 319225006209 AAA domain; Region: AAA_14; pfam13173 319225006210 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 319225006211 thiamine monophosphate kinase; Provisional; Region: PRK05731 319225006212 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 319225006213 ATP binding site [chemical binding]; other site 319225006214 dimerization interface [polypeptide binding]; other site 319225006215 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 319225006216 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 319225006217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225006218 catalytic residue [active] 319225006219 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 319225006220 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 319225006221 Clp amino terminal domain; Region: Clp_N; pfam02861 319225006222 Clp amino terminal domain; Region: Clp_N; pfam02861 319225006223 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 319225006224 Walker A motif; other site 319225006225 ATP binding site [chemical binding]; other site 319225006226 Walker B motif; other site 319225006227 arginine finger; other site 319225006228 UvrB/uvrC motif; Region: UVR; pfam02151 319225006229 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 319225006230 Walker A motif; other site 319225006231 ATP binding site [chemical binding]; other site 319225006232 Walker B motif; other site 319225006233 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 319225006234 Predicted ATPase [General function prediction only]; Region: COG3911 319225006235 AAA domain; Region: AAA_28; pfam13521 319225006236 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 319225006237 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 319225006238 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 319225006239 catalytic triad [active] 319225006240 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 319225006241 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 319225006242 putative NAD(P) binding site [chemical binding]; other site 319225006243 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 319225006244 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_11; cd08866 319225006245 putative hydrophobic ligand binding site [chemical binding]; other site 319225006246 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 319225006247 glycerol kinase; Provisional; Region: glpK; PRK00047 319225006248 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 319225006249 N- and C-terminal domain interface [polypeptide binding]; other site 319225006250 active site 319225006251 MgATP binding site [chemical binding]; other site 319225006252 catalytic site [active] 319225006253 metal binding site [ion binding]; metal-binding site 319225006254 glycerol binding site [chemical binding]; other site 319225006255 homotetramer interface [polypeptide binding]; other site 319225006256 homodimer interface [polypeptide binding]; other site 319225006257 FBP binding site [chemical binding]; other site 319225006258 protein IIAGlc interface [polypeptide binding]; other site 319225006259 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 319225006260 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 319225006261 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 319225006262 FeS/SAM binding site; other site 319225006263 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 319225006264 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 319225006265 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 319225006266 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 319225006267 Transglycosylase; Region: Transgly; pfam00912 319225006268 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 319225006269 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 319225006270 GMP synthase; Reviewed; Region: guaA; PRK00074 319225006271 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 319225006272 AMP/PPi binding site [chemical binding]; other site 319225006273 candidate oxyanion hole; other site 319225006274 catalytic triad [active] 319225006275 potential glutamine specificity residues [chemical binding]; other site 319225006276 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 319225006277 ATP Binding subdomain [chemical binding]; other site 319225006278 Ligand Binding sites [chemical binding]; other site 319225006279 Dimerization subdomain; other site 319225006280 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 319225006281 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 319225006282 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 319225006283 phosphoserine phosphatase SerB; Region: serB; TIGR00338 319225006284 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 319225006285 motif II; other site 319225006286 Ferredoxin [Energy production and conversion]; Region: COG1146 319225006287 Ferredoxin [Energy production and conversion]; Region: COG1146 319225006288 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 319225006289 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 319225006290 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 319225006291 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 319225006292 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 319225006293 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 319225006294 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 319225006295 motif 1; other site 319225006296 active site 319225006297 motif 2; other site 319225006298 motif 3; other site 319225006299 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 319225006300 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 319225006301 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 319225006302 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 319225006303 PYR/PP interface [polypeptide binding]; other site 319225006304 TPP binding site [chemical binding]; other site 319225006305 dimer interface [polypeptide binding]; other site 319225006306 substrate binding site [chemical binding]; other site 319225006307 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 319225006308 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 319225006309 TPP-binding site [chemical binding]; other site 319225006310 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 319225006311 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 319225006312 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 319225006313 IHF - DNA interface [nucleotide binding]; other site 319225006314 IHF dimer interface [polypeptide binding]; other site 319225006315 elongation factor P; Validated; Region: PRK00529 319225006316 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 319225006317 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 319225006318 RNA binding site [nucleotide binding]; other site 319225006319 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 319225006320 RNA binding site [nucleotide binding]; other site 319225006321 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 319225006322 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 319225006323 carboxyltransferase (CT) interaction site; other site 319225006324 biotinylation site [posttranslational modification]; other site 319225006325 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 319225006326 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 319225006327 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 319225006328 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 319225006329 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 319225006330 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 319225006331 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 319225006332 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 319225006333 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 319225006334 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 319225006335 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 319225006336 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 319225006337 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 319225006338 DNA binding site [nucleotide binding] 319225006339 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 319225006340 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 319225006341 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 319225006342 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 319225006343 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 319225006344 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 319225006345 RPB3 interaction site [polypeptide binding]; other site 319225006346 RPB1 interaction site [polypeptide binding]; other site 319225006347 RPB11 interaction site [polypeptide binding]; other site 319225006348 RPB10 interaction site [polypeptide binding]; other site 319225006349 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 319225006350 core dimer interface [polypeptide binding]; other site 319225006351 peripheral dimer interface [polypeptide binding]; other site 319225006352 L10 interface [polypeptide binding]; other site 319225006353 L11 interface [polypeptide binding]; other site 319225006354 putative EF-Tu interaction site [polypeptide binding]; other site 319225006355 putative EF-G interaction site [polypeptide binding]; other site 319225006356 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 319225006357 23S rRNA interface [nucleotide binding]; other site 319225006358 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 319225006359 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 319225006360 mRNA/rRNA interface [nucleotide binding]; other site 319225006361 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 319225006362 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 319225006363 23S rRNA interface [nucleotide binding]; other site 319225006364 L7/L12 interface [polypeptide binding]; other site 319225006365 putative thiostrepton binding site; other site 319225006366 L25 interface [polypeptide binding]; other site 319225006367 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 319225006368 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 319225006369 putative homodimer interface [polypeptide binding]; other site 319225006370 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 319225006371 heterodimer interface [polypeptide binding]; other site 319225006372 homodimer interface [polypeptide binding]; other site 319225006373 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 319225006374 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 319225006375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 319225006376 NAD(P) binding site [chemical binding]; other site 319225006377 active site 319225006378 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 319225006379 GcpE protein; Region: GcpE; pfam04551 319225006380 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 319225006381 Septum formation initiator; Region: DivIC; pfam04977 319225006382 enolase; Provisional; Region: eno; PRK00077 319225006383 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 319225006384 dimer interface [polypeptide binding]; other site 319225006385 metal binding site [ion binding]; metal-binding site 319225006386 substrate binding pocket [chemical binding]; other site 319225006387 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 319225006388 elongation factor G; Reviewed; Region: PRK12740 319225006389 G1 box; other site 319225006390 putative GEF interaction site [polypeptide binding]; other site 319225006391 GTP/Mg2+ binding site [chemical binding]; other site 319225006392 Switch I region; other site 319225006393 G2 box; other site 319225006394 G3 box; other site 319225006395 Switch II region; other site 319225006396 G4 box; other site 319225006397 G5 box; other site 319225006398 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 319225006399 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 319225006400 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 319225006401 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 319225006402 Ligand binding site; other site 319225006403 Putative Catalytic site; other site 319225006404 DXD motif; other site 319225006405 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 319225006406 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 319225006407 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 319225006408 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 319225006409 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 319225006410 Rubredoxin [Energy production and conversion]; Region: COG1773 319225006411 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 319225006412 iron binding site [ion binding]; other site 319225006413 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 319225006414 Transglycosylase; Region: Transgly; cl17702 319225006415 Cytochrome c; Region: Cytochrom_C; cl11414 319225006416 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 319225006417 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 319225006418 Mg2+ binding site [ion binding]; other site 319225006419 G-X-G motif; other site 319225006420 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 319225006421 ATP binding site [chemical binding]; other site 319225006422 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 319225006423 competence damage-inducible protein A; Provisional; Region: PRK00549 319225006424 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 319225006425 putative MPT binding site; other site 319225006426 Competence-damaged protein; Region: CinA; pfam02464 319225006427 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 319225006428 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 319225006429 putative catalytic residues [active] 319225006430 putative nucleotide binding site [chemical binding]; other site 319225006431 putative aspartate binding site [chemical binding]; other site 319225006432 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 319225006433 dimer interface [polypeptide binding]; other site 319225006434 putative threonine allosteric regulatory site; other site 319225006435 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 319225006436 putative threonine allosteric regulatory site; other site 319225006437 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 319225006438 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 319225006439 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 319225006440 core domain interface [polypeptide binding]; other site 319225006441 delta subunit interface [polypeptide binding]; other site 319225006442 epsilon subunit interface [polypeptide binding]; other site 319225006443 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 319225006444 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 319225006445 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 319225006446 beta subunit interaction interface [polypeptide binding]; other site 319225006447 Walker A motif; other site 319225006448 ATP binding site [chemical binding]; other site 319225006449 Walker B motif; other site 319225006450 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 319225006451 homoserine kinase; Provisional; Region: PRK01212 319225006452 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 319225006453 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 319225006454 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 319225006455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225006456 catalytic residue [active] 319225006457 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 319225006458 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 319225006459 putative acyl-acceptor binding pocket; other site 319225006460 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 319225006461 homopentamer interface [polypeptide binding]; other site 319225006462 active site 319225006463 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 319225006464 dimer interface [polypeptide binding]; other site 319225006465 active site 319225006466 Ion transport protein; Region: Ion_trans; pfam00520 319225006467 Ion channel; Region: Ion_trans_2; pfam07885 319225006468 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 319225006469 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 319225006470 substrate binding site [chemical binding]; other site 319225006471 active site 319225006472 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 319225006473 Cysteine-rich domain; Region: CCG; pfam02754 319225006474 Cysteine-rich domain; Region: CCG; pfam02754 319225006475 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 319225006476 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 319225006477 catalytic loop [active] 319225006478 iron binding site [ion binding]; other site 319225006479 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 319225006480 L-aspartate oxidase; Provisional; Region: PRK06175 319225006481 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 319225006482 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319225006483 FOG: CBS domain [General function prediction only]; Region: COG0517 319225006484 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 319225006485 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 319225006486 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 319225006487 Protein export membrane protein; Region: SecD_SecF; cl14618 319225006488 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 319225006489 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 319225006490 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 319225006491 putative homodimer interface [polypeptide binding]; other site 319225006492 putative homotetramer interface [polypeptide binding]; other site 319225006493 putative allosteric switch controlling residues; other site 319225006494 putative metal binding site [ion binding]; other site 319225006495 putative homodimer-homodimer interface [polypeptide binding]; other site 319225006496 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 319225006497 Phosphotransferase enzyme family; Region: APH; pfam01636 319225006498 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 319225006499 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 319225006500 Substrate binding site; other site 319225006501 metal-binding site 319225006502 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 319225006503 putative trimer interface [polypeptide binding]; other site 319225006504 putative CoA binding site [chemical binding]; other site 319225006505 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 319225006506 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 319225006507 Na binding site [ion binding]; other site 319225006508 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 319225006509 PAS fold; Region: PAS_3; pfam08447 319225006510 putative active site [active] 319225006511 heme pocket [chemical binding]; other site 319225006512 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 319225006513 GAF domain; Region: GAF_3; pfam13492 319225006514 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 319225006515 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 319225006516 putative active site [active] 319225006517 heme pocket [chemical binding]; other site 319225006518 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 319225006519 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 319225006520 putative active site [active] 319225006521 heme pocket [chemical binding]; other site 319225006522 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 319225006523 putative active site [active] 319225006524 heme pocket [chemical binding]; other site 319225006525 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 319225006526 dimer interface [polypeptide binding]; other site 319225006527 phosphorylation site [posttranslational modification] 319225006528 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 319225006529 ATP binding site [chemical binding]; other site 319225006530 Mg2+ binding site [ion binding]; other site 319225006531 G-X-G motif; other site 319225006532 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 319225006533 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 319225006534 active site 319225006535 phosphorylation site [posttranslational modification] 319225006536 intermolecular recognition site; other site 319225006537 dimerization interface [polypeptide binding]; other site 319225006538 Response regulator receiver domain; Region: Response_reg; pfam00072 319225006539 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 319225006540 active site 319225006541 phosphorylation site [posttranslational modification] 319225006542 intermolecular recognition site; other site 319225006543 dimerization interface [polypeptide binding]; other site 319225006544 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 319225006545 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 319225006546 NADH(P)-binding; Region: NAD_binding_10; pfam13460 319225006547 NAD(P) binding site [chemical binding]; other site 319225006548 putative active site [active] 319225006549 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006550 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 319225006551 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006552 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 319225006553 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006554 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006555 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 319225006556 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 319225006557 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 319225006558 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 319225006559 putative active site [active] 319225006560 heme pocket [chemical binding]; other site 319225006561 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 319225006562 potassium uptake protein; Region: kup; TIGR00794 319225006563 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 319225006564 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 319225006565 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 319225006566 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 319225006567 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 319225006568 6-phosphofructokinase; Provisional; Region: PRK03202 319225006569 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 319225006570 active site 319225006571 ADP/pyrophosphate binding site [chemical binding]; other site 319225006572 dimerization interface [polypeptide binding]; other site 319225006573 allosteric effector site; other site 319225006574 fructose-1,6-bisphosphate binding site; other site 319225006575 Virulence protein [General function prediction only]; Region: COG3943 319225006576 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 319225006577 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 319225006578 trmE is a tRNA modification GTPase; Region: trmE; cd04164 319225006579 G1 box; other site 319225006580 GTP/Mg2+ binding site [chemical binding]; other site 319225006581 Switch I region; other site 319225006582 G2 box; other site 319225006583 Switch II region; other site 319225006584 G3 box; other site 319225006585 G4 box; other site 319225006586 G5 box; other site 319225006587 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 319225006588 classical (c) SDRs; Region: SDR_c; cd05233 319225006589 NAD(P) binding site [chemical binding]; other site 319225006590 active site 319225006591 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 319225006592 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 319225006593 homodimer interface [polypeptide binding]; other site 319225006594 metal binding site [ion binding]; metal-binding site 319225006595 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 319225006596 homodimer interface [polypeptide binding]; other site 319225006597 active site 319225006598 putative chemical substrate binding site [chemical binding]; other site 319225006599 metal binding site [ion binding]; metal-binding site 319225006600 Predicted esterase [General function prediction only]; Region: COG0400 319225006601 trehalose synthase; Region: treS_nterm; TIGR02456 319225006602 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 319225006603 active site 319225006604 catalytic site [active] 319225006605 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 319225006606 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 319225006607 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 319225006608 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 319225006609 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 319225006610 active site 319225006611 homodimer interface [polypeptide binding]; other site 319225006612 catalytic site [active] 319225006613 acceptor binding site [chemical binding]; other site 319225006614 peptide chain release factor 2; Validated; Region: prfB; PRK00578 319225006615 PCRF domain; Region: PCRF; pfam03462 319225006616 RF-1 domain; Region: RF-1; pfam00472 319225006617 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 319225006618 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 319225006619 active site 319225006620 metal binding site [ion binding]; metal-binding site 319225006621 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 319225006622 Peptidase family M23; Region: Peptidase_M23; pfam01551 319225006623 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 319225006624 OstA-like protein; Region: OstA_2; pfam13100 319225006625 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 319225006626 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 319225006627 Recombination protein O N terminal; Region: RecO_N; pfam11967 319225006628 Recombination protein O C terminal; Region: RecO_C; pfam02565 319225006629 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 319225006630 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 319225006631 inhibitor-cofactor binding pocket; inhibition site 319225006632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225006633 catalytic residue [active] 319225006634 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 319225006635 camphor resistance protein CrcB; Provisional; Region: PRK14202 319225006636 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 319225006637 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 319225006638 molybdopterin cofactor binding site; other site 319225006639 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 319225006640 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 319225006641 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 319225006642 putative molybdopterin cofactor binding site; other site 319225006643 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 319225006644 4Fe-4S binding domain; Region: Fer4; cl02805 319225006645 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 319225006646 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 319225006647 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 319225006648 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 319225006649 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 319225006650 active site 319225006651 prephenate dehydrogenase; Validated; Region: PRK08507 319225006652 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 319225006653 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 319225006654 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 319225006655 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 319225006656 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 319225006657 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 319225006658 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 319225006659 Walker A motif; other site 319225006660 ATP binding site [chemical binding]; other site 319225006661 Walker B motif; other site 319225006662 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 319225006663 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 319225006664 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 319225006665 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 319225006666 catalytic core [active] 319225006667 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 319225006668 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 319225006669 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 319225006670 membrane protein; Provisional; Region: PRK14410 319225006671 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 319225006672 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 319225006673 dimerization interface [polypeptide binding]; other site 319225006674 putative ATP binding site [chemical binding]; other site 319225006675 aspartate kinase III; Validated; Region: PRK09084 319225006676 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 319225006677 nucleotide binding site [chemical binding]; other site 319225006678 substrate binding site [chemical binding]; other site 319225006679 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 319225006680 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 319225006681 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 319225006682 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 319225006683 exopolyphosphatase; Region: exo_poly_only; TIGR03706 319225006684 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 319225006685 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 319225006686 S-adenosylmethionine binding site [chemical binding]; other site 319225006687 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 319225006688 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 319225006689 acyl-activating enzyme (AAE) consensus motif; other site 319225006690 putative AMP binding site [chemical binding]; other site 319225006691 putative active site [active] 319225006692 putative CoA binding site [chemical binding]; other site 319225006693 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 319225006694 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 319225006695 inhibitor-cofactor binding pocket; inhibition site 319225006696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 319225006697 catalytic residue [active] 319225006698 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 319225006699 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 319225006700 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 319225006701 S-adenosylmethionine binding site [chemical binding]; other site 319225006702 Protein of unknown function (DUF452); Region: DUF452; cl01062 319225006703 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 319225006704 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 319225006705 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 319225006706 catalytic residue [active] 319225006707 biotin synthase; Region: bioB; TIGR00433 319225006708 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 319225006709 FeS/SAM binding site; other site 319225006710 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 319225006711 Biotin operon repressor [Transcription]; Region: BirA; COG1654 319225006712 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 319225006713 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 319225006714 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 319225006715 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 319225006716 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 319225006717 active site 319225006718 metal binding site [ion binding]; metal-binding site 319225006719 DNA topoisomerase I; Validated; Region: PRK06599 319225006720 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 319225006721 active site 319225006722 interdomain interaction site; other site 319225006723 putative metal-binding site [ion binding]; other site 319225006724 nucleotide binding site [chemical binding]; other site 319225006725 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 319225006726 domain I; other site 319225006727 DNA binding groove [nucleotide binding] 319225006728 phosphate binding site [ion binding]; other site 319225006729 domain II; other site 319225006730 domain III; other site 319225006731 nucleotide binding site [chemical binding]; other site 319225006732 catalytic site [active] 319225006733 domain IV; other site 319225006734 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319225006735 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 319225006736 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319225006737 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 319225006738 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 319225006739 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 319225006740 G1 box; other site 319225006741 GTP/Mg2+ binding site [chemical binding]; other site 319225006742 Switch I region; other site 319225006743 G2 box; other site 319225006744 G3 box; other site 319225006745 Switch II region; other site 319225006746 G4 box; other site 319225006747 G5 box; other site 319225006748 Nucleoside recognition; Region: Gate; pfam07670 319225006749 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 319225006750 Nucleoside recognition; Region: Gate; pfam07670 319225006751 FeoA domain; Region: FeoA; pfam04023 319225006752 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 319225006753 nucleotide binding site/active site [active] 319225006754 HIT family signature motif; other site 319225006755 catalytic residue [active] 319225006756 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 319225006757 Domain of unknown function DUF21; Region: DUF21; pfam01595 319225006758 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 319225006759 Transporter associated domain; Region: CorC_HlyC; smart01091 319225006760 Cupin domain; Region: Cupin_2; cl17218 319225006761 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; pfam09603 319225006762 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 319225006763 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 319225006764 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 319225006765 L-aspartate oxidase; Provisional; Region: PRK06175 319225006766 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 319225006767 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 319225006768 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 319225006769 putative Iron-sulfur protein interface [polypeptide binding]; other site 319225006770 proximal heme binding site [chemical binding]; other site 319225006771 distal heme binding site [chemical binding]; other site 319225006772 putative dimer interface [polypeptide binding]; other site 319225006773 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 319225006774 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 319225006775 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 319225006776 putative active site [active] 319225006777 putative FMN binding site [chemical binding]; other site 319225006778 putative substrate binding site [chemical binding]; other site 319225006779 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 319225006780 dimer interface [polypeptide binding]; other site 319225006781 Alkaline phosphatase homologues; Region: alkPPc; smart00098 319225006782 active site 319225006783 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 319225006784 Esterase/lipase [General function prediction only]; Region: COG1647 319225006785 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 319225006786 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 319225006787 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 319225006788 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 319225006789 active site 319225006790 intersubunit interactions; other site 319225006791 catalytic residue [active] 319225006792 deoxyhypusine synthase-like protein; Provisional; Region: PRK02492 319225006793 deoxyhypusine synthase; Region: dhys; TIGR00321 319225006794 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 319225006795 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 319225006796 active site 319225006797 HIGH motif; other site 319225006798 dimer interface [polypeptide binding]; other site 319225006799 KMSKS motif; other site 319225006800 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 319225006801 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 319225006802 motif II; other site 319225006803 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 319225006804 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 319225006805 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 319225006806 active site 319225006807 HIGH motif; other site 319225006808 KMSK motif region; other site 319225006809 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 319225006810 tRNA binding surface [nucleotide binding]; other site 319225006811 anticodon binding site; other site 319225006812 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 319225006813 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 319225006814 active site 319225006815 (T/H)XGH motif; other site 319225006816 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 319225006817 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 319225006818 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 319225006819 F0F1 ATP synthase subunit B; Provisional; Region: PRK14472 319225006820 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 319225006821 ATP synthase subunit C; Region: ATP-synt_C; cl00466 319225006822 F0F1 ATP synthase subunit A; Provisional; Region: PRK13419 319225006823 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 319225006824 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 319225006825 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 319225006826 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 319225006827 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 319225006828 O-methyltransferase; Region: Methyltransf_2; pfam00891 319225006829 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 319225006830 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 319225006831 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 319225006832 cell division protein FtsZ; Validated; Region: PRK09330 319225006833 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 319225006834 nucleotide binding site [chemical binding]; other site 319225006835 SulA interaction site; other site 319225006836 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 319225006837 Cell division protein FtsA; Region: FtsA; smart00842 319225006838 Cell division protein FtsA; Region: FtsA; pfam14450 319225006839 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 319225006840 FAD binding domain; Region: FAD_binding_4; pfam01565 319225006841 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 319225006842 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319225006843 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225006844 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225006845 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 319225006846 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 319225006847 active site 319225006848 homodimer interface [polypeptide binding]; other site 319225006849 cell division protein FtsW; Region: ftsW; TIGR02614 319225006850 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 319225006851 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225006852 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225006853 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 319225006854 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 319225006855 Mg++ binding site [ion binding]; other site 319225006856 putative catalytic motif [active] 319225006857 putative substrate binding site [chemical binding]; other site 319225006858 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 319225006859 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319225006860 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225006861 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225006862 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 319225006863 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 319225006864 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 319225006865 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 319225006866 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 319225006867 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 319225006868 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 319225006869 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 319225006870 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 319225006871 MraW methylase family; Region: Methyltransf_5; cl17771 319225006872 cell division protein MraZ; Reviewed; Region: PRK00326 319225006873 MraZ protein; Region: MraZ; pfam02381 319225006874 MraZ protein; Region: MraZ; pfam02381 319225006875 YacP-like NYN domain; Region: NYN_YacP; pfam05991 319225006876 Chorismate mutase type II; Region: CM_2; smart00830 319225006877 YceG-like family; Region: YceG; pfam02618 319225006878 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 319225006879 dimerization interface [polypeptide binding]; other site 319225006880 Phosphoglycerate kinase; Region: PGK; pfam00162 319225006881 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 319225006882 substrate binding site [chemical binding]; other site 319225006883 hinge regions; other site 319225006884 ADP binding site [chemical binding]; other site 319225006885 catalytic site [active] 319225006886 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 319225006887 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 319225006888 TRAM domain; Region: TRAM; cl01282 319225006889 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 319225006890 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 319225006891 S-adenosylmethionine binding site [chemical binding]; other site 319225006892 fructokinase; Reviewed; Region: PRK09557 319225006893 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 319225006894 nucleotide binding site [chemical binding]; other site 319225006895 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 319225006896 active site 319225006897 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 319225006898 membrane protein insertase; Provisional; Region: PRK01318 319225006899 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 319225006900 Haemolytic domain; Region: Haemolytic; pfam01809 319225006901 ribonuclease P; Reviewed; Region: rnpA; PRK01903 319225006902 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 319225006903 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 319225006904 DnaA N-terminal domain; Region: DnaA_N; pfam11638 319225006905 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 319225006906 Walker A motif; other site 319225006907 ATP binding site [chemical binding]; other site 319225006908 Walker B motif; other site 319225006909 arginine finger; other site 319225006910 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 319225006911 DnaA box-binding interface [nucleotide binding]; other site