-- dump date 20140619_115414 -- class Genbank::misc_feature -- table misc_feature_note -- id note 670307000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 670307000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 670307000003 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 670307000004 Walker A motif; other site 670307000005 ATP binding site [chemical binding]; other site 670307000006 Walker B motif; other site 670307000007 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 670307000008 DnaA box-binding interface [nucleotide binding]; other site 670307000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 670307000010 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 670307000011 putative DNA binding surface [nucleotide binding]; other site 670307000012 dimer interface [polypeptide binding]; other site 670307000013 beta-clamp/clamp loader binding surface; other site 670307000014 beta-clamp/translesion DNA polymerase binding surface; other site 670307000015 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 670307000016 putative active site [active] 670307000017 recombination protein F; Reviewed; Region: recF; PRK00064 670307000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307000019 Walker A/P-loop; other site 670307000020 ATP binding site [chemical binding]; other site 670307000021 Q-loop/lid; other site 670307000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307000023 ABC transporter signature motif; other site 670307000024 Walker B; other site 670307000025 D-loop; other site 670307000026 H-loop/switch region; other site 670307000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 670307000028 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 670307000029 Mg2+ binding site [ion binding]; other site 670307000030 G-X-G motif; other site 670307000031 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 670307000032 anchoring element; other site 670307000033 dimer interface [polypeptide binding]; other site 670307000034 ATP binding site [chemical binding]; other site 670307000035 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 670307000036 active site 670307000037 putative metal-binding site [ion binding]; other site 670307000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 670307000039 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 670307000040 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 670307000041 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 670307000042 TrkA-N domain; Region: TrkA_N; pfam02254 670307000043 Transglycosylase; Region: Transgly; pfam00912 670307000044 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 670307000045 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 670307000046 Protein of unknown function DUF45; Region: DUF45; pfam01863 670307000047 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 670307000048 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 670307000049 Cu(I) binding site [ion binding]; other site 670307000050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307000051 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 670307000052 ATP binding site [chemical binding]; other site 670307000053 Mg2+ binding site [ion binding]; other site 670307000054 G-X-G motif; other site 670307000055 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 670307000056 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 670307000057 active site 670307000058 phosphorylation site [posttranslational modification] 670307000059 intermolecular recognition site; other site 670307000060 dimerization interface [polypeptide binding]; other site 670307000061 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 670307000062 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 670307000063 AAA domain; Region: AAA_32; pfam13654 670307000064 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 670307000065 GcrA cell cycle regulator; Region: GcrA; cl11564 670307000066 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 670307000067 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 670307000068 inhibitor-cofactor binding pocket; inhibition site 670307000069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307000070 catalytic residue [active] 670307000071 ornithine carbamoyltransferase; Provisional; Region: PRK00779 670307000072 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 670307000073 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 670307000074 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 670307000075 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 670307000076 dimerization interface [polypeptide binding]; other site 670307000077 domain crossover interface; other site 670307000078 redox-dependent activation switch; other site 670307000079 EF-hand domain pair; Region: EF_hand_5; pfam13499 670307000080 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 670307000081 Ca2+ binding site [ion binding]; other site 670307000082 acetylornithine deacetylase; Provisional; Region: PRK07522 670307000083 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 670307000084 metal binding site [ion binding]; metal-binding site 670307000085 putative dimer interface [polypeptide binding]; other site 670307000086 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 670307000087 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 670307000088 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 670307000089 homodimer interface [polypeptide binding]; other site 670307000090 substrate-cofactor binding pocket; other site 670307000091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307000092 catalytic residue [active] 670307000093 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 670307000094 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 670307000095 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 670307000096 trimer interface [polypeptide binding]; other site 670307000097 active site 670307000098 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 670307000099 trimer interface [polypeptide binding]; other site 670307000100 active site 670307000101 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 670307000102 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 670307000103 IHF dimer interface [polypeptide binding]; other site 670307000104 IHF - DNA interface [nucleotide binding]; other site 670307000105 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 670307000106 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 670307000107 metal binding site [ion binding]; metal-binding site 670307000108 dimer interface [polypeptide binding]; other site 670307000109 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 670307000110 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 670307000111 trimer interface [polypeptide binding]; other site 670307000112 active site 670307000113 substrate binding site [chemical binding]; other site 670307000114 CoA binding site [chemical binding]; other site 670307000115 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 670307000116 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 670307000117 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 670307000118 catalytic residues [active] 670307000119 argininosuccinate lyase; Provisional; Region: PRK00855 670307000120 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 670307000121 active sites [active] 670307000122 tetramer interface [polypeptide binding]; other site 670307000123 diaminopimelate decarboxylase; Region: lysA; TIGR01048 670307000124 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 670307000125 active site 670307000126 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 670307000127 substrate binding site [chemical binding]; other site 670307000128 catalytic residues [active] 670307000129 dimer interface [polypeptide binding]; other site 670307000130 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 670307000131 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 670307000132 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 670307000133 Transglycosylase; Region: Transgly; pfam00912 670307000134 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 670307000135 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 670307000136 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 670307000137 MG2 domain; Region: A2M_N; pfam01835 670307000138 Alpha-2-macroglobulin family; Region: A2M; pfam00207 670307000139 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 670307000140 surface patch; other site 670307000141 thioester region; other site 670307000142 specificity defining residues; other site 670307000143 Transglycosylase; Region: Transgly; cl17702 670307000144 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 670307000145 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 670307000146 AAA ATPase domain; Region: AAA_16; pfam13191 670307000147 Domain of unknown function DUF87; Region: DUF87; pfam01935 670307000148 AAA-like domain; Region: AAA_10; pfam12846 670307000149 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 670307000150 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 670307000151 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 670307000152 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 670307000153 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 670307000154 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 670307000155 Major Facilitator Superfamily; Region: MFS_1; pfam07690 670307000156 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 670307000157 putative substrate translocation pore; other site 670307000158 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 670307000159 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 670307000160 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 670307000161 active site 670307000162 catalytic tetrad [active] 670307000163 hypothetical protein; Provisional; Region: PRK12472 670307000164 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307000165 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 670307000166 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 670307000167 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 670307000168 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_21; cd04680 670307000169 nudix motif; other site 670307000170 salicylate hydroxylase; Provisional; Region: PRK08163 670307000171 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 670307000172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 670307000173 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 670307000174 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 670307000175 nucleophilic elbow; other site 670307000176 catalytic triad; other site 670307000177 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 670307000178 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307000179 WHG domain; Region: WHG; pfam13305 670307000180 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 670307000181 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 670307000182 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 670307000183 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 670307000184 putative metal binding site [ion binding]; other site 670307000185 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 670307000186 HSP70 interaction site [polypeptide binding]; other site 670307000187 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 670307000188 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 670307000189 amidase catalytic site [active] 670307000190 Zn binding residues [ion binding]; other site 670307000191 substrate binding site [chemical binding]; other site 670307000192 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 670307000193 putative metal dependent hydrolase; Provisional; Region: PRK11598 670307000194 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 670307000195 Sulfatase; Region: Sulfatase; pfam00884 670307000196 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307000197 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 670307000198 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307000199 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307000200 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 670307000201 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307000202 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 670307000203 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307000204 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 670307000205 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 670307000206 Ferredoxin [Energy production and conversion]; Region: COG1146 670307000207 4Fe-4S binding domain; Region: Fer4; pfam00037 670307000208 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 670307000209 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 670307000210 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 670307000211 putative ligand binding site [chemical binding]; other site 670307000212 Transcriptional regulators [Transcription]; Region: FadR; COG2186 670307000213 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 670307000214 DNA-binding site [nucleotide binding]; DNA binding site 670307000215 FCD domain; Region: FCD; pfam07729 670307000216 Amino acid permease; Region: AA_permease_2; pfam13520 670307000217 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 670307000218 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 670307000219 FMN-binding pocket [chemical binding]; other site 670307000220 flavin binding motif; other site 670307000221 phosphate binding motif [ion binding]; other site 670307000222 beta-alpha-beta structure motif; other site 670307000223 NAD binding pocket [chemical binding]; other site 670307000224 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 670307000225 catalytic loop [active] 670307000226 iron binding site [ion binding]; other site 670307000227 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 670307000228 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 670307000229 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 670307000230 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 670307000231 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 670307000232 apolar tunnel; other site 670307000233 heme binding site [chemical binding]; other site 670307000234 dimerization interface [polypeptide binding]; other site 670307000235 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 670307000236 PAS domain S-box; Region: sensory_box; TIGR00229 670307000237 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 670307000238 putative active site [active] 670307000239 heme pocket [chemical binding]; other site 670307000240 histidine kinase; Provisional; Region: PRK13557 670307000241 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 670307000242 putative active site [active] 670307000243 heme pocket [chemical binding]; other site 670307000244 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 670307000245 dimer interface [polypeptide binding]; other site 670307000246 phosphorylation site [posttranslational modification] 670307000247 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 670307000248 ATP binding site [chemical binding]; other site 670307000249 Mg2+ binding site [ion binding]; other site 670307000250 G-X-G motif; other site 670307000251 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 670307000252 active site 670307000253 phosphorylation site [posttranslational modification] 670307000254 intermolecular recognition site; other site 670307000255 dimerization interface [polypeptide binding]; other site 670307000256 classical (c) SDRs; Region: SDR_c; cd05233 670307000257 NAD(P) binding site [chemical binding]; other site 670307000258 active site 670307000259 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 670307000260 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 670307000261 S-adenosylmethionine binding site [chemical binding]; other site 670307000262 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 670307000263 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 670307000264 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 670307000265 Trp docking motif [polypeptide binding]; other site 670307000266 dimer interface [polypeptide binding]; other site 670307000267 active site 670307000268 small subunit binding site [polypeptide binding]; other site 670307000269 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 670307000270 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 670307000271 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 670307000272 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 670307000273 NADP-binding site; other site 670307000274 homotetramer interface [polypeptide binding]; other site 670307000275 substrate binding site [chemical binding]; other site 670307000276 homodimer interface [polypeptide binding]; other site 670307000277 active site 670307000278 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 670307000279 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 670307000280 NADP binding site [chemical binding]; other site 670307000281 active site 670307000282 putative substrate binding site [chemical binding]; other site 670307000283 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; pfam04098 670307000284 Protein of unknown function (DUF968); Region: DUF968; pfam06147 670307000285 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 670307000286 Protein of unknown function (DUF968); Region: DUF968; pfam06147 670307000287 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 670307000288 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 670307000289 NAD(P) binding site [chemical binding]; other site 670307000290 homodimer interface [polypeptide binding]; other site 670307000291 substrate binding site [chemical binding]; other site 670307000292 active site 670307000293 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 670307000294 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 670307000295 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 670307000296 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307000297 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 670307000298 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 670307000299 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 670307000300 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 670307000301 NAD(P) binding site [chemical binding]; other site 670307000302 homodimer interface [polypeptide binding]; other site 670307000303 substrate binding site [chemical binding]; other site 670307000304 active site 670307000305 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 670307000306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307000307 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 670307000308 NAD(P) binding site [chemical binding]; other site 670307000309 active site 670307000310 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 670307000311 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 670307000312 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 670307000313 active site 670307000314 homodimer interface [polypeptide binding]; other site 670307000315 putative glycosyl transferase; Provisional; Region: PRK10307 670307000316 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 670307000317 Bacterial sugar transferase; Region: Bac_transf; pfam02397 670307000318 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 670307000319 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 670307000320 putative trimer interface [polypeptide binding]; other site 670307000321 putative CoA binding site [chemical binding]; other site 670307000322 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 670307000323 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 670307000324 inhibitor-cofactor binding pocket; inhibition site 670307000325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307000326 catalytic residue [active] 670307000327 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 670307000328 putative metal binding site; other site 670307000329 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 670307000330 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 670307000331 active site 670307000332 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 670307000333 ligand-binding site [chemical binding]; other site 670307000334 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 670307000335 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 670307000336 active site 670307000337 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 670307000338 2TM domain; Region: 2TM; pfam13239 670307000339 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 670307000340 substrate binding site [chemical binding]; other site 670307000341 chaperonin_like superfamily. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 670307000342 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 670307000343 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 670307000344 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 670307000345 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 670307000346 Transposase; Region: DEDD_Tnp_IS110; pfam01548 670307000347 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 670307000348 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 670307000349 FOG: CBS domain [General function prediction only]; Region: COG0517 670307000350 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_9; cd04622 670307000351 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 670307000352 BON domain; Region: BON; pfam04972 670307000353 BON domain; Region: BON; pfam04972 670307000354 BON domain; Region: BON; pfam04972 670307000355 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 670307000356 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 670307000357 putative dimer interface [polypeptide binding]; other site 670307000358 CHASE2 domain; Region: CHASE2; pfam05226 670307000359 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 670307000360 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 670307000361 putative FMN binding site [chemical binding]; other site 670307000362 NADPH bind site [chemical binding]; other site 670307000363 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307000364 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 670307000365 ligand binding site [chemical binding]; other site 670307000366 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 670307000367 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 670307000368 THF binding site; other site 670307000369 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 670307000370 substrate binding site [chemical binding]; other site 670307000371 THF binding site; other site 670307000372 zinc-binding site [ion binding]; other site 670307000373 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 670307000374 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 670307000375 substrate binding site [chemical binding]; other site 670307000376 dimer interface [polypeptide binding]; other site 670307000377 ATP binding site [chemical binding]; other site 670307000378 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 670307000379 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 670307000380 Trp docking motif [polypeptide binding]; other site 670307000381 dimer interface [polypeptide binding]; other site 670307000382 active site 670307000383 small subunit binding site [polypeptide binding]; other site 670307000384 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 670307000385 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 670307000386 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 670307000387 Cytochrome c; Region: Cytochrom_C; pfam00034 670307000388 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 670307000389 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 670307000390 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 670307000391 FAD binding pocket [chemical binding]; other site 670307000392 FAD binding motif [chemical binding]; other site 670307000393 phosphate binding motif [ion binding]; other site 670307000394 beta-alpha-beta structure motif; other site 670307000395 NAD binding pocket [chemical binding]; other site 670307000396 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 670307000397 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 670307000398 K+-transporting ATPase, c chain; Region: KdpC; cl00944 670307000399 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307000400 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 670307000401 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307000402 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 670307000403 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 670307000404 active site 670307000405 phosphorylation site [posttranslational modification] 670307000406 intermolecular recognition site; other site 670307000407 dimerization interface [polypeptide binding]; other site 670307000408 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 670307000409 DNA binding site [nucleotide binding] 670307000410 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307000411 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 670307000412 ATP binding site [chemical binding]; other site 670307000413 Mg2+ binding site [ion binding]; other site 670307000414 G-X-G motif; other site 670307000415 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 670307000416 HAMP domain; Region: HAMP; pfam00672 670307000417 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 670307000418 dimer interface [polypeptide binding]; other site 670307000419 phosphorylation site [posttranslational modification] 670307000420 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 670307000421 ATP binding site [chemical binding]; other site 670307000422 Mg2+ binding site [ion binding]; other site 670307000423 G-X-G motif; other site 670307000424 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307000425 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 670307000426 active site 670307000427 phosphorylation site [posttranslational modification] 670307000428 intermolecular recognition site; other site 670307000429 dimerization interface [polypeptide binding]; other site 670307000430 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 670307000431 DNA binding site [nucleotide binding] 670307000432 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 670307000433 TPR repeat; Region: TPR_11; pfam13414 670307000434 Predicted membrane protein [Function unknown]; Region: COG2510 670307000435 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 670307000436 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 670307000437 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 670307000438 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 670307000439 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 670307000440 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307000441 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 670307000442 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 670307000443 active site 670307000444 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 670307000445 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 670307000446 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 670307000447 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 670307000448 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 670307000449 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 670307000450 DNA binding residues [nucleotide binding] 670307000451 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 670307000452 dimer interface [polypeptide binding]; other site 670307000453 putative metal binding site [ion binding]; other site 670307000454 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 670307000455 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 670307000456 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 670307000457 Multicopper oxidase; Region: Cu-oxidase; pfam00394 670307000458 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 670307000459 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; cl17904 670307000460 Major Facilitator Superfamily; Region: MFS_1; pfam07690 670307000461 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307000462 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 670307000463 ligand binding site [chemical binding]; other site 670307000464 flexible hinge region; other site 670307000465 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 670307000466 non-specific DNA interactions [nucleotide binding]; other site 670307000467 DNA binding site [nucleotide binding] 670307000468 sequence specific DNA binding site [nucleotide binding]; other site 670307000469 putative cAMP binding site [chemical binding]; other site 670307000470 potential protein location (hypothetical protein jgi_23553 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-S) 670307000471 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 670307000472 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 670307000473 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 670307000474 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 670307000475 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 670307000476 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 670307000477 GTPase CgtA; Reviewed; Region: obgE; PRK12299 670307000478 GTP1/OBG; Region: GTP1_OBG; pfam01018 670307000479 Obg GTPase; Region: Obg; cd01898 670307000480 G1 box; other site 670307000481 GTP/Mg2+ binding site [chemical binding]; other site 670307000482 Switch I region; other site 670307000483 G2 box; other site 670307000484 G3 box; other site 670307000485 Switch II region; other site 670307000486 G4 box; other site 670307000487 G5 box; other site 670307000488 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 670307000489 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 670307000490 gamma-glutamyl kinase; Provisional; Region: PRK05429 670307000491 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 670307000492 nucleotide binding site [chemical binding]; other site 670307000493 homotetrameric interface [polypeptide binding]; other site 670307000494 putative phosphate binding site [ion binding]; other site 670307000495 putative allosteric binding site; other site 670307000496 PUA domain; Region: PUA; pfam01472 670307000497 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 670307000498 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 670307000499 putative catalytic cysteine [active] 670307000500 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 670307000501 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 670307000502 active site 670307000503 (T/H)XGH motif; other site 670307000504 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 670307000505 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 670307000506 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 670307000507 putative active site [active] 670307000508 short chain dehydrogenase; Provisional; Region: PRK05993 670307000509 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 670307000510 NADP binding site [chemical binding]; other site 670307000511 active site 670307000512 steroid binding site; other site 670307000513 META domain; Region: META; pfam03724 670307000514 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 670307000515 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 670307000516 active site 670307000517 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 670307000518 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 670307000519 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 670307000520 putative NAD(P) binding site [chemical binding]; other site 670307000521 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 670307000522 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 670307000523 B12 binding site [chemical binding]; other site 670307000524 cobalt ligand [ion binding]; other site 670307000525 CrcB-like protein; Region: CRCB; cl09114 670307000526 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 670307000527 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 670307000528 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 670307000529 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 670307000530 Domain of unknown function (DUF427); Region: DUF427; pfam04248 670307000531 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 670307000532 Predicted integral membrane protein [Function unknown]; Region: COG5473 670307000533 cell division protein MraZ; Reviewed; Region: PRK00326 670307000534 MraZ protein; Region: MraZ; pfam02381 670307000535 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 670307000536 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 670307000537 S-adenosylmethionine binding site [chemical binding]; other site 670307000538 Cell division protein FtsL; Region: FtsL; cl11433 670307000539 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 670307000540 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 670307000541 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 670307000542 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 670307000543 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 670307000544 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 670307000545 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 670307000546 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 670307000547 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 670307000548 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 670307000549 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 670307000550 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 670307000551 Mg++ binding site [ion binding]; other site 670307000552 putative catalytic motif [active] 670307000553 putative substrate binding site [chemical binding]; other site 670307000554 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 670307000555 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 670307000556 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 670307000557 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 670307000558 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 670307000559 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 670307000560 active site 670307000561 homodimer interface [polypeptide binding]; other site 670307000562 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 670307000563 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 670307000564 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 670307000565 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 670307000566 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 670307000567 FAD binding domain; Region: FAD_binding_4; pfam01565 670307000568 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 670307000569 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 670307000570 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 670307000571 ATP-grasp domain; Region: ATP-grasp_4; cl17255 670307000572 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 670307000573 Cell division protein FtsQ; Region: FtsQ; pfam03799 670307000574 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 670307000575 Cell division protein FtsA; Region: FtsA; smart00842 670307000576 Cell division protein FtsA; Region: FtsA; pfam14450 670307000577 cell division protein FtsZ; Validated; Region: PRK09330 670307000578 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 670307000579 nucleotide binding site [chemical binding]; other site 670307000580 SulA interaction site; other site 670307000581 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 670307000582 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 670307000583 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 670307000584 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 670307000585 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 670307000586 nucleotide binding pocket [chemical binding]; other site 670307000587 K-X-D-G motif; other site 670307000588 catalytic site [active] 670307000589 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 670307000590 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 670307000591 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 670307000592 Dimer interface [polypeptide binding]; other site 670307000593 BRCT sequence motif; other site 670307000594 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 670307000595 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 670307000596 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 670307000597 active site 670307000598 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 670307000599 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 670307000600 S-adenosylmethionine binding site [chemical binding]; other site 670307000601 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 670307000602 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 670307000603 HSP70 interaction site [polypeptide binding]; other site 670307000604 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 670307000605 Part of AAA domain; Region: AAA_19; pfam13245 670307000606 Family description; Region: UvrD_C_2; pfam13538 670307000607 AsmA family; Region: AsmA; pfam05170 670307000608 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 670307000609 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 670307000610 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 670307000611 fumarate hydratase; Reviewed; Region: fumC; PRK00485 670307000612 Class II fumarases; Region: Fumarase_classII; cd01362 670307000613 active site 670307000614 tetramer interface [polypeptide binding]; other site 670307000615 Stringent starvation protein B; Region: SspB; pfam04386 670307000616 CAAX protease self-immunity; Region: Abi; pfam02517 670307000617 thymidylate synthase; Reviewed; Region: thyA; PRK01827 670307000618 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 670307000619 dimerization interface [polypeptide binding]; other site 670307000620 active site 670307000621 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 670307000622 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 670307000623 folate binding site [chemical binding]; other site 670307000624 NADP+ binding site [chemical binding]; other site 670307000625 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 670307000626 HflK protein; Region: hflK; TIGR01933 670307000627 FtsH protease regulator HflC; Provisional; Region: PRK11029 670307000628 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 670307000629 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 670307000630 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 670307000631 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 670307000632 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 670307000633 protein binding site [polypeptide binding]; other site 670307000634 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 670307000635 protein binding site [polypeptide binding]; other site 670307000636 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 670307000637 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 670307000638 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 670307000639 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 670307000640 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 670307000641 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 670307000642 Substrate binding site; other site 670307000643 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 670307000644 Domain of unknown function DUF87; Region: DUF87; pfam01935 670307000645 AAA-like domain; Region: AAA_10; pfam12846 670307000646 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 670307000647 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 670307000648 dimer interface [polypeptide binding]; other site 670307000649 phosphorylation site [posttranslational modification] 670307000650 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 670307000651 ATP binding site [chemical binding]; other site 670307000652 Mg2+ binding site [ion binding]; other site 670307000653 G-X-G motif; other site 670307000654 TonB C terminal; Region: TonB_2; pfam13103 670307000655 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 670307000656 TolR protein; Region: tolR; TIGR02801 670307000657 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 670307000658 Chain length determinant protein; Region: Wzz; pfam02706 670307000659 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 670307000660 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 670307000661 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 670307000662 dimerization interface [polypeptide binding]; other site 670307000663 ligand binding site [chemical binding]; other site 670307000664 NADP binding site [chemical binding]; other site 670307000665 catalytic site [active] 670307000666 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 670307000667 GIY-YIG motif/motif A; other site 670307000668 putative active site [active] 670307000669 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 670307000670 Amidase; Region: Amidase; cl11426 670307000671 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 670307000672 homodimer interface [polypeptide binding]; other site 670307000673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307000674 catalytic residue [active] 670307000675 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 670307000676 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 670307000677 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 670307000678 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 670307000679 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 670307000680 metal binding site [ion binding]; metal-binding site 670307000681 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 670307000682 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 670307000683 active site 670307000684 phosphorylation site [posttranslational modification] 670307000685 intermolecular recognition site; other site 670307000686 dimerization interface [polypeptide binding]; other site 670307000687 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 670307000688 DNA binding site [nucleotide binding] 670307000689 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 670307000690 PhoU domain; Region: PhoU; pfam01895 670307000691 PhoU domain; Region: PhoU; pfam01895 670307000692 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 670307000693 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 670307000694 Walker A/P-loop; other site 670307000695 ATP binding site [chemical binding]; other site 670307000696 Q-loop/lid; other site 670307000697 ABC transporter signature motif; other site 670307000698 Walker B; other site 670307000699 D-loop; other site 670307000700 H-loop/switch region; other site 670307000701 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 670307000702 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 670307000703 dimer interface [polypeptide binding]; other site 670307000704 conserved gate region; other site 670307000705 putative PBP binding loops; other site 670307000706 ABC-ATPase subunit interface; other site 670307000707 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 670307000708 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 670307000709 dimer interface [polypeptide binding]; other site 670307000710 conserved gate region; other site 670307000711 putative PBP binding loops; other site 670307000712 ABC-ATPase subunit interface; other site 670307000713 PBP superfamily domain; Region: PBP_like_2; cl17296 670307000714 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 670307000715 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 670307000716 dimer interface [polypeptide binding]; other site 670307000717 phosphorylation site [posttranslational modification] 670307000718 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 670307000719 ATP binding site [chemical binding]; other site 670307000720 Mg2+ binding site [ion binding]; other site 670307000721 G-X-G motif; other site 670307000722 Predicted transcriptional regulator [Transcription]; Region: COG1959 670307000723 Transcriptional regulator; Region: Rrf2; cl17282 670307000724 Imelysin; Region: Peptidase_M75; cl09159 670307000725 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 670307000726 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 670307000727 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 670307000728 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 670307000729 Imelysin; Region: Peptidase_M75; cl09159 670307000730 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 670307000731 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 670307000732 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 670307000733 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 670307000734 FeS/SAM binding site; other site 670307000735 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 670307000736 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 670307000737 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307000738 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307000739 WHG domain; Region: WHG; pfam13305 670307000740 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 670307000741 TadE-like protein; Region: TadE; pfam07811 670307000742 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 670307000743 TadE-like protein; Region: TadE; pfam07811 670307000744 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 670307000745 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 670307000746 Flp/Fap pilin component; Region: Flp_Fap; cl01585 670307000747 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 670307000748 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 670307000749 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 670307000750 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 670307000751 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 670307000752 BON domain; Region: BON; pfam04972 670307000753 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 670307000754 Type IV pili component [Cell motility and secretion]; Region: COG5461 670307000755 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 670307000756 Response regulator receiver domain; Region: Response_reg; pfam00072 670307000757 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 670307000758 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 670307000759 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 670307000760 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 670307000761 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 670307000762 ATP binding site [chemical binding]; other site 670307000763 Walker A motif; other site 670307000764 hexamer interface [polypeptide binding]; other site 670307000765 Walker B motif; other site 670307000766 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 670307000767 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 670307000768 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 670307000769 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 670307000770 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 670307000771 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 670307000772 TPR motif; other site 670307000773 binding surface 670307000774 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 670307000775 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 670307000776 interface (dimer of trimers) [polypeptide binding]; other site 670307000777 Substrate-binding/catalytic site; other site 670307000778 Zn-binding sites [ion binding]; other site 670307000779 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 670307000780 NlpC/P60 family; Region: NLPC_P60; cl17555 670307000781 acyl-CoA esterase; Provisional; Region: PRK10673 670307000782 putative S-transferase; Provisional; Region: PRK11752 670307000783 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 670307000784 C-terminal domain interface [polypeptide binding]; other site 670307000785 GSH binding site (G-site) [chemical binding]; other site 670307000786 dimer interface [polypeptide binding]; other site 670307000787 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 670307000788 dimer interface [polypeptide binding]; other site 670307000789 N-terminal domain interface [polypeptide binding]; other site 670307000790 active site 670307000791 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 670307000792 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 670307000793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 670307000794 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 670307000795 DNA binding site [nucleotide binding] 670307000796 active site 670307000797 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 670307000798 GDP-Fucose binding site [chemical binding]; other site 670307000799 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 670307000800 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 670307000801 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 670307000802 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 670307000803 hydrogenase 4 subunit F; Validated; Region: PRK06458 670307000804 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 670307000805 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 670307000806 NADH dehydrogenase; Region: NADHdh; cl00469 670307000807 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 670307000808 hydrogenase 4 subunit B; Validated; Region: PRK06521 670307000809 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 670307000810 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 670307000811 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 670307000812 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 670307000813 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 670307000814 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 670307000815 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 670307000816 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 670307000817 Ligand Binding Site [chemical binding]; other site 670307000818 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 670307000819 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 670307000820 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 670307000821 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 670307000822 Predicted membrane protein [Function unknown]; Region: COG3212 670307000823 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 670307000824 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307000825 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 670307000826 active site 670307000827 phosphorylation site [posttranslational modification] 670307000828 intermolecular recognition site; other site 670307000829 dimerization interface [polypeptide binding]; other site 670307000830 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 670307000831 DNA binding site [nucleotide binding] 670307000832 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 670307000833 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 670307000834 ATP binding site [chemical binding]; other site 670307000835 Mg2+ binding site [ion binding]; other site 670307000836 G-X-G motif; other site 670307000837 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 670307000838 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 670307000839 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 670307000840 ring oligomerisation interface [polypeptide binding]; other site 670307000841 ATP/Mg binding site [chemical binding]; other site 670307000842 stacking interactions; other site 670307000843 hinge regions; other site 670307000844 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 670307000845 oligomerisation interface [polypeptide binding]; other site 670307000846 mobile loop; other site 670307000847 roof hairpin; other site 670307000848 SPW repeat; Region: SPW; pfam03779 670307000849 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 670307000850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307000851 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 670307000852 NAD(P) binding site [chemical binding]; other site 670307000853 active site 670307000854 DNA polymerase I; Provisional; Region: PRK05755 670307000855 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 670307000856 active site 670307000857 metal binding site 1 [ion binding]; metal-binding site 670307000858 putative 5' ssDNA interaction site; other site 670307000859 metal binding site 3; metal-binding site 670307000860 metal binding site 2 [ion binding]; metal-binding site 670307000861 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 670307000862 putative DNA binding site [nucleotide binding]; other site 670307000863 putative metal binding site [ion binding]; other site 670307000864 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 670307000865 active site 670307000866 catalytic site [active] 670307000867 substrate binding site [chemical binding]; other site 670307000868 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 670307000869 active site 670307000870 DNA binding site [nucleotide binding] 670307000871 catalytic site [active] 670307000872 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 670307000873 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 670307000874 TLC ATP/ADP transporter; Region: TLC; cl03940 670307000875 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 670307000876 rRNA binding site [nucleotide binding]; other site 670307000877 predicted 30S ribosome binding site; other site 670307000878 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 670307000879 DNA-binding site [nucleotide binding]; DNA binding site 670307000880 RNA-binding motif; other site 670307000881 Peptidase M15; Region: Peptidase_M15_3; cl01194 670307000882 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 670307000883 GTP-binding protein LepA; Provisional; Region: PRK05433 670307000884 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 670307000885 G1 box; other site 670307000886 putative GEF interaction site [polypeptide binding]; other site 670307000887 GTP/Mg2+ binding site [chemical binding]; other site 670307000888 Switch I region; other site 670307000889 G2 box; other site 670307000890 G3 box; other site 670307000891 Switch II region; other site 670307000892 G4 box; other site 670307000893 G5 box; other site 670307000894 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 670307000895 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 670307000896 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 670307000897 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 670307000898 diiron binding motif [ion binding]; other site 670307000899 Uncharacterized conserved protein [Function unknown]; Region: COG1633 670307000900 CCC1-related protein family; Region: CCC1_like_1; cd02437 670307000901 Transglycosylase SLT domain; Region: SLT_2; pfam13406 670307000902 murein hydrolase B; Provisional; Region: PRK10760; cl17906 670307000903 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 670307000904 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 670307000905 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307000906 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 670307000907 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 670307000908 putative tRNA-binding site [nucleotide binding]; other site 670307000909 B3/4 domain; Region: B3_4; pfam03483 670307000910 tRNA synthetase B5 domain; Region: B5; smart00874 670307000911 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 670307000912 dimer interface [polypeptide binding]; other site 670307000913 motif 1; other site 670307000914 motif 3; other site 670307000915 motif 2; other site 670307000916 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 670307000917 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 670307000918 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 670307000919 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 670307000920 dimer interface [polypeptide binding]; other site 670307000921 motif 1; other site 670307000922 active site 670307000923 motif 2; other site 670307000924 motif 3; other site 670307000925 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 670307000926 23S rRNA binding site [nucleotide binding]; other site 670307000927 L21 binding site [polypeptide binding]; other site 670307000928 L13 binding site [polypeptide binding]; other site 670307000929 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 670307000930 GtrA-like protein; Region: GtrA; pfam04138 670307000931 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307000932 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 670307000933 ligand binding site [chemical binding]; other site 670307000934 flexible hinge region; other site 670307000935 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 670307000936 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 670307000937 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 670307000938 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 670307000939 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307000940 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 670307000941 putative ADP-binding pocket [chemical binding]; other site 670307000942 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 670307000943 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 670307000944 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 670307000945 putative NAD(P) binding site [chemical binding]; other site 670307000946 epoxyqueuosine reductase; Region: TIGR00276 670307000947 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 670307000948 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 670307000949 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 670307000950 C-terminal domain interface [polypeptide binding]; other site 670307000951 GSH binding site (G-site) [chemical binding]; other site 670307000952 dimer interface [polypeptide binding]; other site 670307000953 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 670307000954 N-terminal domain interface [polypeptide binding]; other site 670307000955 dimer interface [polypeptide binding]; other site 670307000956 substrate binding pocket (H-site) [chemical binding]; other site 670307000957 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 670307000958 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 670307000959 active site 670307000960 phosphorylation site [posttranslational modification] 670307000961 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 670307000962 30S subunit binding site; other site 670307000963 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 670307000964 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 670307000965 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 670307000966 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 670307000967 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 670307000968 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 670307000969 Walker A/P-loop; other site 670307000970 ATP binding site [chemical binding]; other site 670307000971 Q-loop/lid; other site 670307000972 ABC transporter signature motif; other site 670307000973 Walker B; other site 670307000974 D-loop; other site 670307000975 H-loop/switch region; other site 670307000976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 670307000977 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 670307000978 OstA-like protein; Region: OstA; pfam03968 670307000979 OstA-like protein; Region: OstA; pfam03968 670307000980 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 670307000981 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 670307000982 catalytic site [active] 670307000983 putative active site [active] 670307000984 putative substrate binding site [chemical binding]; other site 670307000985 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 670307000986 binding surface 670307000987 TPR motif; other site 670307000988 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 670307000989 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 670307000990 Predicted membrane protein [Function unknown]; Region: COG2259 670307000991 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 670307000992 glutaminase; Provisional; Region: PRK00971 670307000993 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 670307000994 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 670307000995 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 670307000996 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 670307000997 TAP-like protein; Region: Abhydrolase_4; pfam08386 670307000998 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 670307000999 Sel1-like repeats; Region: SEL1; smart00671 670307001000 Sel1-like repeats; Region: SEL1; smart00671 670307001001 Sel1-like repeats; Region: SEL1; smart00671 670307001002 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 670307001003 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 670307001004 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 670307001005 putative active site [active] 670307001006 putative metal binding site [ion binding]; other site 670307001007 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 670307001008 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 670307001009 ATP binding site [chemical binding]; other site 670307001010 putative Mg++ binding site [ion binding]; other site 670307001011 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 670307001012 nucleotide binding region [chemical binding]; other site 670307001013 ATP-binding site [chemical binding]; other site 670307001014 DEAD/H associated; Region: DEAD_assoc; pfam08494 670307001015 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 670307001016 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 670307001017 quinone interaction residues [chemical binding]; other site 670307001018 active site 670307001019 catalytic residues [active] 670307001020 FMN binding site [chemical binding]; other site 670307001021 substrate binding site [chemical binding]; other site 670307001022 Protein of unknown function (DUF952); Region: DUF952; pfam06108 670307001023 Protein of unknown function DUF262; Region: DUF262; pfam03235 670307001024 Uncharacterized conserved protein [Function unknown]; Region: COG1479 670307001025 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 670307001026 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 670307001027 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 670307001028 active site 670307001029 nucleotide binding site [chemical binding]; other site 670307001030 HIGH motif; other site 670307001031 KMSKS motif; other site 670307001032 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 670307001033 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 670307001034 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 670307001035 methionine sulfoxide reductase A; Provisional; Region: PRK00058 670307001036 potential protein location (hypothetical protein jgi_24668 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-S) 670307001037 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 670307001038 transcriptional activator RfaH; Region: RfaH; TIGR01955 670307001039 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 670307001040 heterodimer interface [polypeptide binding]; other site 670307001041 homodimer interface [polypeptide binding]; other site 670307001042 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307001043 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 670307001044 Uncharacterized conserved protein [Function unknown]; Region: COG1434 670307001045 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 670307001046 putative active site [active] 670307001047 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 670307001048 putative acyl transferase; Provisional; Region: PRK10502 670307001049 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 670307001050 putative trimer interface [polypeptide binding]; other site 670307001051 putative active site [active] 670307001052 putative substrate binding site [chemical binding]; other site 670307001053 putative CoA binding site [chemical binding]; other site 670307001054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307001055 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 670307001056 putative ADP-binding pocket [chemical binding]; other site 670307001057 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307001058 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 670307001059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307001060 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 670307001061 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 670307001062 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307001063 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 670307001064 putative ADP-binding pocket [chemical binding]; other site 670307001065 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307001066 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 670307001067 putative ADP-binding pocket [chemical binding]; other site 670307001068 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307001069 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 670307001070 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 670307001071 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 670307001072 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307001073 putative ADP-binding pocket [chemical binding]; other site 670307001074 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 670307001075 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 670307001076 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; cl02542 670307001077 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 670307001078 Chain length determinant protein; Region: Wzz; pfam02706 670307001079 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 670307001080 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 670307001081 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 670307001082 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 670307001083 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 670307001084 SLBB domain; Region: SLBB; pfam10531 670307001085 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 670307001086 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 670307001087 O-Antigen ligase; Region: Wzy_C; pfam04932 670307001088 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 670307001089 Bacterial sugar transferase; Region: Bac_transf; pfam02397 670307001090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 670307001091 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 670307001092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 670307001093 DNA-binding site [nucleotide binding]; DNA binding site 670307001094 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 670307001095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307001096 homodimer interface [polypeptide binding]; other site 670307001097 catalytic residue [active] 670307001098 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 670307001099 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 670307001100 putative NAD(P) binding site [chemical binding]; other site 670307001101 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 670307001102 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 670307001103 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 670307001104 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 670307001105 dimer interface [polypeptide binding]; other site 670307001106 conserved gate region; other site 670307001107 putative PBP binding loops; other site 670307001108 ABC-ATPase subunit interface; other site 670307001109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307001110 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 670307001111 Walker A/P-loop; other site 670307001112 ATP binding site [chemical binding]; other site 670307001113 Q-loop/lid; other site 670307001114 ABC transporter signature motif; other site 670307001115 Walker B; other site 670307001116 D-loop; other site 670307001117 H-loop/switch region; other site 670307001118 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 670307001119 ABC-2 type transporter; Region: ABC2_membrane; cl17235 670307001120 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 670307001121 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 670307001122 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 670307001123 Walker A/P-loop; other site 670307001124 ATP binding site [chemical binding]; other site 670307001125 Q-loop/lid; other site 670307001126 ABC transporter signature motif; other site 670307001127 Walker B; other site 670307001128 D-loop; other site 670307001129 H-loop/switch region; other site 670307001130 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307001131 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307001132 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 670307001133 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 670307001134 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 670307001135 putative NADP binding site [chemical binding]; other site 670307001136 putative substrate binding site [chemical binding]; other site 670307001137 active site 670307001138 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 670307001139 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 670307001140 active site 670307001141 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 670307001142 active site lid residues [active] 670307001143 substrate binding pocket [chemical binding]; other site 670307001144 catalytic residues [active] 670307001145 substrate-Mg2+ binding site; other site 670307001146 aspartate-rich region 1; other site 670307001147 aspartate-rich region 2; other site 670307001148 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 670307001149 active site lid residues [active] 670307001150 substrate binding pocket [chemical binding]; other site 670307001151 catalytic residues [active] 670307001152 substrate-Mg2+ binding site; other site 670307001153 aspartate-rich region 1; other site 670307001154 aspartate-rich region 2; other site 670307001155 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 670307001156 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 670307001157 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 670307001158 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 670307001159 Active site cavity [active] 670307001160 catalytic acid [active] 670307001161 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 670307001162 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 670307001163 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 670307001164 FeS/SAM binding site; other site 670307001165 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 670307001166 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 670307001167 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 670307001168 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 670307001169 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 670307001170 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 670307001171 B12 binding site [chemical binding]; other site 670307001172 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 670307001173 FeS/SAM binding site; other site 670307001174 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 670307001175 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 670307001176 ligand binding site; other site 670307001177 VacJ like lipoprotein; Region: VacJ; cl01073 670307001178 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 670307001179 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 670307001180 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 670307001181 TPP-binding site; other site 670307001182 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 670307001183 PYR/PP interface [polypeptide binding]; other site 670307001184 dimer interface [polypeptide binding]; other site 670307001185 TPP binding site [chemical binding]; other site 670307001186 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 670307001187 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 670307001188 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 670307001189 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 670307001190 ligand binding site; other site 670307001191 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 670307001192 putative active site [active] 670307001193 YdjC motif; other site 670307001194 Mg binding site [ion binding]; other site 670307001195 putative homodimer interface [polypeptide binding]; other site 670307001196 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 670307001197 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 670307001198 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 670307001199 catalytic core [active] 670307001200 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 670307001201 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 670307001202 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 670307001203 DXD motif; other site 670307001204 PilZ domain; Region: PilZ; pfam07238 670307001205 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 670307001206 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307001207 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 670307001208 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 670307001209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307001210 Walker A/P-loop; other site 670307001211 ATP binding site [chemical binding]; other site 670307001212 Q-loop/lid; other site 670307001213 ABC transporter signature motif; other site 670307001214 Walker B; other site 670307001215 D-loop; other site 670307001216 H-loop/switch region; other site 670307001217 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 670307001218 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 670307001219 substrate binding site; other site 670307001220 tetramer interface; other site 670307001221 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 670307001222 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 670307001223 NAD binding site [chemical binding]; other site 670307001224 substrate binding site [chemical binding]; other site 670307001225 homodimer interface [polypeptide binding]; other site 670307001226 active site 670307001227 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 670307001228 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 670307001229 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 670307001230 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 670307001231 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 670307001232 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 670307001233 FAD binding pocket [chemical binding]; other site 670307001234 FAD binding motif [chemical binding]; other site 670307001235 phosphate binding motif [ion binding]; other site 670307001236 beta-alpha-beta structure motif; other site 670307001237 NAD binding pocket [chemical binding]; other site 670307001238 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 670307001239 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 670307001240 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 670307001241 putative active site [active] 670307001242 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 670307001243 domain_subunit interface; other site 670307001244 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 670307001245 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 670307001246 active site 670307001247 FMN binding site [chemical binding]; other site 670307001248 substrate binding site [chemical binding]; other site 670307001249 3Fe-4S cluster binding site [ion binding]; other site 670307001250 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 670307001251 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 670307001252 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 670307001253 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 670307001254 catalytic triad [active] 670307001255 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 670307001256 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 670307001257 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 670307001258 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 670307001259 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 670307001260 Low-spin heme binding site [chemical binding]; other site 670307001261 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 670307001262 Putative water exit pathway; other site 670307001263 Binuclear center (active site) [active] 670307001264 Putative proton exit pathway; other site 670307001265 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 670307001266 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 670307001267 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 670307001268 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 670307001269 Cytochrome c; Region: Cytochrom_C; pfam00034 670307001270 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 670307001271 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 670307001272 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 670307001273 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 670307001274 metal-binding site [ion binding] 670307001275 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307001276 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 670307001277 motif II; other site 670307001278 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 670307001279 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 670307001280 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 670307001281 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 670307001282 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 670307001283 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 670307001284 minor groove reading motif; other site 670307001285 helix-hairpin-helix signature motif; other site 670307001286 substrate binding pocket [chemical binding]; other site 670307001287 active site 670307001288 methionine sulfoxide reductase B; Provisional; Region: PRK00222 670307001289 SelR domain; Region: SelR; pfam01641 670307001290 Putative zinc-finger; Region: zf-HC2; pfam13490 670307001291 RNA polymerase sigma factor; Provisional; Region: PRK12520 670307001292 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307001293 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 670307001294 DNA binding residues [nucleotide binding] 670307001295 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 670307001296 putative heme binding pocket [chemical binding]; other site 670307001297 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 670307001298 metabolite-proton symporter; Region: 2A0106; TIGR00883 670307001299 putative substrate translocation pore; other site 670307001300 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 670307001301 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 670307001302 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 670307001303 SLBB domain; Region: SLBB; pfam10531 670307001304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307001305 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307001306 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 670307001307 dimerization interface [polypeptide binding]; other site 670307001308 glutamate dehydrogenase; Provisional; Region: PRK09414 670307001309 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 670307001310 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 670307001311 NAD(P) binding site [chemical binding]; other site 670307001312 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 670307001313 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 670307001314 putative ligand binding site [chemical binding]; other site 670307001315 Transcriptional regulators [Transcription]; Region: FadR; COG2186 670307001316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 670307001317 DNA-binding site [nucleotide binding]; DNA binding site 670307001318 FCD domain; Region: FCD; pfam07729 670307001319 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 670307001320 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 670307001321 FMN binding site [chemical binding]; other site 670307001322 active site 670307001323 homodimer interface [polypeptide binding]; other site 670307001324 putative catalytic residue [active] 670307001325 4Fe-4S cluster binding site [ion binding]; other site 670307001326 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 670307001327 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 670307001328 4Fe-4S binding domain; Region: Fer4; cl02805 670307001329 Cysteine-rich domain; Region: CCG; pfam02754 670307001330 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 670307001331 Ligand binding site [chemical binding]; other site 670307001332 Electron transfer flavoprotein domain; Region: ETF; pfam01012 670307001333 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 670307001334 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_alpha; cd01715 670307001335 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 670307001336 Amino acid permease; Region: AA_permease_2; pfam13520 670307001337 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 670307001338 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 670307001339 FMN-binding pocket [chemical binding]; other site 670307001340 flavin binding motif; other site 670307001341 phosphate binding motif [ion binding]; other site 670307001342 beta-alpha-beta structure motif; other site 670307001343 NAD binding pocket [chemical binding]; other site 670307001344 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 670307001345 catalytic loop [active] 670307001346 iron binding site [ion binding]; other site 670307001347 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 670307001348 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 670307001349 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 670307001350 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 670307001351 Protein of unknown function (DUF763); Region: DUF763; pfam05559 670307001352 NnrS protein; Region: NnrS; pfam05940 670307001353 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 670307001354 Protein export membrane protein; Region: SecD_SecF; cl14618 670307001355 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307001356 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307001357 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 670307001358 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 670307001359 dimerization interface [polypeptide binding]; other site 670307001360 putative DNA binding site [nucleotide binding]; other site 670307001361 putative Zn2+ binding site [ion binding]; other site 670307001362 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 670307001363 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 670307001364 phosphate binding site [ion binding]; other site 670307001365 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 670307001366 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 670307001367 catalytic residue [active] 670307001368 Predicted membrane protein [Function unknown]; Region: COG3748 670307001369 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 670307001370 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 670307001371 FeS/SAM binding site; other site 670307001372 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 670307001373 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 670307001374 PqqA family; Region: PqqA; cl15372 670307001375 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 670307001376 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 670307001377 dimer interface [polypeptide binding]; other site 670307001378 active site 670307001379 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 670307001380 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 670307001381 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 670307001382 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 670307001383 NAD(P) binding site [chemical binding]; other site 670307001384 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 670307001385 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 670307001386 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 670307001387 dimer interface [polypeptide binding]; other site 670307001388 active site 670307001389 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 670307001390 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 670307001391 active site 670307001392 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 670307001393 active site 2 [active] 670307001394 active site 1 [active] 670307001395 Phosphopantetheine attachment site; Region: PP-binding; cl09936 670307001396 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 670307001397 dimer interaction site [polypeptide binding]; other site 670307001398 substrate-binding tunnel; other site 670307001399 active site 670307001400 catalytic site [active] 670307001401 substrate binding site [chemical binding]; other site 670307001402 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 670307001403 classical (c) SDRs; Region: SDR_c; cd05233 670307001404 NAD(P) binding site [chemical binding]; other site 670307001405 active site 670307001406 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 670307001407 Acid Phosphatase; Region: Acid_PPase; cl17256 670307001408 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 670307001409 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 670307001410 Flavoprotein; Region: Flavoprotein; pfam02441 670307001411 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 670307001412 SCP-2 sterol transfer family; Region: SCP2; cl01225 670307001413 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 670307001414 Peptidase family U32; Region: Peptidase_U32; pfam01136 670307001415 putative protease; Provisional; Region: PRK15447 670307001416 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 670307001417 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 670307001418 Cytochrome P450; Region: p450; cl12078 670307001419 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307001420 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 670307001421 ligand binding site [chemical binding]; other site 670307001422 flexible hinge region; other site 670307001423 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 670307001424 putative switch regulator; other site 670307001425 non-specific DNA interactions [nucleotide binding]; other site 670307001426 DNA binding site [nucleotide binding] 670307001427 sequence specific DNA binding site [nucleotide binding]; other site 670307001428 putative cAMP binding site [chemical binding]; other site 670307001429 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 670307001430 4Fe-4S binding domain; Region: Fer4_5; pfam12801 670307001431 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 670307001432 Fe2+ transport protein; Region: Iron_transport; pfam10634 670307001433 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 670307001434 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 670307001435 FeS/SAM binding site; other site 670307001436 HemN C-terminal domain; Region: HemN_C; pfam06969 670307001437 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 670307001438 Subunit I/III interface [polypeptide binding]; other site 670307001439 Cytochrome c; Region: Cytochrom_C; pfam00034 670307001440 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 670307001441 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 670307001442 Low-spin heme binding site [chemical binding]; other site 670307001443 D-pathway; other site 670307001444 K-pathway; other site 670307001445 Binuclear center (active site) [active] 670307001446 Putative proton exit pathway; other site 670307001447 MoxR-like ATPases [General function prediction only]; Region: COG0714 670307001448 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 670307001449 Walker A motif; other site 670307001450 ATP binding site [chemical binding]; other site 670307001451 Walker B motif; other site 670307001452 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 670307001453 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 670307001454 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 670307001455 metal ion-dependent adhesion site (MIDAS); other site 670307001456 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 670307001457 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 670307001458 molybdopterin cofactor binding site; other site 670307001459 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 670307001460 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 670307001461 molybdopterin cofactor binding site; other site 670307001462 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 670307001463 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 670307001464 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 670307001465 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 670307001466 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 670307001467 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 670307001468 Predicted permease; Region: DUF318; cl17795 670307001469 selenophosphate synthetase; Provisional; Region: PRK00943 670307001470 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 670307001471 dimerization interface [polypeptide binding]; other site 670307001472 putative ATP binding site [chemical binding]; other site 670307001473 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 670307001474 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 670307001475 G1 box; other site 670307001476 putative GEF interaction site [polypeptide binding]; other site 670307001477 GTP/Mg2+ binding site [chemical binding]; other site 670307001478 Switch I region; other site 670307001479 G2 box; other site 670307001480 G3 box; other site 670307001481 Switch II region; other site 670307001482 G4 box; other site 670307001483 G5 box; other site 670307001484 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 670307001485 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 670307001486 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 670307001487 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 670307001488 selenocysteine synthase; Provisional; Region: PRK04311 670307001489 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 670307001490 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 670307001491 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 670307001492 gating phenylalanine in ion channel; other site 670307001493 NnrS protein; Region: NnrS; pfam05940 670307001494 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 670307001495 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 670307001496 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 670307001497 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 670307001498 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 670307001499 [4Fe-4S] binding site [ion binding]; other site 670307001500 molybdopterin cofactor binding site; other site 670307001501 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 670307001502 molybdopterin cofactor binding site; other site 670307001503 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 670307001504 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 670307001505 [2Fe-2S] cluster binding site [ion binding]; other site 670307001506 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 670307001507 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307001508 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 670307001509 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 670307001510 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 670307001511 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 670307001512 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 670307001513 putative substrate translocation pore; other site 670307001514 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 670307001515 NMT1-like family; Region: NMT1_2; pfam13379 670307001516 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 670307001517 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 670307001518 active site 670307001519 phosphorylation site [posttranslational modification] 670307001520 intermolecular recognition site; other site 670307001521 ANTAR domain; Region: ANTAR; pfam03861 670307001522 FOG: CBS domain [General function prediction only]; Region: COG0517 670307001523 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 670307001524 BON domain; Region: BON; pfam04972 670307001525 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 670307001526 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 670307001527 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 670307001528 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 670307001529 CoA binding domain; Region: CoA_binding_2; pfam13380 670307001530 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 670307001531 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 670307001532 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 670307001533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 670307001534 Coenzyme A binding pocket [chemical binding]; other site 670307001535 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 670307001536 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 670307001537 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307001538 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 670307001539 Soluble P-type ATPase [General function prediction only]; Region: COG4087 670307001540 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 670307001541 PAS domain S-box; Region: sensory_box; TIGR00229 670307001542 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 670307001543 putative active site [active] 670307001544 heme pocket [chemical binding]; other site 670307001545 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 670307001546 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 670307001547 putative active site [active] 670307001548 heme pocket [chemical binding]; other site 670307001549 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 670307001550 dimer interface [polypeptide binding]; other site 670307001551 phosphorylation site [posttranslational modification] 670307001552 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 670307001553 ATP binding site [chemical binding]; other site 670307001554 Mg2+ binding site [ion binding]; other site 670307001555 G-X-G motif; other site 670307001556 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 670307001557 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 670307001558 active site 670307001559 phosphorylation site [posttranslational modification] 670307001560 intermolecular recognition site; other site 670307001561 dimerization interface [polypeptide binding]; other site 670307001562 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 670307001563 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 670307001564 putative dimer interface [polypeptide binding]; other site 670307001565 osmolarity response regulator; Provisional; Region: ompR; PRK09468 670307001566 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 670307001567 active site 670307001568 phosphorylation site [posttranslational modification] 670307001569 intermolecular recognition site; other site 670307001570 dimerization interface [polypeptide binding]; other site 670307001571 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 670307001572 DNA binding site [nucleotide binding] 670307001573 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 670307001574 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 670307001575 ligand binding site [chemical binding]; other site 670307001576 flexible hinge region; other site 670307001577 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 670307001578 putative switch regulator; other site 670307001579 non-specific DNA interactions [nucleotide binding]; other site 670307001580 DNA binding site [nucleotide binding] 670307001581 sequence specific DNA binding site [nucleotide binding]; other site 670307001582 putative cAMP binding site [chemical binding]; other site 670307001583 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 670307001584 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 670307001585 S-adenosylmethionine binding site [chemical binding]; other site 670307001586 Erythromycin esterase; Region: Erythro_esteras; pfam05139 670307001587 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 670307001588 Ligand Binding Site [chemical binding]; other site 670307001589 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 670307001590 Cytochrome c; Region: Cytochrom_C; pfam00034 670307001591 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 670307001592 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 670307001593 Permease; Region: Permease; pfam02405 670307001594 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 670307001595 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 670307001596 Walker A/P-loop; other site 670307001597 ATP binding site [chemical binding]; other site 670307001598 Q-loop/lid; other site 670307001599 ABC transporter signature motif; other site 670307001600 Walker B; other site 670307001601 D-loop; other site 670307001602 H-loop/switch region; other site 670307001603 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 670307001604 mce related protein; Region: MCE; pfam02470 670307001605 Protein of unknown function (DUF330); Region: DUF330; cl01135 670307001606 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 670307001607 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 670307001608 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 670307001609 catalytic Zn binding site [ion binding]; other site 670307001610 structural Zn binding site [ion binding]; other site 670307001611 NAD(P) binding site [chemical binding]; other site 670307001612 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 670307001613 30S subunit binding site; other site 670307001614 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 670307001615 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 670307001616 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 670307001617 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307001618 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307001619 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 670307001620 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 670307001621 Walker A/P-loop; other site 670307001622 ATP binding site [chemical binding]; other site 670307001623 Q-loop/lid; other site 670307001624 ABC transporter signature motif; other site 670307001625 Walker B; other site 670307001626 D-loop; other site 670307001627 H-loop/switch region; other site 670307001628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307001629 Walker A/P-loop; other site 670307001630 ATP binding site [chemical binding]; other site 670307001631 Q-loop/lid; other site 670307001632 ABC transporter signature motif; other site 670307001633 Walker B; other site 670307001634 D-loop; other site 670307001635 H-loop/switch region; other site 670307001636 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 670307001637 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 670307001638 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 670307001639 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 670307001640 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 670307001641 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 670307001642 putative NAD(P) binding site [chemical binding]; other site 670307001643 putative substrate binding site [chemical binding]; other site 670307001644 catalytic Zn binding site [ion binding]; other site 670307001645 structural Zn binding site [ion binding]; other site 670307001646 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 670307001647 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 670307001648 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 670307001649 FMN binding site [chemical binding]; other site 670307001650 active site 670307001651 homodimer interface [polypeptide binding]; other site 670307001652 putative catalytic residue [active] 670307001653 4Fe-4S cluster binding site [ion binding]; other site 670307001654 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 670307001655 PAS domain S-box; Region: sensory_box; TIGR00229 670307001656 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 670307001657 putative active site [active] 670307001658 heme pocket [chemical binding]; other site 670307001659 PAS fold; Region: PAS_3; pfam08447 670307001660 Histidine kinase; Region: HisKA_3; pfam07730 670307001661 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 670307001662 ATP binding site [chemical binding]; other site 670307001663 Mg2+ binding site [ion binding]; other site 670307001664 G-X-G motif; other site 670307001665 transcriptional regulator NarL; Provisional; Region: PRK10651 670307001666 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 670307001667 active site 670307001668 phosphorylation site [posttranslational modification] 670307001669 intermolecular recognition site; other site 670307001670 dimerization interface [polypeptide binding]; other site 670307001671 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 670307001672 DNA binding residues [nucleotide binding] 670307001673 dimerization interface [polypeptide binding]; other site 670307001674 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 670307001675 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 670307001676 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 670307001677 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 670307001678 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 670307001679 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 670307001680 homodimer interface [polypeptide binding]; other site 670307001681 NADP binding site [chemical binding]; other site 670307001682 substrate binding site [chemical binding]; other site 670307001683 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 670307001684 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 670307001685 Potassium binding sites [ion binding]; other site 670307001686 Cesium cation binding sites [ion binding]; other site 670307001687 potential frameshift: common BLAST hit: gi|300021639|ref|YP_003754250.1| methyl-accepting chemotaxis sensory transducer 670307001688 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 670307001689 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 670307001690 putative dimer interface [polypeptide binding]; other site 670307001691 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 670307001692 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 670307001693 Walker A motif; other site 670307001694 ATP binding site [chemical binding]; other site 670307001695 Walker B motif; other site 670307001696 arginine finger; other site 670307001697 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 670307001698 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 670307001699 Amino acid permease; Region: AA_permease_2; pfam13520 670307001700 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 670307001701 non-specific DNA binding site [nucleotide binding]; other site 670307001702 salt bridge; other site 670307001703 sequence-specific DNA binding site [nucleotide binding]; other site 670307001704 Cupin domain; Region: Cupin_2; pfam07883 670307001705 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 670307001706 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 670307001707 active site 670307001708 FMN binding site [chemical binding]; other site 670307001709 substrate binding site [chemical binding]; other site 670307001710 3Fe-4S cluster binding site [ion binding]; other site 670307001711 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 670307001712 domain_subunit interface; other site 670307001713 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 670307001714 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 670307001715 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 670307001716 putative active site [active] 670307001717 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 670307001718 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 670307001719 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 670307001720 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 670307001721 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 670307001722 homotrimer interaction site [polypeptide binding]; other site 670307001723 putative active site [active] 670307001724 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 670307001725 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307001726 Hemerythrin-like domain; Region: Hr-like; cd12108 670307001727 Fe binding site [ion binding]; other site 670307001728 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 670307001729 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 670307001730 Walker A motif; other site 670307001731 ATP binding site [chemical binding]; other site 670307001732 Walker B motif; other site 670307001733 arginine finger; other site 670307001734 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 670307001735 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 670307001736 heme-binding site [chemical binding]; other site 670307001737 Cupin domain; Region: Cupin_2; cl17218 670307001738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 670307001739 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 670307001740 Predicted kinase [General function prediction only]; Region: COG0645 670307001741 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 670307001742 active site 670307001743 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 670307001744 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 670307001745 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 670307001746 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 670307001747 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307001748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307001749 Cytochrome c; Region: Cytochrom_C; pfam00034 670307001750 FOG: CBS domain [General function prediction only]; Region: COG0517 670307001751 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 670307001752 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 670307001753 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 670307001754 dimer interface [polypeptide binding]; other site 670307001755 putative CheW interface [polypeptide binding]; other site 670307001756 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 670307001757 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 670307001758 active site 670307001759 DNA polymerase IV; Validated; Region: PRK02406 670307001760 DNA binding site [nucleotide binding] 670307001761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307001762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307001763 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 670307001764 putative effector binding pocket; other site 670307001765 putative dimerization interface [polypeptide binding]; other site 670307001766 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 670307001767 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 670307001768 putative C-terminal domain interface [polypeptide binding]; other site 670307001769 putative GSH binding site (G-site) [chemical binding]; other site 670307001770 putative dimer interface [polypeptide binding]; other site 670307001771 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 670307001772 putative N-terminal domain interface [polypeptide binding]; other site 670307001773 putative dimer interface [polypeptide binding]; other site 670307001774 putative substrate binding pocket (H-site) [chemical binding]; other site 670307001775 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 670307001776 PAS fold; Region: PAS_4; pfam08448 670307001777 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 670307001778 putative active site [active] 670307001779 heme pocket [chemical binding]; other site 670307001780 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 670307001781 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 670307001782 metal binding site [ion binding]; metal-binding site 670307001783 active site 670307001784 I-site; other site 670307001785 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 670307001786 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 670307001787 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 670307001788 DNA-binding site [nucleotide binding]; DNA binding site 670307001789 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 670307001790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307001791 homodimer interface [polypeptide binding]; other site 670307001792 catalytic residue [active] 670307001793 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 670307001794 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 670307001795 Trp docking motif [polypeptide binding]; other site 670307001796 dimer interface [polypeptide binding]; other site 670307001797 active site 670307001798 small subunit binding site [polypeptide binding]; other site 670307001799 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 670307001800 DNA binding residues [nucleotide binding] 670307001801 dimerization interface [polypeptide binding]; other site 670307001802 YtkA-like; Region: YtkA; pfam13115 670307001803 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 670307001804 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307001805 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 670307001806 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 670307001807 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 670307001808 Ligand binding site; other site 670307001809 Putative Catalytic site; other site 670307001810 DXD motif; other site 670307001811 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 670307001812 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 670307001813 N-terminal plug; other site 670307001814 ligand-binding site [chemical binding]; other site 670307001815 Hint domain; Region: Hint_2; pfam13403 670307001816 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 670307001817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307001818 NAD(P) binding site [chemical binding]; other site 670307001819 active site 670307001820 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 670307001821 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 670307001822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 670307001823 DNA-binding site [nucleotide binding]; DNA binding site 670307001824 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 670307001825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307001826 homodimer interface [polypeptide binding]; other site 670307001827 catalytic residue [active] 670307001828 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 670307001829 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 670307001830 putative metal binding site [ion binding]; other site 670307001831 putative homodimer interface [polypeptide binding]; other site 670307001832 putative homotetramer interface [polypeptide binding]; other site 670307001833 putative homodimer-homodimer interface [polypeptide binding]; other site 670307001834 putative allosteric switch controlling residues; other site 670307001835 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 670307001836 Ligand Binding Site [chemical binding]; other site 670307001837 camphor resistance protein CrcB; Provisional; Region: PRK14198 670307001838 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 670307001839 Major Facilitator Superfamily; Region: MFS_1; pfam07690 670307001840 putative substrate translocation pore; other site 670307001841 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 670307001842 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 670307001843 Patatin-like phospholipase; Region: Patatin; pfam01734 670307001844 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 670307001845 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 670307001846 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 670307001847 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307001848 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 670307001849 motif II; other site 670307001850 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 670307001851 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 670307001852 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 670307001853 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 670307001854 nucleotide binding site [chemical binding]; other site 670307001855 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 670307001856 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 670307001857 putative active site [active] 670307001858 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 670307001859 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 670307001860 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 670307001861 active site 670307001862 motif I; other site 670307001863 motif II; other site 670307001864 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 670307001865 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 670307001866 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 670307001867 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 670307001868 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 670307001869 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 670307001870 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 670307001871 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 670307001872 putative active site [active] 670307001873 catalytic residue [active] 670307001874 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 670307001875 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 670307001876 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 670307001877 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 670307001878 TPP-binding site [chemical binding]; other site 670307001879 dimer interface [polypeptide binding]; other site 670307001880 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 670307001881 PYR/PP interface [polypeptide binding]; other site 670307001882 dimer interface [polypeptide binding]; other site 670307001883 TPP binding site [chemical binding]; other site 670307001884 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 670307001885 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 670307001886 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 670307001887 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 670307001888 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 670307001889 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 670307001890 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 670307001891 ligand binding site [chemical binding]; other site 670307001892 NAD binding site [chemical binding]; other site 670307001893 dimerization interface [polypeptide binding]; other site 670307001894 catalytic site [active] 670307001895 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 670307001896 putative L-serine binding site [chemical binding]; other site 670307001897 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; cd01494 670307001898 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 670307001899 catalytic residue [active] 670307001900 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 670307001901 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 670307001902 active site 670307001903 phosphorylation site [posttranslational modification] 670307001904 intermolecular recognition site; other site 670307001905 dimerization interface [polypeptide binding]; other site 670307001906 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 670307001907 DNA binding residues [nucleotide binding] 670307001908 dimerization interface [polypeptide binding]; other site 670307001909 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 670307001910 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307001911 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 670307001912 dimer interface [polypeptide binding]; other site 670307001913 phosphorylation site [posttranslational modification] 670307001914 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 670307001915 ATP binding site [chemical binding]; other site 670307001916 Mg2+ binding site [ion binding]; other site 670307001917 G-X-G motif; other site 670307001918 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 670307001919 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307001920 active site 670307001921 phosphorylation site [posttranslational modification] 670307001922 intermolecular recognition site; other site 670307001923 dimerization interface [polypeptide binding]; other site 670307001924 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 670307001925 DNA binding site [nucleotide binding] 670307001926 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 670307001927 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 670307001928 hypothetical protein; Provisional; Region: PRK07588 670307001929 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 670307001930 MarR family; Region: MarR_2; cl17246 670307001931 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 670307001932 dimer interface [polypeptide binding]; other site 670307001933 phosphorylation site [posttranslational modification] 670307001934 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 670307001935 ATP binding site [chemical binding]; other site 670307001936 Mg2+ binding site [ion binding]; other site 670307001937 G-X-G motif; other site 670307001938 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 670307001939 active site 670307001940 dimerization interface [polypeptide binding]; other site 670307001941 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 670307001942 DNA binding residues [nucleotide binding] 670307001943 dimerization interface [polypeptide binding]; other site 670307001944 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 670307001945 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 670307001946 active site 670307001947 homotetramer interface [polypeptide binding]; other site 670307001948 Fic/DOC family; Region: Fic; cl00960 670307001949 RelB antitoxin; Region: RelB; cl01171 670307001950 TIR domain; Region: TIR_2; pfam13676 670307001951 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 670307001952 5' RNA guide strand anchoring site; other site 670307001953 active site 670307001954 HTH domain; Region: HTH_11; cl17392 670307001955 potential frameshift: common BLAST hit: gi|338740326|ref|YP_004677288.1| phage terminase-like protein 670307001956 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 670307001957 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 670307001958 Trp docking motif [polypeptide binding]; other site 670307001959 dimer interface [polypeptide binding]; other site 670307001960 active site 670307001961 small subunit binding site [polypeptide binding]; other site 670307001962 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 670307001963 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 670307001964 FAD binding pocket [chemical binding]; other site 670307001965 conserved FAD binding motif [chemical binding]; other site 670307001966 phosphate binding motif [ion binding]; other site 670307001967 beta-alpha-beta structure motif; other site 670307001968 NAD binding pocket [chemical binding]; other site 670307001969 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 670307001970 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 670307001971 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 670307001972 non-specific DNA binding site [nucleotide binding]; other site 670307001973 salt bridge; other site 670307001974 sequence-specific DNA binding site [nucleotide binding]; other site 670307001975 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 670307001976 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 670307001977 active site 670307001978 Int/Topo IB signature motif; other site 670307001979 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 670307001980 RNA polymerase sigma factor; Provisional; Region: PRK11924 670307001981 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307001982 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 670307001983 DNA binding residues [nucleotide binding] 670307001984 Cytochrome c2 [Energy production and conversion]; Region: COG3474 670307001985 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 670307001986 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 670307001987 active site 670307001988 metal binding site [ion binding]; metal-binding site 670307001989 Domain of unknown function (DUF929); Region: DUF929; pfam06053 670307001990 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 670307001991 catalytic residues [active] 670307001992 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 670307001993 Domain of unknown function (DUF336); Region: DUF336; pfam03928 670307001994 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 670307001995 Coenzyme A binding pocket [chemical binding]; other site 670307001996 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 670307001997 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 670307001998 putative [Fe4-S4] binding site [ion binding]; other site 670307001999 putative molybdopterin cofactor binding site [chemical binding]; other site 670307002000 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 670307002001 putative molybdopterin cofactor binding site; other site 670307002002 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 670307002003 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 670307002004 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 670307002005 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 670307002006 DNA-binding site [nucleotide binding]; DNA binding site 670307002007 RNA-binding motif; other site 670307002008 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 670307002009 active site 670307002010 catalytic residues [active] 670307002011 DNA binding site [nucleotide binding] 670307002012 Int/Topo IB signature motif; other site 670307002013 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 670307002014 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 670307002015 dimer interface [polypeptide binding]; other site 670307002016 active site 670307002017 SnoaL-like domain; Region: SnoaL_2; pfam12680 670307002018 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 670307002019 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 670307002020 putative C-terminal domain interface [polypeptide binding]; other site 670307002021 putative GSH binding site (G-site) [chemical binding]; other site 670307002022 putative dimer interface [polypeptide binding]; other site 670307002023 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 670307002024 dimer interface [polypeptide binding]; other site 670307002025 N-terminal domain interface [polypeptide binding]; other site 670307002026 putative substrate binding pocket (H-site) [chemical binding]; other site 670307002027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307002028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307002029 putative acyltransferase; Provisional; Region: PRK05790 670307002030 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 670307002031 dimer interface [polypeptide binding]; other site 670307002032 active site 670307002033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307002034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307002035 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307002036 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307002037 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307002038 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 670307002039 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 670307002040 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 670307002041 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 670307002042 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 670307002043 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 670307002044 Presynaptic Site I dimer interface [polypeptide binding]; other site 670307002045 catalytic residues [active] 670307002046 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 670307002047 Synaptic Flat tetramer interface [polypeptide binding]; other site 670307002048 Synaptic Site I dimer interface [polypeptide binding]; other site 670307002049 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 670307002050 active site 670307002051 DNA binding site [nucleotide binding] 670307002052 Int/Topo IB signature motif; other site 670307002053 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 670307002054 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 670307002055 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 670307002056 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 670307002057 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 670307002058 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 670307002059 P-loop; other site 670307002060 Magnesium ion binding site [ion binding]; other site 670307002061 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 670307002062 HsdM N-terminal domain; Region: HsdM_N; pfam12161 670307002063 Methyltransferase domain; Region: Methyltransf_26; pfam13659 670307002064 Uncharacterized conserved protein [Function unknown]; Region: COG1479 670307002065 Protein of unknown function DUF262; Region: DUF262; pfam03235 670307002066 Uncharacterized conserved protein [Function unknown]; Region: COG3472 670307002067 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 670307002068 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 670307002069 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 670307002070 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 670307002071 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 670307002072 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 670307002073 ATP binding site [chemical binding]; other site 670307002074 putative Mg++ binding site [ion binding]; other site 670307002075 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 670307002076 PHP domain; Region: PHP; pfam02811 670307002077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307002078 Walker A/P-loop; other site 670307002079 ATP binding site [chemical binding]; other site 670307002080 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 670307002081 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 670307002082 RNA binding site [nucleotide binding]; other site 670307002083 CHC2 zinc finger; Region: zf-CHC2; cl17510 670307002084 Replication-relaxation; Region: Replic_Relax; pfam13814 670307002085 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 670307002086 ThiF family; Region: ThiF; pfam00899 670307002087 ATP binding site [chemical binding]; other site 670307002088 AAA-like domain; Region: AAA_10; pfam12846 670307002089 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 670307002090 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 670307002091 Predicted transcriptional regulators [Transcription]; Region: COG1695 670307002092 Transcriptional regulator PadR-like family; Region: PadR; cl17335 670307002093 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 670307002094 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 670307002095 ATP binding site [chemical binding]; other site 670307002096 substrate interface [chemical binding]; other site 670307002097 Prokaryotic E2 family E; Region: Prok-E2_E; pfam14462 670307002098 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 670307002099 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 670307002100 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 670307002101 non-specific DNA binding site [nucleotide binding]; other site 670307002102 salt bridge; other site 670307002103 sequence-specific DNA binding site [nucleotide binding]; other site 670307002104 Domain of unknown function (DUF955); Region: DUF955; cl01076 670307002105 Uncharacterized conserved protein [Function unknown]; Region: COG2135 670307002106 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 670307002107 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 670307002108 DNA binding residues [nucleotide binding] 670307002109 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 670307002110 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 670307002111 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 670307002112 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 670307002113 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 670307002114 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 670307002115 active site 670307002116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 670307002117 RelB antitoxin; Region: RelB; cl01171 670307002118 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 670307002119 Flavodoxin domain; Region: Flavodoxin_5; cl17428 670307002120 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 670307002121 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 670307002122 Walker A/P-loop; other site 670307002123 ATP binding site [chemical binding]; other site 670307002124 Q-loop/lid; other site 670307002125 ABC transporter signature motif; other site 670307002126 Walker B; other site 670307002127 D-loop; other site 670307002128 H-loop/switch region; other site 670307002129 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 670307002130 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 670307002131 FtsX-like permease family; Region: FtsX; pfam02687 670307002132 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307002133 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 670307002134 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307002135 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307002136 division inhibitor protein; Provisional; Region: slmA; PRK09480 670307002137 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 670307002138 LexA repressor; Validated; Region: PRK00215 670307002139 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 670307002140 Catalytic site [active] 670307002141 HNH endonuclease; Region: HNH_2; pfam13391 670307002142 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 670307002143 active site 670307002144 NTP binding site [chemical binding]; other site 670307002145 metal binding triad [ion binding]; metal-binding site 670307002146 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 670307002147 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 670307002148 Predicted membrane protein [Function unknown]; Region: COG3462 670307002149 Short C-terminal domain; Region: SHOCT; pfam09851 670307002150 AAA-like domain; Region: AAA_10; pfam12846 670307002151 Domain of unknown function DUF87; Region: DUF87; pfam01935 670307002152 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 670307002153 Fic/DOC family; Region: Fic; cl00960 670307002154 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 670307002155 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 670307002156 Cytochrome c; Region: Cytochrom_C; cl11414 670307002157 HTH domain; Region: HTH_11; cl17392 670307002158 potential protein location (hypothetical protein jgi_27058 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-Q) 670307002159 exopolyphosphatase; Region: exo_poly_only; TIGR03706 670307002160 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 670307002161 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 670307002162 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 670307002163 S-adenosylmethionine binding site [chemical binding]; other site 670307002164 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 670307002165 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 670307002166 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 670307002167 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 670307002168 active site 670307002169 MAPEG family; Region: MAPEG; cl09190 670307002170 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 670307002171 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 670307002172 SET domain; Region: SET; pfam00856 670307002173 SET domain; Region: SET; pfam00856 670307002174 TspO/MBR family; Region: TspO_MBR; pfam03073 670307002175 GMP synthase; Reviewed; Region: guaA; PRK00074 670307002176 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 670307002177 AMP/PPi binding site [chemical binding]; other site 670307002178 candidate oxyanion hole; other site 670307002179 catalytic triad [active] 670307002180 potential glutamine specificity residues [chemical binding]; other site 670307002181 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 670307002182 ATP Binding subdomain [chemical binding]; other site 670307002183 Ligand Binding sites [chemical binding]; other site 670307002184 Dimerization subdomain; other site 670307002185 integrase; Provisional; Region: PRK09692 670307002186 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 670307002187 active site 670307002188 Int/Topo IB signature motif; other site 670307002189 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 670307002190 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307002191 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307002192 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 670307002193 dimerization interface [polypeptide binding]; other site 670307002194 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 670307002195 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 670307002196 Multicopper oxidase; Region: Cu-oxidase; pfam00394 670307002197 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 670307002198 Cytochrome c; Region: Cytochrom_C; cl11414 670307002199 Protein of unknown function, DUF; Region: DUF411; cl01142 670307002200 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 670307002201 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 670307002202 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 670307002203 DsbD alpha interface [polypeptide binding]; other site 670307002204 catalytic residues [active] 670307002205 Methyltransferase domain; Region: Methyltransf_23; pfam13489 670307002206 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 670307002207 S-adenosylmethionine binding site [chemical binding]; other site 670307002208 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 670307002209 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 670307002210 Cu(I) binding site [ion binding]; other site 670307002211 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 670307002212 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 670307002213 aromatic arch; other site 670307002214 DCoH dimer interaction site [polypeptide binding]; other site 670307002215 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 670307002216 DCoH tetramer interaction site [polypeptide binding]; other site 670307002217 substrate binding site [chemical binding]; other site 670307002218 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 670307002219 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 670307002220 DNA binding residues [nucleotide binding] 670307002221 dimer interface [polypeptide binding]; other site 670307002222 copper binding site [ion binding]; other site 670307002223 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 670307002224 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 670307002225 metal-binding site [ion binding] 670307002226 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 670307002227 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 670307002228 metal-binding site [ion binding] 670307002229 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307002230 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 670307002231 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 670307002232 metal-binding site [ion binding] 670307002233 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 670307002234 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 670307002235 DNA binding residues [nucleotide binding] 670307002236 dimer interface [polypeptide binding]; other site 670307002237 mercury binding site [ion binding]; other site 670307002238 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 670307002239 metal-binding site [ion binding] 670307002240 Family description; Region: DsbD_2; pfam13386 670307002241 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 670307002242 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 670307002243 metal-binding site [ion binding] 670307002244 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307002245 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 670307002246 motif II; other site 670307002247 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 670307002248 S-adenosylmethionine binding site [chemical binding]; other site 670307002249 Mitochondrial import protein Pam17; Region: Pam17; pfam08566 670307002250 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 670307002251 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307002252 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 670307002253 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 670307002254 Radical SAM superfamily; Region: Radical_SAM; pfam04055 670307002255 FeS/SAM binding site; other site 670307002256 Protein of unknown function, DUF547; Region: DUF547; pfam04784 670307002257 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 670307002258 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 670307002259 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 670307002260 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 670307002261 motif II; other site 670307002262 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 670307002263 putative catalytic residues [active] 670307002264 Predicted membrane protein [Function unknown]; Region: COG2259 670307002265 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 670307002266 hypothetical protein; Provisional; Region: PRK05409 670307002267 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 670307002268 RNA polymerase sigma factor; Provisional; Region: PRK12512 670307002269 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307002270 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 670307002271 DNA binding residues [nucleotide binding] 670307002272 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 670307002273 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 670307002274 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 670307002275 catalytic residues [active] 670307002276 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 670307002277 Domain of unknown function (DUF427); Region: DUF427; cl00998 670307002278 Uncharacterized conserved protein [Function unknown]; Region: COG2128 670307002279 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 670307002280 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 670307002281 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 670307002282 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 670307002283 Probable Catalytic site; other site 670307002284 mercuric reductase; Validated; Region: PRK06370 670307002285 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 670307002286 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307002287 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 670307002288 Uncharacterized conserved protein [Function unknown]; Region: COG0398 670307002289 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 670307002290 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 670307002291 Methyltransferase domain; Region: Methyltransf_31; pfam13847 670307002292 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 670307002293 S-adenosylmethionine binding site [chemical binding]; other site 670307002294 Radical SAM superfamily; Region: Radical_SAM; pfam04055 670307002295 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 670307002296 FeS/SAM binding site; other site 670307002297 Autoinducer binding domain; Region: Autoind_bind; pfam03472 670307002298 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 670307002299 DNA binding residues [nucleotide binding] 670307002300 dimerization interface [polypeptide binding]; other site 670307002301 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 670307002302 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307002303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307002304 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 670307002305 dimerization interface [polypeptide binding]; other site 670307002306 substrate binding pocket [chemical binding]; other site 670307002307 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 670307002308 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 670307002309 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 670307002310 VirB7 interaction site; other site 670307002311 conjugal transfer protein TrbF; Provisional; Region: PRK13872 670307002312 conjugal transfer protein TrbL; Provisional; Region: PRK13875 670307002313 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 670307002314 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 670307002315 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 670307002316 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 670307002317 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 670307002318 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 670307002319 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 670307002320 Walker A motif; other site 670307002321 ATP binding site [chemical binding]; other site 670307002322 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 670307002323 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 670307002324 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 670307002325 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 670307002326 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 670307002327 ATP binding site [chemical binding]; other site 670307002328 Walker A motif; other site 670307002329 hexamer interface [polypeptide binding]; other site 670307002330 Walker B motif; other site 670307002331 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 670307002332 DNA binding residues [nucleotide binding] 670307002333 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 670307002334 dimer interface [polypeptide binding]; other site 670307002335 putative metal binding site [ion binding]; other site 670307002336 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 670307002337 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 670307002338 Walker A motif; other site 670307002339 ATP binding site [chemical binding]; other site 670307002340 Walker B motif; other site 670307002341 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 670307002342 DNA binding residues [nucleotide binding] 670307002343 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 670307002344 dimer interface [polypeptide binding]; other site 670307002345 putative metal binding site [ion binding]; other site 670307002346 MerT mercuric transport protein; Region: MerT; cl03578 670307002347 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 670307002348 metal-binding site [ion binding] 670307002349 alkylmercury lyase; Provisional; Region: PRK13239 670307002350 Alkylmercury lyase; Region: MerB; pfam03243 670307002351 mercuric reductase; Region: MerA; TIGR02053 670307002352 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307002353 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 670307002354 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 670307002355 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 670307002356 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 670307002357 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 670307002358 N-acetyl-D-glucosamine binding site [chemical binding]; other site 670307002359 catalytic residue [active] 670307002360 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 670307002361 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 670307002362 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 670307002363 ParA-like protein; Provisional; Region: PHA02518 670307002364 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 670307002365 P-loop; other site 670307002366 Magnesium ion binding site [ion binding]; other site 670307002367 Replication initiator protein A; Region: RPA; pfam10134 670307002368 Helix-turn-helix domain; Region: HTH_17; pfam12728 670307002369 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 670307002370 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 670307002371 Uncharacterized conserved protein [Function unknown]; Region: COG5489 670307002372 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 670307002373 Toprim domain; Region: Toprim_3; pfam13362 670307002374 Methyltransferase domain; Region: Methyltransf_26; pfam13659 670307002375 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 670307002376 Helicase_C-like; Region: Helicase_C_4; pfam13871 670307002377 ParB-like nuclease domain; Region: ParBc; pfam02195 670307002378 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 670307002379 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 670307002380 HipA-like N-terminal domain; Region: HipA_N; pfam07805 670307002381 HipA-like C-terminal domain; Region: HipA_C; pfam07804 670307002382 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 670307002383 non-specific DNA binding site [nucleotide binding]; other site 670307002384 salt bridge; other site 670307002385 sequence-specific DNA binding site [nucleotide binding]; other site 670307002386 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 670307002387 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 670307002388 ATP binding site [chemical binding]; other site 670307002389 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 670307002390 ATP-binding site [chemical binding]; other site 670307002391 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 670307002392 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 670307002393 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 670307002394 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 670307002395 ATP-grasp domain; Region: ATP-grasp_4; cl17255 670307002396 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 670307002397 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 670307002398 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 670307002399 carboxyltransferase (CT) interaction site; other site 670307002400 biotinylation site [posttranslational modification]; other site 670307002401 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 670307002402 Dehydroquinase class II; Region: DHquinase_II; pfam01220 670307002403 trimer interface [polypeptide binding]; other site 670307002404 active site 670307002405 dimer interface [polypeptide binding]; other site 670307002406 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 670307002407 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 670307002408 catalytic residues [active] 670307002409 Peptidase family M48; Region: Peptidase_M48; cl12018 670307002410 TPR repeat; Region: TPR_11; pfam13414 670307002411 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 670307002412 binding surface 670307002413 TPR motif; other site 670307002414 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 670307002415 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 670307002416 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 670307002417 AMIN domain; Region: AMIN; pfam11741 670307002418 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 670307002419 active site 670307002420 metal binding site [ion binding]; metal-binding site 670307002421 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 670307002422 Transglycosylase; Region: Transgly; pfam00912 670307002423 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 670307002424 peptide chain release factor 2; Provisional; Region: PRK07342 670307002425 This domain is found in peptide chain release factors; Region: PCRF; smart00937 670307002426 RF-1 domain; Region: RF-1; pfam00472 670307002427 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 670307002428 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 670307002429 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 670307002430 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 670307002431 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 670307002432 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 670307002433 S-adenosylmethionine binding site [chemical binding]; other site 670307002434 NnrU protein; Region: NnrU; pfam07298 670307002435 BNR repeat-like domain; Region: BNR_2; pfam13088 670307002436 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 670307002437 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307002438 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 670307002439 oligomerization interface [polypeptide binding]; other site 670307002440 active site 670307002441 metal binding site [ion binding]; metal-binding site 670307002442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 670307002443 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 670307002444 Trp docking motif [polypeptide binding]; other site 670307002445 active site 670307002446 PQQ-like domain; Region: PQQ_2; pfam13360 670307002447 GTP-binding protein Der; Reviewed; Region: PRK00093 670307002448 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 670307002449 G1 box; other site 670307002450 GTP/Mg2+ binding site [chemical binding]; other site 670307002451 Switch I region; other site 670307002452 G2 box; other site 670307002453 Switch II region; other site 670307002454 G3 box; other site 670307002455 G4 box; other site 670307002456 G5 box; other site 670307002457 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 670307002458 G1 box; other site 670307002459 GTP/Mg2+ binding site [chemical binding]; other site 670307002460 Switch I region; other site 670307002461 G2 box; other site 670307002462 G3 box; other site 670307002463 Switch II region; other site 670307002464 G4 box; other site 670307002465 G5 box; other site 670307002466 DNA polymerase III subunit chi; Validated; Region: PRK05728 670307002467 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 670307002468 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 670307002469 DNA-binding site [nucleotide binding]; DNA binding site 670307002470 RNA-binding motif; other site 670307002471 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 670307002472 Response regulator receiver domain; Region: Response_reg; pfam00072 670307002473 active site 670307002474 phosphorylation site [posttranslational modification] 670307002475 intermolecular recognition site; other site 670307002476 dimerization interface [polypeptide binding]; other site 670307002477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 670307002478 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 670307002479 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 670307002480 active site 670307002481 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 670307002482 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 670307002483 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 670307002484 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 670307002485 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 670307002486 ligand binding site [chemical binding]; other site 670307002487 flexible hinge region; other site 670307002488 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 670307002489 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 670307002490 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 670307002491 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 670307002492 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 670307002493 protein binding site [polypeptide binding]; other site 670307002494 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 670307002495 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 670307002496 active site 670307002497 catalytic residue [active] 670307002498 Transcriptional regulator; Region: Rrf2; cl17282 670307002499 Predicted transcriptional regulator [Transcription]; Region: COG1959 670307002500 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 670307002501 Predicted periplasmic protein [Function unknown]; Region: COG3904 670307002502 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 670307002503 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 670307002504 inhibitor-cofactor binding pocket; inhibition site 670307002505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307002506 catalytic residue [active] 670307002507 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 670307002508 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 670307002509 Cytochrome c; Region: Cytochrom_C; cl11414 670307002510 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 670307002511 Cytochrome c; Region: Cytochrom_C; cl11414 670307002512 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 670307002513 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 670307002514 dimer interface [polypeptide binding]; other site 670307002515 TPP-binding site [chemical binding]; other site 670307002516 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 670307002517 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 670307002518 E3 interaction surface; other site 670307002519 lipoyl attachment site [posttranslational modification]; other site 670307002520 e3 binding domain; Region: E3_binding; pfam02817 670307002521 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 670307002522 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 670307002523 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307002524 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 670307002525 hypothetical protein; Provisional; Region: PRK10279 670307002526 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 670307002527 nucleophile elbow; other site 670307002528 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 670307002529 putative dimer interface [polypeptide binding]; other site 670307002530 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 670307002531 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 670307002532 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307002533 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 670307002534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 670307002535 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 670307002536 putative hydrophobic ligand binding site [chemical binding]; other site 670307002537 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 670307002538 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 670307002539 dimer interface [polypeptide binding]; other site 670307002540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307002541 catalytic residue [active] 670307002542 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 670307002543 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 670307002544 active site residue [active] 670307002545 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 670307002546 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 670307002547 catalytic triad [active] 670307002548 dimer interface [polypeptide binding]; other site 670307002549 decamer (pentamer of dimers) interface [polypeptide binding]; other site 670307002550 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 670307002551 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 670307002552 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 670307002553 Cytochrome c; Region: Cytochrom_C; cl11414 670307002554 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 670307002555 Cytochrome c; Region: Cytochrom_C; pfam00034 670307002556 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 670307002557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 670307002558 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 670307002559 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 670307002560 Low-spin heme binding site [chemical binding]; other site 670307002561 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 670307002562 Putative water exit pathway; other site 670307002563 Binuclear center (active site) [active] 670307002564 Putative proton exit pathway; other site 670307002565 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 670307002566 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 670307002567 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 670307002568 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 670307002569 Cytochrome c; Region: Cytochrom_C; pfam00034 670307002570 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 670307002571 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 670307002572 4Fe-4S binding domain; Region: Fer4_5; pfam12801 670307002573 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 670307002574 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 670307002575 FixH; Region: FixH; pfam05751 670307002576 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 670307002577 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 670307002578 metal-binding site [ion binding] 670307002579 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307002580 Soluble P-type ATPase [General function prediction only]; Region: COG4087 670307002581 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 670307002582 Family description; Region: DsbD_2; pfam13386 670307002583 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 670307002584 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 670307002585 N-terminal plug; other site 670307002586 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 670307002587 ligand-binding site [chemical binding]; other site 670307002588 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 670307002589 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 670307002590 DNA binding residues [nucleotide binding] 670307002591 dimerization interface [polypeptide binding]; other site 670307002592 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 670307002593 high affinity sulphate transporter 1; Region: sulP; TIGR00815 670307002594 Sulfate transporter family; Region: Sulfate_transp; pfam00916 670307002595 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 670307002596 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307002597 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 670307002598 active site 670307002599 phosphorylation site [posttranslational modification] 670307002600 intermolecular recognition site; other site 670307002601 dimerization interface [polypeptide binding]; other site 670307002602 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 670307002603 DNA binding site [nucleotide binding] 670307002604 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 670307002605 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 670307002606 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 670307002607 Ligand Binding Site [chemical binding]; other site 670307002608 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 670307002609 GAF domain; Region: GAF_3; pfam13492 670307002610 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 670307002611 dimer interface [polypeptide binding]; other site 670307002612 phosphorylation site [posttranslational modification] 670307002613 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 670307002614 ATP binding site [chemical binding]; other site 670307002615 Mg2+ binding site [ion binding]; other site 670307002616 G-X-G motif; other site 670307002617 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 670307002618 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 670307002619 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307002620 Soluble P-type ATPase [General function prediction only]; Region: COG4087 670307002621 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 670307002622 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 670307002623 Transcriptional regulators [Transcription]; Region: MarR; COG1846 670307002624 MarR family; Region: MarR_2; pfam12802 670307002625 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 670307002626 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 670307002627 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 670307002628 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 670307002629 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 670307002630 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 670307002631 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 670307002632 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 670307002633 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 670307002634 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 670307002635 putative substrate-binding site; other site 670307002636 nickel binding site [ion binding]; other site 670307002637 HupF/HypC family; Region: HupF_HypC; cl00394 670307002638 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 670307002639 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 670307002640 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 670307002641 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 670307002642 Rubredoxin; Region: Rubredoxin; pfam00301 670307002643 iron binding site [ion binding]; other site 670307002644 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 670307002645 hydrogenase 1 large subunit; Provisional; Region: PRK10170 670307002646 coenzyme F420 hydrogenase, subunit alpha; Region: frhA; TIGR03295 670307002647 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 670307002648 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 670307002649 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 670307002650 HupF/HypC family; Region: HupF_HypC; pfam01455 670307002651 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 670307002652 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 670307002653 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 670307002654 dimerization interface [polypeptide binding]; other site 670307002655 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 670307002656 ATP binding site [chemical binding]; other site 670307002657 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 670307002658 putative active site [active] 670307002659 putative substrate binding site [chemical binding]; other site 670307002660 putative cosubstrate binding site; other site 670307002661 catalytic site [active] 670307002662 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 670307002663 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 670307002664 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 670307002665 substrate binding site [chemical binding]; other site 670307002666 oxyanion hole (OAH) forming residues; other site 670307002667 trimer interface [polypeptide binding]; other site 670307002668 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 670307002669 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 670307002670 active site 670307002671 phosphorylation site [posttranslational modification] 670307002672 intermolecular recognition site; other site 670307002673 dimerization interface [polypeptide binding]; other site 670307002674 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 670307002675 Walker A motif; other site 670307002676 ATP binding site [chemical binding]; other site 670307002677 Walker B motif; other site 670307002678 arginine finger; other site 670307002679 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 670307002680 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 670307002681 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 670307002682 putative active site [active] 670307002683 heme pocket [chemical binding]; other site 670307002684 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 670307002685 dimer interface [polypeptide binding]; other site 670307002686 phosphorylation site [posttranslational modification] 670307002687 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 670307002688 ATP binding site [chemical binding]; other site 670307002689 Mg2+ binding site [ion binding]; other site 670307002690 G-X-G motif; other site 670307002691 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 670307002692 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 670307002693 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 670307002694 Acylphosphatase; Region: Acylphosphatase; pfam00708 670307002695 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 670307002696 HypF finger; Region: zf-HYPF; pfam07503 670307002697 HypF finger; Region: zf-HYPF; pfam07503 670307002698 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 670307002699 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 670307002700 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 670307002701 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 670307002702 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 670307002703 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 670307002704 FeS/SAM binding site; other site 670307002705 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 670307002706 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 670307002707 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 670307002708 RNA binding surface [nucleotide binding]; other site 670307002709 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 670307002710 active site 670307002711 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 670307002712 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 670307002713 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307002714 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 670307002715 DNA binding residues [nucleotide binding] 670307002716 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 670307002717 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 670307002718 AMIN domain; Region: AMIN; pfam11741 670307002719 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 670307002720 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 670307002721 active site 670307002722 metal binding site [ion binding]; metal-binding site 670307002723 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 670307002724 MoaE homodimer interface [polypeptide binding]; other site 670307002725 MoaD interaction [polypeptide binding]; other site 670307002726 active site residues [active] 670307002727 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 670307002728 MoaE interaction surface [polypeptide binding]; other site 670307002729 MoeB interaction surface [polypeptide binding]; other site 670307002730 thiocarboxylated glycine; other site 670307002731 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 670307002732 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 670307002733 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 670307002734 Mechanosensitive ion channel; Region: MS_channel; pfam00924 670307002735 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 670307002736 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 670307002737 GIY-YIG motif/motif A; other site 670307002738 active site 670307002739 catalytic site [active] 670307002740 putative DNA binding site [nucleotide binding]; other site 670307002741 metal binding site [ion binding]; metal-binding site 670307002742 UvrB/uvrC motif; Region: UVR; pfam02151 670307002743 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 670307002744 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 670307002745 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 670307002746 dihydromonapterin reductase; Provisional; Region: PRK06483 670307002747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307002748 NAD(P) binding site [chemical binding]; other site 670307002749 active site 670307002750 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 670307002751 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 670307002752 B1 nucleotide binding pocket [chemical binding]; other site 670307002753 B2 nucleotide binding pocket [chemical binding]; other site 670307002754 CAS motifs; other site 670307002755 active site 670307002756 hypothetical protein; Validated; Region: PRK09104 670307002757 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 670307002758 metal binding site [ion binding]; metal-binding site 670307002759 putative dimer interface [polypeptide binding]; other site 670307002760 pyruvate phosphate dikinase; Provisional; Region: PRK09279 670307002761 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 670307002762 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 670307002763 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 670307002764 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 670307002765 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 670307002766 dimerization interface [polypeptide binding]; other site 670307002767 active site 670307002768 L-aspartate oxidase; Provisional; Region: PRK07512 670307002769 L-aspartate oxidase; Provisional; Region: PRK06175 670307002770 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 670307002771 quinolinate synthetase; Provisional; Region: PRK09375 670307002772 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 670307002773 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 670307002774 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 670307002775 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 670307002776 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 670307002777 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 670307002778 dihydroorotase; Validated; Region: PRK09060 670307002779 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 670307002780 active site 670307002781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 670307002782 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307002783 LysE type translocator; Region: LysE; cl00565 670307002784 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 670307002785 Uncharacterized conserved protein [Function unknown]; Region: COG2135 670307002786 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 670307002787 Acyltransferase family; Region: Acyl_transf_3; pfam01757 670307002788 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 670307002789 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 670307002790 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 670307002791 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 670307002792 active site 670307002793 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 670307002794 enoyl-CoA hydratase; Provisional; Region: PRK06688 670307002795 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 670307002796 substrate binding site [chemical binding]; other site 670307002797 oxyanion hole (OAH) forming residues; other site 670307002798 trimer interface [polypeptide binding]; other site 670307002799 short chain dehydrogenase; Provisional; Region: PRK08278 670307002800 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 670307002801 NAD(P) binding site [chemical binding]; other site 670307002802 homodimer interface [polypeptide binding]; other site 670307002803 active site 670307002804 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 670307002805 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 670307002806 putative active site [active] 670307002807 Zn binding site [ion binding]; other site 670307002808 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 670307002809 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 670307002810 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 670307002811 TPP-binding site; other site 670307002812 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 670307002813 PYR/PP interface [polypeptide binding]; other site 670307002814 dimer interface [polypeptide binding]; other site 670307002815 TPP binding site [chemical binding]; other site 670307002816 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 670307002817 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 670307002818 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 670307002819 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 670307002820 RNA binding surface [nucleotide binding]; other site 670307002821 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 670307002822 S-adenosylmethionine binding site [chemical binding]; other site 670307002823 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 670307002824 TRAM domain; Region: TRAM; cl01282 670307002825 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 670307002826 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 670307002827 Tetramer interface [polypeptide binding]; other site 670307002828 active site 670307002829 FMN-binding site [chemical binding]; other site 670307002830 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 670307002831 catalytic core [active] 670307002832 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 670307002833 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 670307002834 NAD binding site [chemical binding]; other site 670307002835 homotetramer interface [polypeptide binding]; other site 670307002836 homodimer interface [polypeptide binding]; other site 670307002837 substrate binding site [chemical binding]; other site 670307002838 active site 670307002839 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 670307002840 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 670307002841 Walker A/P-loop; other site 670307002842 ATP binding site [chemical binding]; other site 670307002843 Q-loop/lid; other site 670307002844 ABC transporter signature motif; other site 670307002845 Walker B; other site 670307002846 D-loop; other site 670307002847 H-loop/switch region; other site 670307002848 DevC protein; Region: devC; TIGR01185 670307002849 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 670307002850 FtsX-like permease family; Region: FtsX; pfam02687 670307002851 Esterase/lipase [General function prediction only]; Region: COG1647 670307002852 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 670307002853 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307002854 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307002855 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 670307002856 catalytic residues [active] 670307002857 dimer interface [polypeptide binding]; other site 670307002858 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 670307002859 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 670307002860 active site residue [active] 670307002861 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 670307002862 active site residue [active] 670307002863 trigger factor; Provisional; Region: tig; PRK01490 670307002864 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 670307002865 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 670307002866 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 670307002867 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 670307002868 oligomer interface [polypeptide binding]; other site 670307002869 active site residues [active] 670307002870 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 670307002871 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 670307002872 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 670307002873 Walker A motif; other site 670307002874 ATP binding site [chemical binding]; other site 670307002875 Walker B motif; other site 670307002876 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 670307002877 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 670307002878 Found in ATP-dependent protease La (LON); Region: LON; smart00464 670307002879 Found in ATP-dependent protease La (LON); Region: LON; smart00464 670307002880 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 670307002881 Walker A motif; other site 670307002882 ATP binding site [chemical binding]; other site 670307002883 Walker B motif; other site 670307002884 arginine finger; other site 670307002885 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 670307002886 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 670307002887 IHF dimer interface [polypeptide binding]; other site 670307002888 IHF - DNA interface [nucleotide binding]; other site 670307002889 potential protein location (hypothetical protein jgi_28773 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-V) 670307002890 PAS fold; Region: PAS_7; pfam12860 670307002891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 670307002892 metal binding site [ion binding]; metal-binding site 670307002893 active site 670307002894 I-site; other site 670307002895 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 670307002896 FecR protein; Region: FecR; pfam04773 670307002897 CHASE2 domain; Region: CHASE2; pfam05226 670307002898 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 670307002899 cyclase homology domain; Region: CHD; cd07302 670307002900 nucleotidyl binding site; other site 670307002901 metal binding site [ion binding]; metal-binding site 670307002902 dimer interface [polypeptide binding]; other site 670307002903 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307002904 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 670307002905 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 670307002906 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 670307002907 putative metal binding site; other site 670307002908 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 670307002909 NADH dehydrogenase subunit B; Validated; Region: PRK06411 670307002910 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 670307002911 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 670307002912 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 670307002913 subunit interaction site [polypeptide binding]; other site 670307002914 PHB binding site; other site 670307002915 CoenzymeA binding site [chemical binding]; other site 670307002916 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 670307002917 NADH dehydrogenase subunit D; Validated; Region: PRK06075 670307002918 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 670307002919 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 670307002920 putative dimer interface [polypeptide binding]; other site 670307002921 [2Fe-2S] cluster binding site [ion binding]; other site 670307002922 Uncharacterized conserved protein [Function unknown]; Region: COG3743 670307002923 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 670307002924 SLBB domain; Region: SLBB; pfam10531 670307002925 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 670307002926 NADH dehydrogenase subunit G; Validated; Region: PRK09130 670307002927 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 670307002928 catalytic loop [active] 670307002929 iron binding site [ion binding]; other site 670307002930 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 670307002931 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 670307002932 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 670307002933 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 670307002934 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 670307002935 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 670307002936 4Fe-4S binding domain; Region: Fer4; pfam00037 670307002937 4Fe-4S binding domain; Region: Fer4; pfam00037 670307002938 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 670307002939 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 670307002940 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 670307002941 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 670307002942 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 670307002943 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 670307002944 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 670307002945 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 670307002946 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 670307002947 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 670307002948 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 670307002949 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 670307002950 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 670307002951 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 670307002952 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 670307002953 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 670307002954 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 670307002955 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 670307002956 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 670307002957 dimer interface [polypeptide binding]; other site 670307002958 substrate binding site [chemical binding]; other site 670307002959 metal binding site [ion binding]; metal-binding site 670307002960 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 670307002961 prolyl-tRNA synthetase; Provisional; Region: PRK08661 670307002962 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 670307002963 dimer interface [polypeptide binding]; other site 670307002964 motif 1; other site 670307002965 active site 670307002966 motif 2; other site 670307002967 motif 3; other site 670307002968 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 670307002969 anticodon binding site; other site 670307002970 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 670307002971 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 670307002972 FtsX-like permease family; Region: FtsX; pfam02687 670307002973 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 670307002974 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 670307002975 Walker A/P-loop; other site 670307002976 ATP binding site [chemical binding]; other site 670307002977 Q-loop/lid; other site 670307002978 ABC transporter signature motif; other site 670307002979 Walker B; other site 670307002980 D-loop; other site 670307002981 H-loop/switch region; other site 670307002982 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 670307002983 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 670307002984 putative active site [active] 670307002985 putative PHP Thumb interface [polypeptide binding]; other site 670307002986 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 670307002987 generic binding surface II; other site 670307002988 generic binding surface I; other site 670307002989 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 670307002990 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 670307002991 rRNA interaction site [nucleotide binding]; other site 670307002992 S8 interaction site; other site 670307002993 putative laminin-1 binding site; other site 670307002994 Uncharacterized conserved protein [Function unknown]; Region: COG3743 670307002995 elongation factor Ts; Provisional; Region: tsf; PRK09377 670307002996 UBA/TS-N domain; Region: UBA; pfam00627 670307002997 Elongation factor TS; Region: EF_TS; pfam00889 670307002998 Elongation factor TS; Region: EF_TS; pfam00889 670307002999 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 670307003000 putative nucleotide binding site [chemical binding]; other site 670307003001 uridine monophosphate binding site [chemical binding]; other site 670307003002 homohexameric interface [polypeptide binding]; other site 670307003003 ribosome recycling factor; Reviewed; Region: frr; PRK00083 670307003004 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 670307003005 hinge region; other site 670307003006 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 670307003007 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 670307003008 catalytic residue [active] 670307003009 putative FPP diphosphate binding site; other site 670307003010 putative FPP binding hydrophobic cleft; other site 670307003011 dimer interface [polypeptide binding]; other site 670307003012 putative IPP diphosphate binding site; other site 670307003013 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 670307003014 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 670307003015 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 670307003016 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 670307003017 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 670307003018 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 670307003019 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 670307003020 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 670307003021 active site 670307003022 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 670307003023 protein binding site [polypeptide binding]; other site 670307003024 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 670307003025 putative substrate binding region [chemical binding]; other site 670307003026 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 670307003027 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 670307003028 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 670307003029 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 670307003030 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 670307003031 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 670307003032 Surface antigen; Region: Bac_surface_Ag; pfam01103 670307003033 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 670307003034 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 670307003035 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 670307003036 trimer interface [polypeptide binding]; other site 670307003037 active site 670307003038 UDP-GlcNAc binding site [chemical binding]; other site 670307003039 lipid binding site [chemical binding]; lipid-binding site 670307003040 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 670307003041 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 670307003042 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 670307003043 active site 670307003044 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 670307003045 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 670307003046 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 670307003047 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 670307003048 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 670307003049 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 670307003050 dimer interface [polypeptide binding]; other site 670307003051 active site 670307003052 citrylCoA binding site [chemical binding]; other site 670307003053 NADH binding [chemical binding]; other site 670307003054 cationic pore residues; other site 670307003055 oxalacetate/citrate binding site [chemical binding]; other site 670307003056 coenzyme A binding site [chemical binding]; other site 670307003057 catalytic triad [active] 670307003058 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 670307003059 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 670307003060 active site 670307003061 HIGH motif; other site 670307003062 nucleotide binding site [chemical binding]; other site 670307003063 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 670307003064 active site 670307003065 KMSKS motif; other site 670307003066 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 670307003067 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 670307003068 Competence protein; Region: Competence; pfam03772 670307003069 LexA repressor; Validated; Region: PRK00215 670307003070 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 670307003071 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 670307003072 Catalytic site [active] 670307003073 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 670307003074 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 670307003075 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 670307003076 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 670307003077 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 670307003078 PilZ domain; Region: PilZ; pfam07238 670307003079 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 670307003080 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 670307003081 Autotransporter beta-domain; Region: Autotransporter; smart00869 670307003082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307003083 active site 670307003084 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 670307003085 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 670307003086 DNA binding residues [nucleotide binding] 670307003087 dimerization interface [polypeptide binding]; other site 670307003088 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 670307003089 diiron binding motif [ion binding]; other site 670307003090 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 670307003091 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 670307003092 4Fe-4S binding domain; Region: Fer4_5; pfam12801 670307003093 4Fe-4S binding domain; Region: Fer4_5; pfam12801 670307003094 nitrous-oxide reductase; Validated; Region: PRK02888 670307003095 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 670307003096 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 670307003097 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 670307003098 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 670307003099 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 670307003100 Walker A/P-loop; other site 670307003101 ATP binding site [chemical binding]; other site 670307003102 Q-loop/lid; other site 670307003103 ABC transporter signature motif; other site 670307003104 Walker B; other site 670307003105 D-loop; other site 670307003106 H-loop/switch region; other site 670307003107 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 670307003108 NosL; Region: NosL; pfam05573 670307003109 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 670307003110 ApbE family; Region: ApbE; pfam02424 670307003111 potential protein location (hypothetical protein jgi_29183 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-P) 670307003112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 670307003113 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 670307003114 Cytochrome c; Region: Cytochrom_C; pfam00034 670307003115 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 670307003116 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 670307003117 cobalamin binding residues [chemical binding]; other site 670307003118 putative BtuC binding residues; other site 670307003119 dimer interface [polypeptide binding]; other site 670307003120 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 670307003121 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307003122 ligand binding site [chemical binding]; other site 670307003123 flexible hinge region; other site 670307003124 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 670307003125 putative switch regulator; other site 670307003126 non-specific DNA interactions [nucleotide binding]; other site 670307003127 DNA binding site [nucleotide binding] 670307003128 sequence specific DNA binding site [nucleotide binding]; other site 670307003129 putative cAMP binding site [chemical binding]; other site 670307003130 Virulence protein [General function prediction only]; Region: COG3943 670307003131 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 670307003132 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 670307003133 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 670307003134 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 670307003135 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 670307003136 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 670307003137 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 670307003138 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 670307003139 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 670307003140 HIGH motif; other site 670307003141 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 670307003142 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 670307003143 active site 670307003144 KMSKS motif; other site 670307003145 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 670307003146 tRNA binding surface [nucleotide binding]; other site 670307003147 anticodon binding site; other site 670307003148 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 670307003149 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 670307003150 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 670307003151 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 670307003152 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 670307003153 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 670307003154 putative catalytic site [active] 670307003155 putative phosphate binding site [ion binding]; other site 670307003156 active site 670307003157 metal binding site A [ion binding]; metal-binding site 670307003158 DNA binding site [nucleotide binding] 670307003159 putative AP binding site [nucleotide binding]; other site 670307003160 putative metal binding site B [ion binding]; other site 670307003161 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 670307003162 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 670307003163 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 670307003164 Zn2+ binding site [ion binding]; other site 670307003165 Mg2+ binding site [ion binding]; other site 670307003166 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 670307003167 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 670307003168 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 670307003169 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 670307003170 active site 670307003171 HIGH motif; other site 670307003172 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 670307003173 KMSK motif region; other site 670307003174 tRNA binding surface [nucleotide binding]; other site 670307003175 DALR anticodon binding domain; Region: DALR_1; smart00836 670307003176 anticodon binding site; other site 670307003177 Sporulation related domain; Region: SPOR; pfam05036 670307003178 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 670307003179 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 670307003180 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 670307003181 sec-independent translocase; Provisional; Region: tatB; PRK00404 670307003182 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 670307003183 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 670307003184 seryl-tRNA synthetase; Provisional; Region: PRK05431 670307003185 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 670307003186 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 670307003187 dimer interface [polypeptide binding]; other site 670307003188 active site 670307003189 motif 1; other site 670307003190 motif 2; other site 670307003191 motif 3; other site 670307003192 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 670307003193 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 670307003194 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 670307003195 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 670307003196 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 670307003197 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 670307003198 Peptidase family M23; Region: Peptidase_M23; pfam01551 670307003199 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 670307003200 Protein of unknown function (DUF815); Region: DUF815; pfam05673 670307003201 Walker A motif; other site 670307003202 ATP binding site [chemical binding]; other site 670307003203 Walker B motif; other site 670307003204 Preprotein translocase subunit; Region: YajC; pfam02699 670307003205 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 670307003206 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 670307003207 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 670307003208 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 670307003209 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 670307003210 Protein export membrane protein; Region: SecD_SecF; pfam02355 670307003211 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 670307003212 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 670307003213 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 670307003214 active site 670307003215 catalytic triad [active] 670307003216 oxyanion hole [active] 670307003217 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 670307003218 Glucose inhibited division protein A; Region: GIDA; pfam01134 670307003219 manganese transport protein MntH; Reviewed; Region: PRK00701 670307003220 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 670307003221 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 670307003222 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 670307003223 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 670307003224 homotrimer interaction site [polypeptide binding]; other site 670307003225 putative active site [active] 670307003226 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 670307003227 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 670307003228 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 670307003229 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 670307003230 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 670307003231 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 670307003232 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 670307003233 putative phosphate acyltransferase; Provisional; Region: PRK05331 670307003234 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 670307003235 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 670307003236 dimer interface [polypeptide binding]; other site 670307003237 active site 670307003238 CoA binding pocket [chemical binding]; other site 670307003239 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 670307003240 IHF dimer interface [polypeptide binding]; other site 670307003241 IHF - DNA interface [nucleotide binding]; other site 670307003242 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 670307003243 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 670307003244 DNA binding residues [nucleotide binding] 670307003245 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 670307003246 Amino acid permease; Region: AA_permease_2; pfam13520 670307003247 potential protein location (hypothetical protein jgi_29518 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-P) 670307003248 hydroxyglutarate oxidase; Provisional; Region: PRK11728 670307003249 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 670307003250 Asp-box motif; other site 670307003251 Predicted dehydrogenase [General function prediction only]; Region: COG0579 670307003252 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 670307003253 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 670307003254 DXD motif; other site 670307003255 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 670307003256 putative ADP-binding pocket [chemical binding]; other site 670307003257 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307003258 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 670307003259 Chain length determinant protein; Region: Wzz; pfam02706 670307003260 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 670307003261 AAA domain; Region: AAA_31; pfam13614 670307003262 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 670307003263 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 670307003264 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 670307003265 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 670307003266 catalytic residue [active] 670307003267 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 670307003268 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 670307003269 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 670307003270 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 670307003271 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 670307003272 active site 670307003273 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 670307003274 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 670307003275 active site 670307003276 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 670307003277 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 670307003278 M28 Zn-Peptidases; Region: M28_like_3; cd05644 670307003279 active site 670307003280 metal binding site [ion binding]; metal-binding site 670307003281 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 670307003282 Methyltransferase domain; Region: Methyltransf_23; pfam13489 670307003283 Methyltransferase domain; Region: Methyltransf_12; pfam08242 670307003284 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 670307003285 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 670307003286 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 670307003287 substrate binding site; other site 670307003288 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 670307003289 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 670307003290 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 670307003291 SLBB domain; Region: SLBB; pfam10531 670307003292 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 670307003293 O-Antigen ligase; Region: Wzy_C; pfam04932 670307003294 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 670307003295 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 670307003296 DNA binding residues [nucleotide binding] 670307003297 dimerization interface [polypeptide binding]; other site 670307003298 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 670307003299 extended (e) SDRs; Region: SDR_e; cd08946 670307003300 NAD(P) binding site [chemical binding]; other site 670307003301 active site 670307003302 substrate binding site [chemical binding]; other site 670307003303 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 670307003304 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 670307003305 Cytochrome c; Region: Cytochrom_C; pfam00034 670307003306 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 670307003307 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 670307003308 Trp docking motif [polypeptide binding]; other site 670307003309 active site 670307003310 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 670307003311 Bacterial sugar transferase; Region: Bac_transf; pfam02397 670307003312 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 670307003313 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 670307003314 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 670307003315 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 670307003316 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 670307003317 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 670307003318 nucleotide binding site [chemical binding]; other site 670307003319 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 670307003320 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 670307003321 active site 670307003322 homotetramer interface [polypeptide binding]; other site 670307003323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 670307003324 HWE histidine kinase; Region: HWE_HK; smart00911 670307003325 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 670307003326 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 670307003327 Response regulator receiver domain; Region: Response_reg; pfam00072 670307003328 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 670307003329 active site 670307003330 phosphorylation site [posttranslational modification] 670307003331 intermolecular recognition site; other site 670307003332 dimerization interface [polypeptide binding]; other site 670307003333 PAS fold; Region: PAS_3; pfam08447 670307003334 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 670307003335 heme pocket [chemical binding]; other site 670307003336 putative active site [active] 670307003337 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 670307003338 HWE histidine kinase; Region: HWE_HK; pfam07536 670307003339 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 670307003340 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 670307003341 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 670307003342 dimerization interface [polypeptide binding]; other site 670307003343 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 670307003344 dimerization interface [polypeptide binding]; other site 670307003345 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 670307003346 dimerization interface [polypeptide binding]; other site 670307003347 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 670307003348 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 670307003349 dimerization interface [polypeptide binding]; other site 670307003350 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 670307003351 dimerization interface [polypeptide binding]; other site 670307003352 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 670307003353 dimerization interface [polypeptide binding]; other site 670307003354 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 670307003355 dimerization interface [polypeptide binding]; other site 670307003356 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 670307003357 dimerization interface [polypeptide binding]; other site 670307003358 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 670307003359 dimerization interface [polypeptide binding]; other site 670307003360 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 670307003361 GAF domain; Region: GAF; pfam01590 670307003362 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 670307003363 dimer interface [polypeptide binding]; other site 670307003364 phosphorylation site [posttranslational modification] 670307003365 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 670307003366 ATP binding site [chemical binding]; other site 670307003367 Mg2+ binding site [ion binding]; other site 670307003368 G-X-G motif; other site 670307003369 Response regulator receiver domain; Region: Response_reg; pfam00072 670307003370 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 670307003371 active site 670307003372 phosphorylation site [posttranslational modification] 670307003373 intermolecular recognition site; other site 670307003374 dimerization interface [polypeptide binding]; other site 670307003375 Response regulator receiver domain; Region: Response_reg; pfam00072 670307003376 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 670307003377 active site 670307003378 phosphorylation site [posttranslational modification] 670307003379 intermolecular recognition site; other site 670307003380 dimerization interface [polypeptide binding]; other site 670307003381 Response regulator receiver domain; Region: Response_reg; pfam00072 670307003382 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 670307003383 active site 670307003384 phosphorylation site [posttranslational modification] 670307003385 intermolecular recognition site; other site 670307003386 dimerization interface [polypeptide binding]; other site 670307003387 RNA polymerase sigma factor; Provisional; Region: PRK12547 670307003388 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307003389 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 670307003390 DNA binding residues [nucleotide binding] 670307003391 two-component response regulator; Provisional; Region: PRK09191 670307003392 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 670307003393 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 670307003394 active site 670307003395 phosphorylation site [posttranslational modification] 670307003396 intermolecular recognition site; other site 670307003397 dimerization interface [polypeptide binding]; other site 670307003398 recombination factor protein RarA; Reviewed; Region: PRK13342 670307003399 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 670307003400 Walker A motif; other site 670307003401 ATP binding site [chemical binding]; other site 670307003402 Walker B motif; other site 670307003403 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 670307003404 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 670307003405 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 670307003406 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 670307003407 RNA binding surface [nucleotide binding]; other site 670307003408 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 670307003409 active site 670307003410 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 670307003411 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 670307003412 motif II; other site 670307003413 ATP12 chaperone protein; Region: ATP12; pfam07542 670307003414 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 670307003415 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 670307003416 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 670307003417 Ubiquitin-like proteins; Region: UBQ; cl00155 670307003418 BNR repeat-like domain; Region: BNR_2; pfam13088 670307003419 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 670307003420 Cytochrome P450; Region: p450; pfam00067 670307003421 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 670307003422 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 670307003423 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 670307003424 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 670307003425 Cl- selectivity filter; other site 670307003426 Cl- binding residues [ion binding]; other site 670307003427 pore gating glutamate residue; other site 670307003428 dimer interface [polypeptide binding]; other site 670307003429 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 670307003430 MgtC family; Region: MgtC; pfam02308 670307003431 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 670307003432 Major Facilitator Superfamily; Region: MFS_1; pfam07690 670307003433 putative substrate translocation pore; other site 670307003434 YHS domain; Region: YHS; pfam04945 670307003435 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 670307003436 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307003437 Soluble P-type ATPase [General function prediction only]; Region: COG4087 670307003438 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 670307003439 putative homodimer interface [polypeptide binding]; other site 670307003440 putative homotetramer interface [polypeptide binding]; other site 670307003441 putative allosteric switch controlling residues; other site 670307003442 putative metal binding site [ion binding]; other site 670307003443 putative homodimer-homodimer interface [polypeptide binding]; other site 670307003444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 670307003445 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307003446 LssY C-terminus; Region: LssY_C; pfam14067 670307003447 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 670307003448 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 670307003449 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 670307003450 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 670307003451 CAP-like domain; other site 670307003452 active site 670307003453 primary dimer interface [polypeptide binding]; other site 670307003454 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 670307003455 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 670307003456 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 670307003457 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 670307003458 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 670307003459 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 670307003460 homodimer interface [polypeptide binding]; other site 670307003461 substrate-cofactor binding pocket; other site 670307003462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307003463 catalytic residue [active] 670307003464 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 670307003465 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 670307003466 aminotransferase; Validated; Region: PRK09148 670307003467 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 670307003468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307003469 homodimer interface [polypeptide binding]; other site 670307003470 catalytic residue [active] 670307003471 homoserine dehydrogenase; Provisional; Region: PRK06349 670307003472 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 670307003473 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 670307003474 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 670307003475 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 670307003476 putative active site [active] 670307003477 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 670307003478 DHH family; Region: DHH; pfam01368 670307003479 DHHA1 domain; Region: DHHA1; pfam02272 670307003480 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 670307003481 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 670307003482 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 670307003483 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 670307003484 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 670307003485 catalytic residues [active] 670307003486 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 670307003487 metal ion-dependent adhesion site (MIDAS); other site 670307003488 Formylmethanofuran dehydrogenase subunit C [Energy production and conversion]; Region: FwdC; COG2218 670307003489 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 670307003490 domain_subunit interface; other site 670307003491 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 670307003492 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 670307003493 FTR, proximal lobe; Region: FTR_C; pfam02741 670307003494 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 670307003495 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 670307003496 active site 670307003497 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 670307003498 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 670307003499 molybdopterin cofactor binding site; other site 670307003500 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 670307003501 putative hydrophobic ligand binding site [chemical binding]; other site 670307003502 protein interface [polypeptide binding]; other site 670307003503 gate; other site 670307003504 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 670307003505 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 670307003506 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 670307003507 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 670307003508 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 670307003509 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 670307003510 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 670307003511 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 670307003512 Trp docking motif [polypeptide binding]; other site 670307003513 dimer interface [polypeptide binding]; other site 670307003514 active site 670307003515 small subunit binding site [polypeptide binding]; other site 670307003516 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 670307003517 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 670307003518 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 670307003519 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 670307003520 substrate binding pocket [chemical binding]; other site 670307003521 membrane-bound complex binding site; other site 670307003522 hinge residues; other site 670307003523 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 670307003524 active site residue [active] 670307003525 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 670307003526 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 670307003527 TrkA-N domain; Region: TrkA_N; pfam02254 670307003528 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 670307003529 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 670307003530 TPP-binding site [chemical binding]; other site 670307003531 dimer interface [polypeptide binding]; other site 670307003532 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 670307003533 PYR/PP interface [polypeptide binding]; other site 670307003534 dimer interface [polypeptide binding]; other site 670307003535 TPP binding site [chemical binding]; other site 670307003536 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 670307003537 Phosphoglycerate kinase; Region: PGK; pfam00162 670307003538 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 670307003539 substrate binding site [chemical binding]; other site 670307003540 hinge regions; other site 670307003541 ADP binding site [chemical binding]; other site 670307003542 catalytic site [active] 670307003543 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 670307003544 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 670307003545 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 670307003546 substrate binding site [chemical binding]; other site 670307003547 dimer interface [polypeptide binding]; other site 670307003548 ATP binding site [chemical binding]; other site 670307003549 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 670307003550 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 670307003551 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 670307003552 putative substrate translocation pore; other site 670307003553 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 670307003554 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 670307003555 active site 670307003556 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 670307003557 putative binding surface; other site 670307003558 active site 670307003559 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 670307003560 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 670307003561 catalytic loop [active] 670307003562 iron binding site [ion binding]; other site 670307003563 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 670307003564 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 670307003565 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307003566 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 670307003567 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 670307003568 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 670307003569 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 670307003570 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 670307003571 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 670307003572 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 670307003573 glucosyltransferase MdoH; Provisional; Region: PRK05454 670307003574 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 670307003575 active site 670307003576 Domain of unknown function (DUF697); Region: DUF697; cl12064 670307003577 hypothetical protein; Provisional; Region: PRK05415 670307003578 YcjX-like family, DUF463; Region: DUF463; pfam04317 670307003579 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14360 670307003580 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 670307003581 Predicted metalloprotease [General function prediction only]; Region: COG2321 670307003582 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 670307003583 Sporulation related domain; Region: SPOR; pfam05036 670307003584 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 670307003585 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 670307003586 Substrate binding site; other site 670307003587 Mg++ binding site; other site 670307003588 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 670307003589 active site 670307003590 substrate binding site [chemical binding]; other site 670307003591 CoA binding site [chemical binding]; other site 670307003592 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 670307003593 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 670307003594 glutaminase active site [active] 670307003595 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 670307003596 dimer interface [polypeptide binding]; other site 670307003597 active site 670307003598 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 670307003599 dimer interface [polypeptide binding]; other site 670307003600 active site 670307003601 TPR repeat; Region: TPR_11; pfam13414 670307003602 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 670307003603 binding surface 670307003604 TPR motif; other site 670307003605 Sporulation related domain; Region: SPOR; pfam05036 670307003606 Uncharacterized conserved protein [Function unknown]; Region: COG2928 670307003607 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 670307003608 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 670307003609 generic binding surface II; other site 670307003610 ssDNA binding site; other site 670307003611 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 670307003612 ATP binding site [chemical binding]; other site 670307003613 putative Mg++ binding site [ion binding]; other site 670307003614 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 670307003615 nucleotide binding region [chemical binding]; other site 670307003616 ATP-binding site [chemical binding]; other site 670307003617 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 670307003618 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 670307003619 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 670307003620 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 670307003621 ATP binding site [chemical binding]; other site 670307003622 putative Mg++ binding site [ion binding]; other site 670307003623 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 670307003624 nucleotide binding region [chemical binding]; other site 670307003625 ATP-binding site [chemical binding]; other site 670307003626 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 670307003627 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 670307003628 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 670307003629 acyl-activating enzyme (AAE) consensus motif; other site 670307003630 AMP binding site [chemical binding]; other site 670307003631 active site 670307003632 CoA binding site [chemical binding]; other site 670307003633 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 670307003634 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 670307003635 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 670307003636 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 670307003637 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 670307003638 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 670307003639 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 670307003640 active site 670307003641 Protein of unknown function, DUF486; Region: DUF486; cl01236 670307003642 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 670307003643 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 670307003644 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 670307003645 putative acyl-acceptor binding pocket; other site 670307003646 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 670307003647 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 670307003648 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 670307003649 Septum formation initiator; Region: DivIC; pfam04977 670307003650 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 670307003651 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 670307003652 putative coenzyme Q binding site [chemical binding]; other site 670307003653 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 670307003654 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307003655 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307003656 Competence-damaged protein; Region: CinA; pfam02464 670307003657 Transcriptional regulators [Transcription]; Region: MarR; COG1846 670307003658 MarR family; Region: MarR_2; pfam12802 670307003659 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 670307003660 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 670307003661 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 670307003662 substrate binding site; other site 670307003663 dimer interface; other site 670307003664 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 670307003665 homotrimer interaction site [polypeptide binding]; other site 670307003666 zinc binding site [ion binding]; other site 670307003667 CDP-binding sites; other site 670307003668 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 670307003669 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 670307003670 FMN binding site [chemical binding]; other site 670307003671 active site 670307003672 catalytic residues [active] 670307003673 substrate binding site [chemical binding]; other site 670307003674 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 670307003675 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 670307003676 dimer interface [polypeptide binding]; other site 670307003677 phosphorylation site [posttranslational modification] 670307003678 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 670307003679 ATP binding site [chemical binding]; other site 670307003680 Mg2+ binding site [ion binding]; other site 670307003681 G-X-G motif; other site 670307003682 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 670307003683 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 670307003684 active site 670307003685 phosphorylation site [posttranslational modification] 670307003686 intermolecular recognition site; other site 670307003687 dimerization interface [polypeptide binding]; other site 670307003688 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 670307003689 Walker A motif; other site 670307003690 ATP binding site [chemical binding]; other site 670307003691 Walker B motif; other site 670307003692 arginine finger; other site 670307003693 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 670307003694 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 670307003695 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 670307003696 dimerization interface [polypeptide binding]; other site 670307003697 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 670307003698 putative active site [active] 670307003699 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 670307003700 dimer interface [polypeptide binding]; other site 670307003701 phosphorylation site [posttranslational modification] 670307003702 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 670307003703 ATP binding site [chemical binding]; other site 670307003704 Mg2+ binding site [ion binding]; other site 670307003705 G-X-G motif; other site 670307003706 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 670307003707 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 670307003708 active site 670307003709 phosphorylation site [posttranslational modification] 670307003710 intermolecular recognition site; other site 670307003711 dimerization interface [polypeptide binding]; other site 670307003712 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 670307003713 Walker A motif; other site 670307003714 ATP binding site [chemical binding]; other site 670307003715 Walker B motif; other site 670307003716 arginine finger; other site 670307003717 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 670307003718 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 670307003719 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 670307003720 homodimer interface [polypeptide binding]; other site 670307003721 substrate-cofactor binding pocket; other site 670307003722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307003723 catalytic residue [active] 670307003724 bacterial Hfq-like; Region: Hfq; cd01716 670307003725 hexamer interface [polypeptide binding]; other site 670307003726 Sm1 motif; other site 670307003727 RNA binding site [nucleotide binding]; other site 670307003728 Sm2 motif; other site 670307003729 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 670307003730 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 670307003731 HflX GTPase family; Region: HflX; cd01878 670307003732 G1 box; other site 670307003733 GTP/Mg2+ binding site [chemical binding]; other site 670307003734 Switch I region; other site 670307003735 G2 box; other site 670307003736 G3 box; other site 670307003737 Switch II region; other site 670307003738 G4 box; other site 670307003739 G5 box; other site 670307003740 hypothetical protein; Provisional; Region: PRK06185 670307003741 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 670307003742 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 670307003743 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 670307003744 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 670307003745 homodimer interface [polypeptide binding]; other site 670307003746 metal binding site [ion binding]; metal-binding site 670307003747 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 670307003748 homodimer interface [polypeptide binding]; other site 670307003749 active site 670307003750 putative chemical substrate binding site [chemical binding]; other site 670307003751 metal binding site [ion binding]; metal-binding site 670307003752 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 670307003753 putative acetyltransferase; Provisional; Region: PRK03624 670307003754 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 670307003755 Coenzyme A binding pocket [chemical binding]; other site 670307003756 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 670307003757 multifunctional aminopeptidase A; Provisional; Region: PRK00913 670307003758 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 670307003759 interface (dimer of trimers) [polypeptide binding]; other site 670307003760 Substrate-binding/catalytic site; other site 670307003761 Zn-binding sites [ion binding]; other site 670307003762 Predicted permeases [General function prediction only]; Region: COG0795 670307003763 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 670307003764 Predicted permeases [General function prediction only]; Region: COG0795 670307003765 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 670307003766 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 670307003767 OstA-like protein; Region: OstA; cl00844 670307003768 Organic solvent tolerance protein; Region: OstA_C; pfam04453 670307003769 SurA N-terminal domain; Region: SurA_N; pfam09312 670307003770 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 670307003771 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 670307003772 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 670307003773 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 670307003774 S-adenosylmethionine binding site [chemical binding]; other site 670307003775 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 670307003776 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 670307003777 catalytic site [active] 670307003778 G-X2-G-X-G-K; other site 670307003779 hypothetical protein; Provisional; Region: PRK11820 670307003780 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 670307003781 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 670307003782 YceG-like family; Region: YceG; pfam02618 670307003783 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 670307003784 dimerization interface [polypeptide binding]; other site 670307003785 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 670307003786 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 670307003787 dimer interface [polypeptide binding]; other site 670307003788 active site 670307003789 acyl carrier protein; Provisional; Region: acpP; PRK00982 670307003790 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 670307003791 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 670307003792 homotetramer interface [polypeptide binding]; other site 670307003793 NAD(P) binding site [chemical binding]; other site 670307003794 homodimer interface [polypeptide binding]; other site 670307003795 active site 670307003796 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 670307003797 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 670307003798 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 670307003799 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 670307003800 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 670307003801 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 670307003802 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 670307003803 replicative DNA helicase; Provisional; Region: PRK09165 670307003804 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 670307003805 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 670307003806 Walker A motif; other site 670307003807 ATP binding site [chemical binding]; other site 670307003808 Walker B motif; other site 670307003809 DNA binding loops [nucleotide binding] 670307003810 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 670307003811 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 670307003812 active site 670307003813 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 670307003814 substrate binding site [chemical binding]; other site 670307003815 dimer interface [polypeptide binding]; other site 670307003816 catalytic residues [active] 670307003817 DNA repair protein RadA; Provisional; Region: PRK11823 670307003818 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 670307003819 Walker A motif/ATP binding site; other site 670307003820 ATP binding site [chemical binding]; other site 670307003821 Walker B motif; other site 670307003822 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 670307003823 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 670307003824 Colicin V production protein; Region: Colicin_V; pfam02674 670307003825 amidophosphoribosyltransferase; Provisional; Region: PRK09123 670307003826 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 670307003827 active site 670307003828 tetramer interface [polypeptide binding]; other site 670307003829 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 670307003830 active site 670307003831 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 670307003832 classical (c) SDRs; Region: SDR_c; cd05233 670307003833 NAD(P) binding site [chemical binding]; other site 670307003834 active site 670307003835 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 670307003836 putative hydrolase; Provisional; Region: PRK02113 670307003837 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 670307003838 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 670307003839 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 670307003840 active site 670307003841 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 670307003842 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 670307003843 active site 670307003844 HIGH motif; other site 670307003845 KMSKS motif; other site 670307003846 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 670307003847 anticodon binding site; other site 670307003848 tRNA binding surface [nucleotide binding]; other site 670307003849 DNA polymerase III subunit delta'; Validated; Region: PRK07471 670307003850 DNA polymerase III subunit delta'; Validated; Region: PRK08485 670307003851 thymidylate kinase; Validated; Region: tmk; PRK00698 670307003852 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 670307003853 TMP-binding site; other site 670307003854 ATP-binding site [chemical binding]; other site 670307003855 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 670307003856 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 670307003857 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 670307003858 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 670307003859 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 670307003860 Sporulation related domain; Region: SPOR; pfam05036 670307003861 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 670307003862 active site 670307003863 Int/Topo IB signature motif; other site 670307003864 benzoate transport; Region: 2A0115; TIGR00895 670307003865 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 670307003866 putative substrate translocation pore; other site 670307003867 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 670307003868 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 670307003869 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 670307003870 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 670307003871 catalytic triad [active] 670307003872 PilZ domain; Region: PilZ; pfam07238 670307003873 Domain of unknown function DUF302; Region: DUF302; pfam03625 670307003874 LTXXQ motif family protein; Region: LTXXQ; pfam07813 670307003875 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 670307003876 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 670307003877 P-loop; other site 670307003878 Magnesium ion binding site [ion binding]; other site 670307003879 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 670307003880 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 670307003881 enolase; Provisional; Region: eno; PRK00077 670307003882 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 670307003883 dimer interface [polypeptide binding]; other site 670307003884 metal binding site [ion binding]; metal-binding site 670307003885 substrate binding pocket [chemical binding]; other site 670307003886 Uncharacterized conserved protein [Function unknown]; Region: COG3791 670307003887 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 670307003888 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 670307003889 CoenzymeA binding site [chemical binding]; other site 670307003890 subunit interaction site [polypeptide binding]; other site 670307003891 PHB binding site; other site 670307003892 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 670307003893 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 670307003894 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 670307003895 Pirin-related protein [General function prediction only]; Region: COG1741 670307003896 Pirin; Region: Pirin; pfam02678 670307003897 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 670307003898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 670307003899 Protein of unknown function (DUF419); Region: DUF419; pfam04237 670307003900 Protein of unknown function (DUF992); Region: DUF992; pfam06186 670307003901 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 670307003902 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 670307003903 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 670307003904 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 670307003905 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 670307003906 active site 670307003907 dimer interface [polypeptide binding]; other site 670307003908 motif 1; other site 670307003909 motif 2; other site 670307003910 motif 3; other site 670307003911 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 670307003912 anticodon binding site; other site 670307003913 hypothetical protein; Validated; Region: PRK00041 670307003914 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 670307003915 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 670307003916 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 670307003917 trimerization site [polypeptide binding]; other site 670307003918 active site 670307003919 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 670307003920 GTP cyclohydrolase I; Provisional; Region: PLN03044 670307003921 active site 670307003922 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 670307003923 hypothetical protein; Provisional; Region: PRK10279 670307003924 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 670307003925 nucleophile elbow; other site 670307003926 FOG: CBS domain [General function prediction only]; Region: COG0517 670307003927 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 670307003928 Rhomboid family; Region: Rhomboid; cl11446 670307003929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 670307003930 PAS domain; Region: PAS_5; pfam07310 670307003931 PilZ domain; Region: PilZ; pfam07238 670307003932 PilZ domain; Region: PilZ; pfam07238 670307003933 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 670307003934 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 670307003935 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 670307003936 trimer interface [polypeptide binding]; other site 670307003937 putative metal binding site [ion binding]; other site 670307003938 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 670307003939 serine acetyltransferase; Provisional; Region: cysE; PRK11132 670307003940 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 670307003941 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 670307003942 trimer interface [polypeptide binding]; other site 670307003943 active site 670307003944 substrate binding site [chemical binding]; other site 670307003945 CoA binding site [chemical binding]; other site 670307003946 enoyl-CoA hydratase; Provisional; Region: PRK06127 670307003947 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 670307003948 substrate binding site [chemical binding]; other site 670307003949 oxyanion hole (OAH) forming residues; other site 670307003950 trimer interface [polypeptide binding]; other site 670307003951 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 670307003952 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 670307003953 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 670307003954 NodB motif; other site 670307003955 putative active site [active] 670307003956 putative catalytic site [active] 670307003957 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 670307003958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 670307003959 Coenzyme A binding pocket [chemical binding]; other site 670307003960 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 670307003961 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 670307003962 substrate binding pocket [chemical binding]; other site 670307003963 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 670307003964 B12 binding site [chemical binding]; other site 670307003965 cobalt ligand [ion binding]; other site 670307003966 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 670307003967 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 670307003968 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 670307003969 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 670307003970 FAD binding site [chemical binding]; other site 670307003971 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 670307003972 dimerization interface [polypeptide binding]; other site 670307003973 putative DNA binding site [nucleotide binding]; other site 670307003974 putative Zn2+ binding site [ion binding]; other site 670307003975 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 670307003976 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 670307003977 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 670307003978 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 670307003979 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 670307003980 ABC transporter; Region: ABC_tran_2; pfam12848 670307003981 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 670307003982 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 670307003983 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 670307003984 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 670307003985 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 670307003986 putative DNA binding site [nucleotide binding]; other site 670307003987 putative Zn2+ binding site [ion binding]; other site 670307003988 AsnC family; Region: AsnC_trans_reg; pfam01037 670307003989 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 670307003990 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 670307003991 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 670307003992 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 670307003993 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 670307003994 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 670307003995 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 670307003996 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 670307003997 ATP-grasp domain; Region: ATP-grasp_4; cl17255 670307003998 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 670307003999 IMP binding site; other site 670307004000 dimer interface [polypeptide binding]; other site 670307004001 interdomain contacts; other site 670307004002 partial ornithine binding site; other site 670307004003 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 670307004004 Major Facilitator Superfamily; Region: MFS_1; pfam07690 670307004005 putative substrate translocation pore; other site 670307004006 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 670307004007 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 670307004008 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 670307004009 catalytic site [active] 670307004010 subunit interface [polypeptide binding]; other site 670307004011 Yqey-like protein; Region: YqeY; pfam09424 670307004012 DNA primase; Validated; Region: dnaG; PRK05667 670307004013 CHC2 zinc finger; Region: zf-CHC2; pfam01807 670307004014 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 670307004015 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 670307004016 active site 670307004017 metal binding site [ion binding]; metal-binding site 670307004018 interdomain interaction site; other site 670307004019 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 670307004020 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 670307004021 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 670307004022 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 670307004023 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 670307004024 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307004025 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 670307004026 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 670307004027 DNA binding residues [nucleotide binding] 670307004028 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307004029 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307004030 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 670307004031 putative effector binding pocket; other site 670307004032 putative dimerization interface [polypeptide binding]; other site 670307004033 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 670307004034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307004035 NAD(P) binding site [chemical binding]; other site 670307004036 active site 670307004037 EthD domain; Region: EthD; cl17553 670307004038 transcription elongation factor regulatory protein; Validated; Region: PRK06342 670307004039 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 670307004040 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 670307004041 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 670307004042 Predicted amidohydrolase [General function prediction only]; Region: COG0388 670307004043 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 670307004044 putative active site [active] 670307004045 catalytic triad [active] 670307004046 putative dimer interface [polypeptide binding]; other site 670307004047 Uncharacterized conserved protein [Function unknown]; Region: COG2968 670307004048 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 670307004049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 670307004050 putative acetyltransferase; Provisional; Region: PRK03624 670307004051 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 670307004052 Coenzyme A binding pocket [chemical binding]; other site 670307004053 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 670307004054 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 670307004055 phosphate binding site [ion binding]; other site 670307004056 Cyclophilin-like; Region: Cyclophil_like; cl17583 670307004057 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 670307004058 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 670307004059 dimer interface [polypeptide binding]; other site 670307004060 active site 670307004061 acyl carrier protein; Provisional; Region: acpP; PRK00982 670307004062 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 670307004063 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 670307004064 acyl-activating enzyme (AAE) consensus motif; other site 670307004065 putative AMP binding site [chemical binding]; other site 670307004066 putative active site [active] 670307004067 putative CoA binding site [chemical binding]; other site 670307004068 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 670307004069 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 670307004070 active site 670307004071 HIGH motif; other site 670307004072 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 670307004073 KMSKS motif; other site 670307004074 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 670307004075 tRNA binding surface [nucleotide binding]; other site 670307004076 anticodon binding site; other site 670307004077 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 670307004078 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 670307004079 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 670307004080 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 670307004081 active site 670307004082 HIGH motif; other site 670307004083 nucleotide binding site [chemical binding]; other site 670307004084 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 670307004085 active site 670307004086 KMSKS motif; other site 670307004087 NAD synthetase; Provisional; Region: PRK13981 670307004088 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 670307004089 multimer interface [polypeptide binding]; other site 670307004090 active site 670307004091 catalytic triad [active] 670307004092 protein interface 1 [polypeptide binding]; other site 670307004093 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 670307004094 homodimer interface [polypeptide binding]; other site 670307004095 NAD binding pocket [chemical binding]; other site 670307004096 ATP binding pocket [chemical binding]; other site 670307004097 Mg binding site [ion binding]; other site 670307004098 active-site loop [active] 670307004099 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 670307004100 Ligand Binding Site [chemical binding]; other site 670307004101 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 670307004102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307004103 NAD(P) binding site [chemical binding]; other site 670307004104 active site 670307004105 glutathione reductase; Validated; Region: PRK06116 670307004106 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 670307004107 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307004108 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 670307004109 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 670307004110 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 670307004111 tetramer (dimer of dimers) interface [polypeptide binding]; other site 670307004112 active site 670307004113 dimer interface [polypeptide binding]; other site 670307004114 phosphoglycolate phosphatase; Provisional; Region: PRK13222 670307004115 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 670307004116 motif II; other site 670307004117 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 670307004118 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 670307004119 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 670307004120 methionine sulfoxide reductase A; Provisional; Region: PRK13014 670307004121 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 670307004122 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 670307004123 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 670307004124 catalytic residue [active] 670307004125 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 670307004126 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 670307004127 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 670307004128 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307004129 Walker A/P-loop; other site 670307004130 ATP binding site [chemical binding]; other site 670307004131 Q-loop/lid; other site 670307004132 ABC transporter signature motif; other site 670307004133 Walker B; other site 670307004134 D-loop; other site 670307004135 H-loop/switch region; other site 670307004136 threonine dehydratase; Provisional; Region: PRK07334 670307004137 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 670307004138 tetramer interface [polypeptide binding]; other site 670307004139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307004140 catalytic residue [active] 670307004141 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 670307004142 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 670307004143 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 670307004144 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 670307004145 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 670307004146 dimerization interface [polypeptide binding]; other site 670307004147 putative DNA binding site [nucleotide binding]; other site 670307004148 putative Zn2+ binding site [ion binding]; other site 670307004149 AsnC family; Region: AsnC_trans_reg; pfam01037 670307004150 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 670307004151 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 670307004152 putative C-terminal domain interface [polypeptide binding]; other site 670307004153 putative GSH binding site (G-site) [chemical binding]; other site 670307004154 putative dimer interface [polypeptide binding]; other site 670307004155 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 670307004156 putative N-terminal domain interface [polypeptide binding]; other site 670307004157 putative dimer interface [polypeptide binding]; other site 670307004158 putative substrate binding pocket (H-site) [chemical binding]; other site 670307004159 Staphylococcal nuclease homologues; Region: SNc; smart00318 670307004160 Catalytic site; other site 670307004161 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 670307004162 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307004163 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 670307004164 dimer interface [polypeptide binding]; other site 670307004165 phosphorylation site [posttranslational modification] 670307004166 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 670307004167 ATP binding site [chemical binding]; other site 670307004168 Mg2+ binding site [ion binding]; other site 670307004169 G-X-G motif; other site 670307004170 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 670307004171 catalytic motif [active] 670307004172 Catalytic residue [active] 670307004173 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 670307004174 catalytic motif [active] 670307004175 Catalytic residue [active] 670307004176 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 670307004177 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 670307004178 active site 670307004179 substrate binding site [chemical binding]; other site 670307004180 metal binding site [ion binding]; metal-binding site 670307004181 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 670307004182 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 670307004183 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 670307004184 FMN binding site [chemical binding]; other site 670307004185 active site 670307004186 catalytic residues [active] 670307004187 substrate binding site [chemical binding]; other site 670307004188 sulfite reductase subunit beta; Provisional; Region: PRK13504 670307004189 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 670307004190 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 670307004191 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 670307004192 Flavodoxin; Region: Flavodoxin_1; pfam00258 670307004193 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 670307004194 FAD binding pocket [chemical binding]; other site 670307004195 FAD binding motif [chemical binding]; other site 670307004196 catalytic residues [active] 670307004197 NAD binding pocket [chemical binding]; other site 670307004198 phosphate binding motif [ion binding]; other site 670307004199 beta-alpha-beta structure motif; other site 670307004200 PqqA family; Region: PqqA; cl15372 670307004201 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 670307004202 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 670307004203 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 670307004204 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 670307004205 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 670307004206 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 670307004207 FeS/SAM binding site; other site 670307004208 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 670307004209 Cytochrome c2 [Energy production and conversion]; Region: COG3474 670307004210 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 670307004211 catalytic center binding site [active] 670307004212 ATP binding site [chemical binding]; other site 670307004213 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 670307004214 aromatic arch; other site 670307004215 DCoH dimer interaction site [polypeptide binding]; other site 670307004216 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 670307004217 DCoH tetramer interaction site [polypeptide binding]; other site 670307004218 substrate binding site [chemical binding]; other site 670307004219 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 670307004220 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 670307004221 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 670307004222 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 670307004223 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 670307004224 NAD(P) binding pocket [chemical binding]; other site 670307004225 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 670307004226 ATP-grasp domain; Region: ATP-grasp_4; cl17255 670307004227 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 670307004228 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cd00545 670307004229 trimer interface I [polypeptide binding]; other site 670307004230 putative substrate binding pocket [chemical binding]; other site 670307004231 trimer interface II [polypeptide binding]; other site 670307004232 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 670307004233 ATP-grasp domain; Region: ATP-grasp_4; cl17255 670307004234 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 670307004235 formaldehyde-activating enzyme; Region: one_C_fae; TIGR03126 670307004236 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 670307004237 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 670307004238 active site 670307004239 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: COG1548; cl00668 670307004240 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 670307004241 Methyltransferase domain; Region: Methyltransf_32; pfam13679 670307004242 Methyltransferase domain; Region: Methyltransf_31; pfam13847 670307004243 Protein of unknown function (DUF447); Region: DUF447; pfam04289 670307004244 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 670307004245 nucleotide binding site [chemical binding]; other site 670307004246 substrate binding site [chemical binding]; other site 670307004247 Dihydroneopterin aldolase; Region: FolB; pfam02152 670307004248 active site 670307004249 hypothetical protein; Provisional; Region: PRK02227 670307004250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307004251 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 670307004252 Walker A/P-loop; other site 670307004253 ATP binding site [chemical binding]; other site 670307004254 Q-loop/lid; other site 670307004255 ABC transporter signature motif; other site 670307004256 Walker B; other site 670307004257 D-loop; other site 670307004258 H-loop/switch region; other site 670307004259 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 670307004260 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 670307004261 dimer interface [polypeptide binding]; other site 670307004262 conserved gate region; other site 670307004263 putative PBP binding loops; other site 670307004264 ABC-ATPase subunit interface; other site 670307004265 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 670307004266 substrate binding pocket [chemical binding]; other site 670307004267 membrane-bound complex binding site; other site 670307004268 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 670307004269 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 670307004270 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 670307004271 ligand binding site [chemical binding]; other site 670307004272 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 670307004273 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 670307004274 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 670307004275 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 670307004276 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 670307004277 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 670307004278 Walker A/P-loop; other site 670307004279 ATP binding site [chemical binding]; other site 670307004280 Q-loop/lid; other site 670307004281 ABC transporter signature motif; other site 670307004282 Walker B; other site 670307004283 D-loop; other site 670307004284 H-loop/switch region; other site 670307004285 ABC-2 type transporter; Region: ABC2_membrane; cl17235 670307004286 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 670307004287 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 670307004288 PqqA family; Region: PqqA; cl15372 670307004289 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 670307004290 nucleoside/Zn binding site; other site 670307004291 dimer interface [polypeptide binding]; other site 670307004292 catalytic motif [active] 670307004293 CTP synthetase; Validated; Region: pyrG; PRK05380 670307004294 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 670307004295 Catalytic site [active] 670307004296 active site 670307004297 UTP binding site [chemical binding]; other site 670307004298 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 670307004299 active site 670307004300 putative oxyanion hole; other site 670307004301 catalytic triad [active] 670307004302 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 670307004303 dihydrolipoamide succinyltransferase; Provisional; Region: PTZ00144 670307004304 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 670307004305 triosephosphate isomerase; Provisional; Region: PRK14565 670307004306 substrate binding site [chemical binding]; other site 670307004307 dimer interface [polypeptide binding]; other site 670307004308 catalytic triad [active] 670307004309 SurA N-terminal domain; Region: SurA_N_3; cl07813 670307004310 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 670307004311 anthranilate synthase component I; Provisional; Region: PRK13573 670307004312 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 670307004313 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 670307004314 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 670307004315 catalytic core [active] 670307004316 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 670307004317 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 670307004318 glutamine binding [chemical binding]; other site 670307004319 catalytic triad [active] 670307004320 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 670307004321 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 670307004322 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 670307004323 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 670307004324 active site 670307004325 substrate (anthranilate) binding pocket [chemical binding]; other site 670307004326 product (indole) binding pocket [chemical binding]; other site 670307004327 ribulose/triose binding site [chemical binding]; other site 670307004328 phosphate binding site [ion binding]; other site 670307004329 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 670307004330 trimer interface [polypeptide binding]; other site 670307004331 dimer interface [polypeptide binding]; other site 670307004332 putative active site [active] 670307004333 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 670307004334 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 670307004335 dimer interface [polypeptide binding]; other site 670307004336 putative functional site; other site 670307004337 putative MPT binding site; other site 670307004338 elongation factor P; Validated; Region: PRK00529 670307004339 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 670307004340 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 670307004341 RNA binding site [nucleotide binding]; other site 670307004342 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 670307004343 RNA binding site [nucleotide binding]; other site 670307004344 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 670307004345 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 670307004346 motif 1; other site 670307004347 dimer interface [polypeptide binding]; other site 670307004348 active site 670307004349 motif 2; other site 670307004350 motif 3; other site 670307004351 Uncharacterized conserved protein [Function unknown]; Region: COG3791 670307004352 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 670307004353 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 670307004354 FeS/SAM binding site; other site 670307004355 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 670307004356 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 670307004357 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 670307004358 putative [4Fe-4S] binding site [ion binding]; other site 670307004359 putative molybdopterin cofactor binding site [chemical binding]; other site 670307004360 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 670307004361 putative molybdopterin cofactor binding site; other site 670307004362 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 670307004363 RNA polymerase sigma factor; Provisional; Region: PRK12512 670307004364 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 670307004365 DNA binding residues [nucleotide binding] 670307004366 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 670307004367 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 670307004368 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 670307004369 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 670307004370 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 670307004371 dimer interface [polypeptide binding]; other site 670307004372 conserved gate region; other site 670307004373 putative PBP binding loops; other site 670307004374 ABC-ATPase subunit interface; other site 670307004375 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 670307004376 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 670307004377 dimer interface [polypeptide binding]; other site 670307004378 conserved gate region; other site 670307004379 putative PBP binding loops; other site 670307004380 ABC-ATPase subunit interface; other site 670307004381 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 670307004382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307004383 Walker A/P-loop; other site 670307004384 ATP binding site [chemical binding]; other site 670307004385 Q-loop/lid; other site 670307004386 ABC transporter signature motif; other site 670307004387 Walker B; other site 670307004388 D-loop; other site 670307004389 H-loop/switch region; other site 670307004390 TOBE domain; Region: TOBE_2; pfam08402 670307004391 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 670307004392 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 670307004393 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 670307004394 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 670307004395 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 670307004396 Response regulator receiver domain; Region: Response_reg; pfam00072 670307004397 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 670307004398 active site 670307004399 phosphorylation site [posttranslational modification] 670307004400 intermolecular recognition site; other site 670307004401 dimerization interface [polypeptide binding]; other site 670307004402 Methyltransferase domain; Region: Methyltransf_23; pfam13489 670307004403 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 670307004404 S-adenosylmethionine binding site [chemical binding]; other site 670307004405 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307004406 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 670307004407 dimer interface [polypeptide binding]; other site 670307004408 phosphorylation site [posttranslational modification] 670307004409 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 670307004410 ATP binding site [chemical binding]; other site 670307004411 Mg2+ binding site [ion binding]; other site 670307004412 G-X-G motif; other site 670307004413 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 670307004414 Response regulator receiver domain; Region: Response_reg; pfam00072 670307004415 active site 670307004416 phosphorylation site [posttranslational modification] 670307004417 intermolecular recognition site; other site 670307004418 dimerization interface [polypeptide binding]; other site 670307004419 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 670307004420 dimer interface [polypeptide binding]; other site 670307004421 phosphorylation site [posttranslational modification] 670307004422 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 670307004423 ATP binding site [chemical binding]; other site 670307004424 G-X-G motif; other site 670307004425 Response regulator receiver domain; Region: Response_reg; pfam00072 670307004426 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 670307004427 active site 670307004428 phosphorylation site [posttranslational modification] 670307004429 intermolecular recognition site; other site 670307004430 dimerization interface [polypeptide binding]; other site 670307004431 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 670307004432 KMSKS motif; other site 670307004433 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 670307004434 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 670307004435 NAD(P) binding site [chemical binding]; other site 670307004436 catalytic residues [active] 670307004437 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 670307004438 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl17426 670307004439 folate binding site [chemical binding]; other site 670307004440 NADP+ binding site [chemical binding]; other site 670307004441 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 670307004442 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 670307004443 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 670307004444 motif II; other site 670307004445 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 670307004446 glucosyltransferase MdoH; Provisional; Region: PRK05454 670307004447 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 670307004448 active site 670307004449 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 670307004450 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 670307004451 putative NAD(P) binding site [chemical binding]; other site 670307004452 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 670307004453 active site 670307004454 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307004455 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 670307004456 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 670307004457 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 670307004458 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 670307004459 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307004460 Walker A/P-loop; other site 670307004461 ATP binding site [chemical binding]; other site 670307004462 Q-loop/lid; other site 670307004463 ABC transporter signature motif; other site 670307004464 Walker B; other site 670307004465 D-loop; other site 670307004466 H-loop/switch region; other site 670307004467 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 670307004468 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 670307004469 S-adenosylmethionine binding site [chemical binding]; other site 670307004470 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 670307004471 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 670307004472 dimer interface [polypeptide binding]; other site 670307004473 active site 670307004474 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 670307004475 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 670307004476 substrate binding site [chemical binding]; other site 670307004477 oxyanion hole (OAH) forming residues; other site 670307004478 trimer interface [polypeptide binding]; other site 670307004479 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 670307004480 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 670307004481 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 670307004482 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 670307004483 active site 670307004484 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 670307004485 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 670307004486 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 670307004487 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 670307004488 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 670307004489 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 670307004490 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 670307004491 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 670307004492 active site 670307004493 catalytic residues [active] 670307004494 metal binding site [ion binding]; metal-binding site 670307004495 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 670307004496 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 670307004497 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 670307004498 Coenzyme A binding pocket [chemical binding]; other site 670307004499 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 670307004500 dimerization interface [polypeptide binding]; other site 670307004501 active site 670307004502 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 670307004503 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 670307004504 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 670307004505 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 670307004506 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 670307004507 substrate binding site [chemical binding]; other site 670307004508 oxyanion hole (OAH) forming residues; other site 670307004509 trimer interface [polypeptide binding]; other site 670307004510 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 670307004511 active site 670307004512 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 670307004513 23S rRNA interface [nucleotide binding]; other site 670307004514 L3 interface [polypeptide binding]; other site 670307004515 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 670307004516 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 670307004517 Methyltransferase domain; Region: Methyltransf_12; pfam08242 670307004518 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 670307004519 P63C domain; Region: P63C; pfam10546 670307004520 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 670307004521 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 670307004522 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 670307004523 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 670307004524 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 670307004525 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 670307004526 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 670307004527 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 670307004528 putative active site [active] 670307004529 putative metal binding site [ion binding]; other site 670307004530 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 670307004531 Chain length determinant protein; Region: Wzz; pfam02706 670307004532 AAA domain; Region: AAA_31; pfam13614 670307004533 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 670307004534 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 670307004535 SLBB domain; Region: SLBB; pfam10531 670307004536 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307004537 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 670307004538 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 670307004539 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 670307004540 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 670307004541 dimerization interface [polypeptide binding]; other site 670307004542 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 670307004543 Histidine kinase; Region: HisKA_3; pfam07730 670307004544 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 670307004545 ATP binding site [chemical binding]; other site 670307004546 Mg2+ binding site [ion binding]; other site 670307004547 G-X-G motif; other site 670307004548 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 670307004549 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 670307004550 active site 670307004551 phosphorylation site [posttranslational modification] 670307004552 intermolecular recognition site; other site 670307004553 dimerization interface [polypeptide binding]; other site 670307004554 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 670307004555 DNA binding residues [nucleotide binding] 670307004556 dimerization interface [polypeptide binding]; other site 670307004557 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 670307004558 putative hydrophobic ligand binding site [chemical binding]; other site 670307004559 protein interface [polypeptide binding]; other site 670307004560 gate; other site 670307004561 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 670307004562 Fe-S cluster binding site [ion binding]; other site 670307004563 active site 670307004564 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cl00891 670307004565 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 670307004566 E-class dimer interface [polypeptide binding]; other site 670307004567 P-class dimer interface [polypeptide binding]; other site 670307004568 active site 670307004569 Cu2+ binding site [ion binding]; other site 670307004570 Zn2+ binding site [ion binding]; other site 670307004571 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 670307004572 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 670307004573 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 670307004574 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307004575 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 670307004576 putative ADP-binding pocket [chemical binding]; other site 670307004577 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 670307004578 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 670307004579 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 670307004580 Predicted membrane protein [Function unknown]; Region: COG3212 670307004581 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 670307004582 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307004583 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 670307004584 active site 670307004585 phosphorylation site [posttranslational modification] 670307004586 intermolecular recognition site; other site 670307004587 dimerization interface [polypeptide binding]; other site 670307004588 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 670307004589 DNA binding site [nucleotide binding] 670307004590 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307004591 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 670307004592 ATP binding site [chemical binding]; other site 670307004593 Mg2+ binding site [ion binding]; other site 670307004594 G-X-G motif; other site 670307004595 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 670307004596 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 670307004597 MarR family; Region: MarR_2; pfam12802 670307004598 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 670307004599 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 670307004600 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 670307004601 TPR repeat; Region: TPR_11; pfam13414 670307004602 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 670307004603 binding surface 670307004604 TPR motif; other site 670307004605 TPR repeat; Region: TPR_11; pfam13414 670307004606 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 670307004607 TPR motif; other site 670307004608 binding surface 670307004609 TPR repeat; Region: TPR_11; pfam13414 670307004610 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 670307004611 binding surface 670307004612 TPR motif; other site 670307004613 TPR repeat; Region: TPR_11; pfam13414 670307004614 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 670307004615 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307004616 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307004617 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307004618 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307004619 Predicted secreted protein [Function unknown]; Region: COG5501 670307004620 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 670307004621 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 670307004622 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 670307004623 Moco binding site; other site 670307004624 metal coordination site [ion binding]; other site 670307004625 dimerization interface [polypeptide binding]; other site 670307004626 Cytochrome c; Region: Cytochrom_C; pfam00034 670307004627 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 670307004628 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 670307004629 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 670307004630 dimer interface [polypeptide binding]; other site 670307004631 active site 670307004632 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 670307004633 catalytic residues [active] 670307004634 substrate binding site [chemical binding]; other site 670307004635 aminopeptidase N; Provisional; Region: pepN; PRK14015 670307004636 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 670307004637 active site 670307004638 Zn binding site [ion binding]; other site 670307004639 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 670307004640 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307004641 dimer interface [polypeptide binding]; other site 670307004642 phosphorylation site [posttranslational modification] 670307004643 Heavy-metal resistance; Region: Metal_resist; pfam13801 670307004644 dimer interface [polypeptide binding]; other site 670307004645 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 670307004646 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307004647 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 670307004648 DNA binding residues [nucleotide binding] 670307004649 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 670307004650 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 670307004651 metal binding triad; other site 670307004652 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 670307004653 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 670307004654 metal binding triad; other site 670307004655 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 670307004656 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 670307004657 dimerization interface [polypeptide binding]; other site 670307004658 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 670307004659 dimer interface [polypeptide binding]; other site 670307004660 phosphorylation site [posttranslational modification] 670307004661 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 670307004662 ATP binding site [chemical binding]; other site 670307004663 Mg2+ binding site [ion binding]; other site 670307004664 G-X-G motif; other site 670307004665 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307004666 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 670307004667 active site 670307004668 phosphorylation site [posttranslational modification] 670307004669 intermolecular recognition site; other site 670307004670 dimerization interface [polypeptide binding]; other site 670307004671 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 670307004672 DNA binding site [nucleotide binding] 670307004673 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 670307004674 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 670307004675 protein binding site [polypeptide binding]; other site 670307004676 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 670307004677 protein binding site [polypeptide binding]; other site 670307004678 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 670307004679 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 670307004680 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 670307004681 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 670307004682 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 670307004683 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 670307004684 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 670307004685 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 670307004686 ATP binding site [chemical binding]; other site 670307004687 Mg2+ binding site [ion binding]; other site 670307004688 G-X-G motif; other site 670307004689 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307004690 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 670307004691 active site 670307004692 phosphorylation site [posttranslational modification] 670307004693 intermolecular recognition site; other site 670307004694 dimerization interface [polypeptide binding]; other site 670307004695 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 670307004696 DNA binding site [nucleotide binding] 670307004697 TIGR02594 family protein; Region: TIGR02594 670307004698 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 670307004699 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 670307004700 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 670307004701 Putative phage tail protein; Region: Phage-tail_3; pfam13550 670307004702 NlpC/P60 family; Region: NLPC_P60; cl17555 670307004703 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 670307004704 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 670307004705 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 670307004706 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 670307004707 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 670307004708 Phage-related minor tail protein [Function unknown]; Region: COG5281 670307004709 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 670307004710 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 670307004711 AIPR protein; Region: AIPR; pfam10592 670307004712 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 670307004713 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 670307004714 Phage major tail protein 2; Region: Phage_tail_2; cl11463 670307004715 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 670307004716 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 670307004717 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 670307004718 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 670307004719 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 670307004720 oligomerization interface [polypeptide binding]; other site 670307004721 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 670307004722 Phage capsid family; Region: Phage_capsid; pfam05065 670307004723 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 670307004724 Phage-related protein [Function unknown]; Region: COG4695 670307004725 Phage portal protein; Region: Phage_portal; pfam04860 670307004726 Uncharacterized conserved protein [Function unknown]; Region: COG5323 670307004727 Terminase-like family; Region: Terminase_6; pfam03237 670307004728 hypothetical protein; Provisional; Region: PRK05170 670307004729 Transglycosylase; Region: Transgly; pfam00912 670307004730 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 670307004731 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 670307004732 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 670307004733 Predicted integral membrane protein [Function unknown]; Region: COG5436 670307004734 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 670307004735 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 670307004736 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 670307004737 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 670307004738 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 670307004739 DnaA box-binding interface [nucleotide binding]; other site 670307004740 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 670307004741 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 670307004742 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 670307004743 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 670307004744 Cytochrome P450; Region: p450; cl12078 670307004745 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307004746 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 670307004747 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307004748 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 670307004749 ATP-NAD kinase; Region: NAD_kinase; pfam01513 670307004750 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 670307004751 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 670307004752 von Willebrand factor type A domain; Region: VWA_2; pfam13519 670307004753 metal ion-dependent adhesion site (MIDAS); other site 670307004754 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 670307004755 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 670307004756 substrate binding pocket [chemical binding]; other site 670307004757 membrane-bound complex binding site; other site 670307004758 hinge residues; other site 670307004759 cystathionine beta-lyase; Provisional; Region: PRK05967 670307004760 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 670307004761 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 670307004762 catalytic residue [active] 670307004763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 670307004764 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 670307004765 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307004766 potential protein location (hypothetical protein jgi_32278 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-R) 670307004767 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 670307004768 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 670307004769 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 670307004770 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 670307004771 nucleotide binding site [chemical binding]; other site 670307004772 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 670307004773 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 670307004774 active site 670307004775 DNA binding site [nucleotide binding] 670307004776 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 670307004777 DNA binding site [nucleotide binding] 670307004778 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 670307004779 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 670307004780 putative DNA binding site [nucleotide binding]; other site 670307004781 putative homodimer interface [polypeptide binding]; other site 670307004782 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 670307004783 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 670307004784 putative active site [active] 670307004785 heme pocket [chemical binding]; other site 670307004786 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 670307004787 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 670307004788 metal binding site [ion binding]; metal-binding site 670307004789 active site 670307004790 I-site; other site 670307004791 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 670307004792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 670307004793 Helix-turn-helix domain; Region: HTH_18; pfam12833 670307004794 ethanolamine permease; Region: 2A0305; TIGR00908 670307004795 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 670307004796 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 670307004797 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 670307004798 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 670307004799 S-adenosylmethionine binding site [chemical binding]; other site 670307004800 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 670307004801 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 670307004802 active site 670307004803 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 670307004804 active site 670307004805 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 670307004806 Uncharacterized conserved protein [Function unknown]; Region: COG3189 670307004807 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 670307004808 putative uracil binding site [chemical binding]; other site 670307004809 putative active site [active] 670307004810 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 670307004811 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 670307004812 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 670307004813 CPxP motif; other site 670307004814 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 670307004815 potential protein location (hypothetical protein jgi_32433 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-R) 670307004816 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 670307004817 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 670307004818 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 670307004819 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 670307004820 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 670307004821 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 670307004822 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 670307004823 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 670307004824 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 670307004825 DNA-binding site [nucleotide binding]; DNA binding site 670307004826 RNA-binding motif; other site 670307004827 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 670307004828 DNA-binding site [nucleotide binding]; DNA binding site 670307004829 RNA-binding motif; other site 670307004830 hypothetical protein; Provisional; Region: PRK07236 670307004831 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 670307004832 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 670307004833 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 670307004834 Active Sites [active] 670307004835 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 670307004836 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 670307004837 Active Sites [active] 670307004838 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 670307004839 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 670307004840 G1 box; other site 670307004841 putative GEF interaction site [polypeptide binding]; other site 670307004842 GTP/Mg2+ binding site [chemical binding]; other site 670307004843 Switch I region; other site 670307004844 G2 box; other site 670307004845 CysD dimerization site [polypeptide binding]; other site 670307004846 G3 box; other site 670307004847 Switch II region; other site 670307004848 G4 box; other site 670307004849 G5 box; other site 670307004850 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 670307004851 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 670307004852 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 670307004853 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 670307004854 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 670307004855 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 670307004856 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 670307004857 protein binding site [polypeptide binding]; other site 670307004858 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 670307004859 protein binding site [polypeptide binding]; other site 670307004860 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 670307004861 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 670307004862 NADP binding site [chemical binding]; other site 670307004863 putative substrate binding site [chemical binding]; other site 670307004864 active site 670307004865 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 670307004866 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 670307004867 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 670307004868 alphaNTD - beta interaction site [polypeptide binding]; other site 670307004869 alphaNTD homodimer interface [polypeptide binding]; other site 670307004870 alphaNTD - beta' interaction site [polypeptide binding]; other site 670307004871 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 670307004872 30S ribosomal protein S11; Validated; Region: PRK05309 670307004873 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 670307004874 30S ribosomal protein S13; Region: bact_S13; TIGR03631 670307004875 adenylate kinase; Reviewed; Region: adk; PRK00279 670307004876 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 670307004877 AMP-binding site [chemical binding]; other site 670307004878 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 670307004879 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 670307004880 SecY translocase; Region: SecY; pfam00344 670307004881 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 670307004882 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 670307004883 23S rRNA binding site [nucleotide binding]; other site 670307004884 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 670307004885 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 670307004886 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 670307004887 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 670307004888 23S rRNA interface [nucleotide binding]; other site 670307004889 L21e interface [polypeptide binding]; other site 670307004890 5S rRNA interface [nucleotide binding]; other site 670307004891 L27 interface [polypeptide binding]; other site 670307004892 L5 interface [polypeptide binding]; other site 670307004893 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 670307004894 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 670307004895 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 670307004896 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 670307004897 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 670307004898 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 670307004899 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 670307004900 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 670307004901 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 670307004902 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 670307004903 RNA binding site [nucleotide binding]; other site 670307004904 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 670307004905 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 670307004906 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 670307004907 putative translocon interaction site; other site 670307004908 23S rRNA interface [nucleotide binding]; other site 670307004909 signal recognition particle (SRP54) interaction site; other site 670307004910 L23 interface [polypeptide binding]; other site 670307004911 trigger factor interaction site; other site 670307004912 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 670307004913 23S rRNA interface [nucleotide binding]; other site 670307004914 5S rRNA interface [nucleotide binding]; other site 670307004915 putative antibiotic binding site [chemical binding]; other site 670307004916 L25 interface [polypeptide binding]; other site 670307004917 L27 interface [polypeptide binding]; other site 670307004918 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 670307004919 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 670307004920 G-X-X-G motif; other site 670307004921 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 670307004922 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 670307004923 putative translocon binding site; other site 670307004924 protein-rRNA interface [nucleotide binding]; other site 670307004925 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 670307004926 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 670307004927 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 670307004928 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 670307004929 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 670307004930 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 670307004931 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 670307004932 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 670307004933 elongation factor Tu; Reviewed; Region: PRK00049 670307004934 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 670307004935 G1 box; other site 670307004936 GEF interaction site [polypeptide binding]; other site 670307004937 GTP/Mg2+ binding site [chemical binding]; other site 670307004938 Switch I region; other site 670307004939 G2 box; other site 670307004940 G3 box; other site 670307004941 Switch II region; other site 670307004942 G4 box; other site 670307004943 G5 box; other site 670307004944 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 670307004945 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 670307004946 Antibiotic Binding Site [chemical binding]; other site 670307004947 elongation factor G; Reviewed; Region: PRK00007 670307004948 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 670307004949 G1 box; other site 670307004950 putative GEF interaction site [polypeptide binding]; other site 670307004951 GTP/Mg2+ binding site [chemical binding]; other site 670307004952 Switch I region; other site 670307004953 G2 box; other site 670307004954 G3 box; other site 670307004955 Switch II region; other site 670307004956 G4 box; other site 670307004957 G5 box; other site 670307004958 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 670307004959 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 670307004960 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 670307004961 30S ribosomal protein S7; Validated; Region: PRK05302 670307004962 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 670307004963 S17 interaction site [polypeptide binding]; other site 670307004964 S8 interaction site; other site 670307004965 16S rRNA interaction site [nucleotide binding]; other site 670307004966 streptomycin interaction site [chemical binding]; other site 670307004967 23S rRNA interaction site [nucleotide binding]; other site 670307004968 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 670307004969 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 670307004970 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 670307004971 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 670307004972 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 670307004973 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 670307004974 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 670307004975 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 670307004976 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 670307004977 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 670307004978 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 670307004979 DNA binding site [nucleotide binding] 670307004980 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 670307004981 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 670307004982 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 670307004983 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 670307004984 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 670307004985 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 670307004986 RPB12 interaction site [polypeptide binding]; other site 670307004987 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 670307004988 RPB1 interaction site [polypeptide binding]; other site 670307004989 RPB11 interaction site [polypeptide binding]; other site 670307004990 RPB10 interaction site [polypeptide binding]; other site 670307004991 RPB3 interaction site [polypeptide binding]; other site 670307004992 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 670307004993 peripheral dimer interface [polypeptide binding]; other site 670307004994 core dimer interface [polypeptide binding]; other site 670307004995 L10 interface [polypeptide binding]; other site 670307004996 L11 interface [polypeptide binding]; other site 670307004997 putative EF-Tu interaction site [polypeptide binding]; other site 670307004998 putative EF-G interaction site [polypeptide binding]; other site 670307004999 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 670307005000 23S rRNA interface [nucleotide binding]; other site 670307005001 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 670307005002 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 670307005003 mRNA/rRNA interface [nucleotide binding]; other site 670307005004 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 670307005005 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 670307005006 23S rRNA interface [nucleotide binding]; other site 670307005007 L7/L12 interface [polypeptide binding]; other site 670307005008 putative thiostrepton binding site; other site 670307005009 L25 interface [polypeptide binding]; other site 670307005010 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 670307005011 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 670307005012 putative homodimer interface [polypeptide binding]; other site 670307005013 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 670307005014 heterodimer interface [polypeptide binding]; other site 670307005015 homodimer interface [polypeptide binding]; other site 670307005016 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 670307005017 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 670307005018 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 670307005019 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 670307005020 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 670307005021 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 670307005022 apolar tunnel; other site 670307005023 heme binding site [chemical binding]; other site 670307005024 dimerization interface [polypeptide binding]; other site 670307005025 Predicted transcriptional regulator [Transcription]; Region: COG1959 670307005026 Transcriptional regulator; Region: Rrf2; cl17282 670307005027 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 670307005028 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 670307005029 FMN binding site [chemical binding]; other site 670307005030 substrate binding site [chemical binding]; other site 670307005031 putative catalytic residue [active] 670307005032 Predicted membrane protein [Function unknown]; Region: COG2261 670307005033 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 670307005034 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 670307005035 BNR repeat-like domain; Region: BNR_2; pfam13088 670307005036 P63C domain; Region: P63C; pfam10546 670307005037 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 670307005038 BNR repeat-like domain; Region: BNR_2; pfam13088 670307005039 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 670307005040 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 670307005041 N-terminal plug; other site 670307005042 ligand-binding site [chemical binding]; other site 670307005043 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 670307005044 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 670307005045 active site 670307005046 metal binding site [ion binding]; metal-binding site 670307005047 nudix motif; other site 670307005048 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 670307005049 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 670307005050 nucleotide binding site [chemical binding]; other site 670307005051 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 670307005052 chaperone protein DnaJ; Provisional; Region: PRK14299 670307005053 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 670307005054 HSP70 interaction site [polypeptide binding]; other site 670307005055 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 670307005056 substrate binding site [polypeptide binding]; other site 670307005057 dimer interface [polypeptide binding]; other site 670307005058 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 670307005059 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 670307005060 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 670307005061 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 670307005062 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307005063 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 670307005064 putative aminotransferase; Validated; Region: PRK07480 670307005065 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 670307005066 inhibitor-cofactor binding pocket; inhibition site 670307005067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307005068 catalytic residue [active] 670307005069 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 670307005070 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 670307005071 catalytic triad [active] 670307005072 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 670307005073 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 670307005074 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 670307005075 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 670307005076 NAD(P) binding site [chemical binding]; other site 670307005077 catalytic residues [active] 670307005078 succinic semialdehyde dehydrogenase; Region: PLN02278 670307005079 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 670307005080 tetramerization interface [polypeptide binding]; other site 670307005081 NAD(P) binding site [chemical binding]; other site 670307005082 catalytic residues [active] 670307005083 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 670307005084 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 670307005085 inhibitor-cofactor binding pocket; inhibition site 670307005086 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307005087 catalytic residue [active] 670307005088 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 670307005089 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 670307005090 inhibitor-cofactor binding pocket; inhibition site 670307005091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307005092 catalytic residue [active] 670307005093 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 670307005094 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 670307005095 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 670307005096 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 670307005097 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 670307005098 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 670307005099 hexamer interface [polypeptide binding]; other site 670307005100 ligand binding site [chemical binding]; other site 670307005101 putative active site [active] 670307005102 NAD(P) binding site [chemical binding]; other site 670307005103 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 670307005104 AsnC family; Region: AsnC_trans_reg; pfam01037 670307005105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 670307005106 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 670307005107 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307005108 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307005109 thiamine monophosphate kinase; Provisional; Region: PRK05731 670307005110 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 670307005111 ATP binding site [chemical binding]; other site 670307005112 dimerization interface [polypeptide binding]; other site 670307005113 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 670307005114 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 670307005115 homopentamer interface [polypeptide binding]; other site 670307005116 active site 670307005117 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 670307005118 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 670307005119 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 670307005120 dimerization interface [polypeptide binding]; other site 670307005121 active site 670307005122 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 670307005123 Lumazine binding domain; Region: Lum_binding; pfam00677 670307005124 Lumazine binding domain; Region: Lum_binding; pfam00677 670307005125 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 670307005126 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 670307005127 catalytic motif [active] 670307005128 Zn binding site [ion binding]; other site 670307005129 RibD C-terminal domain; Region: RibD_C; cl17279 670307005130 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 670307005131 ATP cone domain; Region: ATP-cone; pfam03477 670307005132 Predicted transcriptional regulators [Transcription]; Region: COG1733 670307005133 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 670307005134 dimerization interface [polypeptide binding]; other site 670307005135 putative DNA binding site [nucleotide binding]; other site 670307005136 putative Zn2+ binding site [ion binding]; other site 670307005137 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 670307005138 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 670307005139 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 670307005140 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 670307005141 dimer interface [polypeptide binding]; other site 670307005142 active site 670307005143 glycine-pyridoxal phosphate binding site [chemical binding]; other site 670307005144 folate binding site [chemical binding]; other site 670307005145 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 670307005146 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 670307005147 substrate-cofactor binding pocket; other site 670307005148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307005149 catalytic residue [active] 670307005150 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 670307005151 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 670307005152 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 670307005153 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 670307005154 substrate binding site [chemical binding]; other site 670307005155 oxyanion hole (OAH) forming residues; other site 670307005156 trimer interface [polypeptide binding]; other site 670307005157 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 670307005158 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 670307005159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 670307005160 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 670307005161 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307005162 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307005163 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 670307005164 dimer interface [polypeptide binding]; other site 670307005165 allosteric magnesium binding site [ion binding]; other site 670307005166 active site 670307005167 aspartate-rich active site metal binding site; other site 670307005168 Schiff base residues; other site 670307005169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 670307005170 NADH dehydrogenase; Validated; Region: PRK08183 670307005171 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 670307005172 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 670307005173 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 670307005174 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 670307005175 active site 670307005176 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 670307005177 TSCPD domain; Region: TSCPD; pfam12637 670307005178 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 670307005179 GIY-YIG motif/motif A; other site 670307005180 putative active site [active] 670307005181 putative metal binding site [ion binding]; other site 670307005182 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 670307005183 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 670307005184 putative MPT binding site; other site 670307005185 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 670307005186 methionine sulfoxide reductase B; Provisional; Region: PRK00222 670307005187 SelR domain; Region: SelR; pfam01641 670307005188 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 670307005189 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 670307005190 metal binding site [ion binding]; metal-binding site 670307005191 active site 670307005192 I-site; other site 670307005193 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 670307005194 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 670307005195 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307005196 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307005197 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 670307005198 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 670307005199 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 670307005200 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 670307005201 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 670307005202 Major Facilitator Superfamily; Region: MFS_1; pfam07690 670307005203 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 670307005204 putative substrate translocation pore; other site 670307005205 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 670307005206 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 670307005207 [4Fe-4S] binding site [ion binding]; other site 670307005208 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 670307005209 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 670307005210 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 670307005211 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 670307005212 molybdopterin cofactor binding site; other site 670307005213 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 670307005214 4Fe-4S binding domain; Region: Fer4; cl02805 670307005215 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 670307005216 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 670307005217 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 670307005218 Citrate transporter; Region: CitMHS; pfam03600 670307005219 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 670307005220 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 670307005221 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 670307005222 active site 670307005223 nucleophile elbow; other site 670307005224 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 670307005225 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 670307005226 Protein of unknown function, DUF393; Region: DUF393; pfam04134 670307005227 Lipase maturation factor; Region: LMF1; pfam06762 670307005228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307005229 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 670307005230 NAD(P) binding site [chemical binding]; other site 670307005231 active site 670307005232 FOG: CBS domain [General function prediction only]; Region: COG0517 670307005233 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_9; cd04622 670307005234 transketolase; Region: PLN02790 670307005235 Cupin domain; Region: Cupin_2; pfam07883 670307005236 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 670307005237 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 670307005238 metal ion-dependent adhesion site (MIDAS); other site 670307005239 Peptidase family M48; Region: Peptidase_M48; cl12018 670307005240 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 670307005241 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 670307005242 active site residue [active] 670307005243 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 670307005244 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 670307005245 Chromate transporter; Region: Chromate_transp; pfam02417 670307005246 Uncharacterized conserved protein [Function unknown]; Region: COG3391 670307005247 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 670307005248 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 670307005249 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 670307005250 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 670307005251 Magnesium ion binding site [ion binding]; other site 670307005252 2-isopropylmalate synthase; Validated; Region: PRK00915 670307005253 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 670307005254 active site 670307005255 catalytic residues [active] 670307005256 metal binding site [ion binding]; metal-binding site 670307005257 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 670307005258 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 670307005259 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 670307005260 NUDIX domain; Region: NUDIX; pfam00293 670307005261 nudix motif; other site 670307005262 ketol-acid reductoisomerase; Provisional; Region: PRK05479 670307005263 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 670307005264 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 670307005265 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 670307005266 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 670307005267 putative valine binding site [chemical binding]; other site 670307005268 dimer interface [polypeptide binding]; other site 670307005269 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 670307005270 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 670307005271 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 670307005272 putative C-terminal domain interface [polypeptide binding]; other site 670307005273 putative GSH binding site (G-site) [chemical binding]; other site 670307005274 putative dimer interface [polypeptide binding]; other site 670307005275 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 670307005276 putative N-terminal domain interface [polypeptide binding]; other site 670307005277 putative dimer interface [polypeptide binding]; other site 670307005278 putative substrate binding pocket (H-site) [chemical binding]; other site 670307005279 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 670307005280 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 670307005281 PYR/PP interface [polypeptide binding]; other site 670307005282 dimer interface [polypeptide binding]; other site 670307005283 TPP binding site [chemical binding]; other site 670307005284 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 670307005285 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 670307005286 TPP-binding site [chemical binding]; other site 670307005287 dimer interface [polypeptide binding]; other site 670307005288 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 670307005289 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 670307005290 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 670307005291 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 670307005292 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 670307005293 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 670307005294 Walker A/P-loop; other site 670307005295 ATP binding site [chemical binding]; other site 670307005296 Q-loop/lid; other site 670307005297 ABC transporter signature motif; other site 670307005298 Walker B; other site 670307005299 D-loop; other site 670307005300 H-loop/switch region; other site 670307005301 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 670307005302 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 670307005303 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 670307005304 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 670307005305 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 670307005306 Walker A; other site 670307005307 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 670307005308 Switch II region; other site 670307005309 G4 box; other site 670307005310 G5 box; other site 670307005311 amino acid transporter; Region: 2A0306; TIGR00909 670307005312 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 670307005313 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 670307005314 adenylosuccinate lyase; Provisional; Region: PRK07492 670307005315 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 670307005316 tetramer interface [polypeptide binding]; other site 670307005317 active site 670307005318 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 670307005319 active site 670307005320 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 670307005321 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 670307005322 Ligand binding site; other site 670307005323 Putative Catalytic site; other site 670307005324 DXD motif; other site 670307005325 Predicted membrane protein [Function unknown]; Region: COG2246 670307005326 GtrA-like protein; Region: GtrA; pfam04138 670307005327 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 670307005328 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 670307005329 dimerization interface [polypeptide binding]; other site 670307005330 metal binding site [ion binding]; metal-binding site 670307005331 Serine hydrolase; Region: Ser_hydrolase; pfam06821 670307005332 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 670307005333 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 670307005334 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 670307005335 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 670307005336 ATP binding site [chemical binding]; other site 670307005337 active site 670307005338 substrate binding site [chemical binding]; other site 670307005339 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 670307005340 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 670307005341 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 670307005342 putative active site [active] 670307005343 catalytic triad [active] 670307005344 Domain of unknown function (DUF305); Region: DUF305; cl17794 670307005345 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 670307005346 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 670307005347 dimerization interface [polypeptide binding]; other site 670307005348 ATP binding site [chemical binding]; other site 670307005349 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 670307005350 dimerization interface [polypeptide binding]; other site 670307005351 ATP binding site [chemical binding]; other site 670307005352 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 670307005353 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 670307005354 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 670307005355 PqqA family; Region: PqqA; cl15372 670307005356 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 670307005357 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 670307005358 putative GSH binding site [chemical binding]; other site 670307005359 catalytic residues [active] 670307005360 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 670307005361 Protein export membrane protein; Region: SecD_SecF; cl14618 670307005362 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307005363 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307005364 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307005365 Paraquat-inducible protein A; Region: PqiA; pfam04403 670307005366 Paraquat-inducible protein A; Region: PqiA; pfam04403 670307005367 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 670307005368 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 670307005369 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 670307005370 RNA binding surface [nucleotide binding]; other site 670307005371 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 670307005372 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 670307005373 isocitrate dehydrogenase; Validated; Region: PRK08299 670307005374 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 670307005375 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 670307005376 motif 1; other site 670307005377 active site 670307005378 motif 2; other site 670307005379 motif 3; other site 670307005380 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 670307005381 recombinase A; Provisional; Region: recA; PRK09354 670307005382 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 670307005383 hexamer interface [polypeptide binding]; other site 670307005384 Walker A motif; other site 670307005385 ATP binding site [chemical binding]; other site 670307005386 Walker B motif; other site 670307005387 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 670307005388 PAS domain; Region: PAS_9; pfam13426 670307005389 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 670307005390 putative active site [active] 670307005391 heme pocket [chemical binding]; other site 670307005392 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 670307005393 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 670307005394 dimer interface [polypeptide binding]; other site 670307005395 phosphorylation site [posttranslational modification] 670307005396 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 670307005397 ATP binding site [chemical binding]; other site 670307005398 Mg2+ binding site [ion binding]; other site 670307005399 G-X-G motif; other site 670307005400 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 670307005401 Response regulator receiver domain; Region: Response_reg; pfam00072 670307005402 active site 670307005403 phosphorylation site [posttranslational modification] 670307005404 intermolecular recognition site; other site 670307005405 dimerization interface [polypeptide binding]; other site 670307005406 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 670307005407 GIY-YIG motif/motif A; other site 670307005408 active site 670307005409 catalytic site [active] 670307005410 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 670307005411 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 670307005412 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 670307005413 Walker A motif; other site 670307005414 ATP binding site [chemical binding]; other site 670307005415 Walker B motif; other site 670307005416 arginine finger; other site 670307005417 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 670307005418 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 670307005419 active site 670307005420 dimer interface [polypeptide binding]; other site 670307005421 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 670307005422 Ligand Binding Site [chemical binding]; other site 670307005423 Molecular Tunnel; other site 670307005424 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307005425 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307005426 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 670307005427 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 670307005428 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307005429 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307005430 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 670307005431 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 670307005432 putative substrate translocation pore; other site 670307005433 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 670307005434 Patatin phospholipase; Region: DUF3734; pfam12536 670307005435 acetoacetate decarboxylase; Provisional; Region: PRK02265 670307005436 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 670307005437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307005438 NAD(P) binding site [chemical binding]; other site 670307005439 active site 670307005440 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 670307005441 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 670307005442 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 670307005443 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 670307005444 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 670307005445 putative metal binding site; other site 670307005446 Major Facilitator Superfamily; Region: MFS_1; pfam07690 670307005447 PRC-barrel domain; Region: PRC; pfam05239 670307005448 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 670307005449 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 670307005450 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 670307005451 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 670307005452 putative active site [active] 670307005453 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 670307005454 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 670307005455 Protein of unknown function (DUF423); Region: DUF423; cl01008 670307005456 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 670307005457 active site 670307005458 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 670307005459 active site 670307005460 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 670307005461 active site 670307005462 DNA binding site [nucleotide binding] 670307005463 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 670307005464 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 670307005465 active site 670307005466 (T/H)XGH motif; other site 670307005467 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 670307005468 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307005469 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 670307005470 putative switch regulator; other site 670307005471 non-specific DNA interactions [nucleotide binding]; other site 670307005472 DNA binding site [nucleotide binding] 670307005473 sequence specific DNA binding site [nucleotide binding]; other site 670307005474 putative cAMP binding site [chemical binding]; other site 670307005475 PAP2 superfamily; Region: PAP2_3; pfam14378 670307005476 active site 670307005477 DNA gyrase, A subunit; Region: gyrA; TIGR01063 670307005478 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 670307005479 CAP-like domain; other site 670307005480 active site 670307005481 primary dimer interface [polypeptide binding]; other site 670307005482 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 670307005483 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 670307005484 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 670307005485 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 670307005486 Cytochrome c; Region: Cytochrom_C; cl11414 670307005487 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 670307005488 Cation efflux family; Region: Cation_efflux; pfam01545 670307005489 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 670307005490 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 670307005491 dimer interface [polypeptide binding]; other site 670307005492 ssDNA binding site [nucleotide binding]; other site 670307005493 tetramer (dimer of dimers) interface [polypeptide binding]; other site 670307005494 Flagellin N-methylase; Region: FliB; pfam03692 670307005495 Uncharacterized conserved protein [Function unknown]; Region: COG3791 670307005496 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 670307005497 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 670307005498 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 670307005499 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 670307005500 P63C domain; Region: P63C; pfam10546 670307005501 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 670307005502 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 670307005503 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 670307005504 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 670307005505 putative active site [active] 670307005506 putative NTP binding site [chemical binding]; other site 670307005507 putative nucleic acid binding site [nucleotide binding]; other site 670307005508 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 670307005509 active site clefts [active] 670307005510 zinc binding site [ion binding]; other site 670307005511 dimer interface [polypeptide binding]; other site 670307005512 short chain dehydrogenase; Provisional; Region: PRK06914 670307005513 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 670307005514 NADP binding site [chemical binding]; other site 670307005515 active site 670307005516 steroid binding site; other site 670307005517 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 670307005518 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 670307005519 Major Facilitator Superfamily; Region: MFS_1; pfam07690 670307005520 putative substrate translocation pore; other site 670307005521 TonB C terminal; Region: TonB_2; pfam13103 670307005522 Protein of unknown function DUF72; Region: DUF72; pfam01904 670307005523 Predicted thioesterase [General function prediction only]; Region: COG5496 670307005524 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 670307005525 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307005526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 670307005527 TPR repeat; Region: TPR_11; pfam13414 670307005528 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 670307005529 TPR motif; other site 670307005530 TPR repeat; Region: TPR_11; pfam13414 670307005531 binding surface 670307005532 TPR repeat; Region: TPR_11; pfam13414 670307005533 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 670307005534 binding surface 670307005535 TPR motif; other site 670307005536 TPR repeat; Region: TPR_11; pfam13414 670307005537 TPR repeat; Region: TPR_11; pfam13414 670307005538 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 670307005539 TPR motif; other site 670307005540 binding surface 670307005541 TPR repeat; Region: TPR_11; pfam13414 670307005542 TPR repeat; Region: TPR_11; pfam13414 670307005543 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 670307005544 binding surface 670307005545 TPR motif; other site 670307005546 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 670307005547 active site 670307005548 Uncharacterized conserved protein [Function unknown]; Region: COG0062 670307005549 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 670307005550 putative substrate binding site [chemical binding]; other site 670307005551 putative ATP binding site [chemical binding]; other site 670307005552 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 670307005553 Nitrogen regulatory protein P-II; Region: P-II; smart00938 670307005554 glutamine synthetase; Provisional; Region: glnA; PRK09469 670307005555 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 670307005556 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 670307005557 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 670307005558 putative substrate translocation pore; other site 670307005559 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 670307005560 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 670307005561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307005562 homodimer interface [polypeptide binding]; other site 670307005563 catalytic residue [active] 670307005564 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 670307005565 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 670307005566 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 670307005567 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 670307005568 NodB motif; other site 670307005569 active site 670307005570 catalytic site [active] 670307005571 metal binding site [ion binding]; metal-binding site 670307005572 potential protein location (hypothetical protein jgi_34103 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-L) 670307005573 lipoate-protein ligase B; Provisional; Region: PRK14341 670307005574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307005575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307005576 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 670307005577 dimerization interface [polypeptide binding]; other site 670307005578 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 670307005579 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 670307005580 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 670307005581 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 670307005582 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 670307005583 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 670307005584 carboxyltransferase (CT) interaction site; other site 670307005585 biotinylation site [posttranslational modification]; other site 670307005586 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 670307005587 Recombination protein O N terminal; Region: RecO_N; pfam11967 670307005588 Recombination protein O C terminal; Region: RecO_C; pfam02565 670307005589 GTPase Era; Reviewed; Region: era; PRK00089 670307005590 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 670307005591 G1 box; other site 670307005592 GTP/Mg2+ binding site [chemical binding]; other site 670307005593 Switch I region; other site 670307005594 G2 box; other site 670307005595 Switch II region; other site 670307005596 G3 box; other site 670307005597 G4 box; other site 670307005598 G5 box; other site 670307005599 KH domain; Region: KH_2; pfam07650 670307005600 ribonuclease III; Reviewed; Region: rnc; PRK00102 670307005601 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 670307005602 dimerization interface [polypeptide binding]; other site 670307005603 active site 670307005604 metal binding site [ion binding]; metal-binding site 670307005605 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 670307005606 dsRNA binding site [nucleotide binding]; other site 670307005607 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 670307005608 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 670307005609 Catalytic site [active] 670307005610 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 670307005611 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 670307005612 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 670307005613 active site 670307005614 hydrophilic channel; other site 670307005615 dimerization interface [polypeptide binding]; other site 670307005616 catalytic residues [active] 670307005617 active site lid [active] 670307005618 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 670307005619 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 670307005620 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 670307005621 Zn2+ binding site [ion binding]; other site 670307005622 Mg2+ binding site [ion binding]; other site 670307005623 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 670307005624 synthetase active site [active] 670307005625 NTP binding site [chemical binding]; other site 670307005626 metal binding site [ion binding]; metal-binding site 670307005627 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 670307005628 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 670307005629 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 670307005630 Uncharacterized conserved protein [Function unknown]; Region: COG1432 670307005631 LabA_like proteins; Region: LabA; cd10911 670307005632 putative metal binding site [ion binding]; other site 670307005633 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 670307005634 Fe-S cluster binding site [ion binding]; other site 670307005635 DNA binding site [nucleotide binding] 670307005636 active site 670307005637 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 670307005638 catalytic triad [active] 670307005639 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 670307005640 SmpB-tmRNA interface; other site 670307005641 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 670307005642 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 670307005643 dimer interface [polypeptide binding]; other site 670307005644 active site 670307005645 catalytic residue [active] 670307005646 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 670307005647 N-acetyl-D-glucosamine binding site [chemical binding]; other site 670307005648 catalytic residue [active] 670307005649 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 670307005650 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 670307005651 Uncharacterized conserved protein [Function unknown]; Region: COG3743 670307005652 Uncharacterized conserved protein [Function unknown]; Region: COG3743 670307005653 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 670307005654 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 670307005655 ligand binding site [chemical binding]; other site 670307005656 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 670307005657 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 670307005658 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 670307005659 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 670307005660 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 670307005661 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307005662 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307005663 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 670307005664 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 670307005665 CsbD-like; Region: CsbD; cl17424 670307005666 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307005667 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 670307005668 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307005669 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 670307005670 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 670307005671 putative substrate translocation pore; other site 670307005672 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 670307005673 active site 670307005674 phosphorylation site [posttranslational modification] 670307005675 intermolecular recognition site; other site 670307005676 dimerization interface [polypeptide binding]; other site 670307005677 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 670307005678 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 670307005679 active site 670307005680 phosphorylation site [posttranslational modification] 670307005681 intermolecular recognition site; other site 670307005682 dimerization interface [polypeptide binding]; other site 670307005683 Predicted integral membrane protein [Function unknown]; Region: COG5615 670307005684 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307005685 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 670307005686 ligand binding site [chemical binding]; other site 670307005687 flexible hinge region; other site 670307005688 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 670307005689 putative switch regulator; other site 670307005690 non-specific DNA interactions [nucleotide binding]; other site 670307005691 DNA binding site [nucleotide binding] 670307005692 sequence specific DNA binding site [nucleotide binding]; other site 670307005693 putative cAMP binding site [chemical binding]; other site 670307005694 NnrS protein; Region: NnrS; pfam05940 670307005695 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 670307005696 putative deacylase active site [active] 670307005697 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 670307005698 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 670307005699 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 670307005700 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 670307005701 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 670307005702 HD domain; Region: HD_4; pfam13328 670307005703 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 670307005704 putative acyl-acceptor binding pocket; other site 670307005705 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 670307005706 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 670307005707 S-adenosylmethionine binding site [chemical binding]; other site 670307005708 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 670307005709 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 670307005710 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 670307005711 DXD motif; other site 670307005712 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 670307005713 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 670307005714 substrate binding pocket [chemical binding]; other site 670307005715 membrane-bound complex binding site; other site 670307005716 hinge residues; other site 670307005717 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 670307005718 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 670307005719 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 670307005720 putative active site [active] 670307005721 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 670307005722 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 670307005723 catalytic residues [active] 670307005724 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 670307005725 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 670307005726 active site 670307005727 Dienelactone hydrolase family; Region: DLH; pfam01738 670307005728 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 670307005729 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 670307005730 active site 670307005731 substrate-binding site [chemical binding]; other site 670307005732 metal-binding site [ion binding] 670307005733 ATP binding site [chemical binding]; other site 670307005734 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307005735 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 670307005736 active site 670307005737 phosphorylation site [posttranslational modification] 670307005738 intermolecular recognition site; other site 670307005739 dimerization interface [polypeptide binding]; other site 670307005740 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 670307005741 DNA binding site [nucleotide binding] 670307005742 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 670307005743 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307005744 HAMP domain; Region: HAMP; pfam00672 670307005745 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 670307005746 dimer interface [polypeptide binding]; other site 670307005747 phosphorylation site [posttranslational modification] 670307005748 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 670307005749 ATP binding site [chemical binding]; other site 670307005750 Mg2+ binding site [ion binding]; other site 670307005751 G-X-G motif; other site 670307005752 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 670307005753 Hpr binding site; other site 670307005754 active site 670307005755 homohexamer subunit interaction site [polypeptide binding]; other site 670307005756 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 670307005757 active pocket/dimerization site; other site 670307005758 active site 670307005759 phosphorylation site [posttranslational modification] 670307005760 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 670307005761 dimerization domain swap beta strand [polypeptide binding]; other site 670307005762 regulatory protein interface [polypeptide binding]; other site 670307005763 active site 670307005764 regulatory phosphorylation site [posttranslational modification]; other site 670307005765 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 670307005766 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 670307005767 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 670307005768 Virulence protein [General function prediction only]; Region: COG3943 670307005769 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 670307005770 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 670307005771 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 670307005772 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 670307005773 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 670307005774 homotetramer interface [polypeptide binding]; other site 670307005775 ligand binding site [chemical binding]; other site 670307005776 catalytic site [active] 670307005777 NAD binding site [chemical binding]; other site 670307005778 PAS fold; Region: PAS_7; pfam12860 670307005779 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 670307005780 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 670307005781 dimer interface [polypeptide binding]; other site 670307005782 phosphorylation site [posttranslational modification] 670307005783 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 670307005784 ATP binding site [chemical binding]; other site 670307005785 Mg2+ binding site [ion binding]; other site 670307005786 G-X-G motif; other site 670307005787 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 670307005788 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 670307005789 Phosphotransferase enzyme family; Region: APH; pfam01636 670307005790 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 670307005791 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 670307005792 Substrate binding site; other site 670307005793 metal-binding site 670307005794 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 670307005795 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 670307005796 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 670307005797 Family description; Region: UvrD_C_2; pfam13538 670307005798 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 670307005799 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 670307005800 catalytic residues [active] 670307005801 Isochorismatase family; Region: Isochorismatase; pfam00857 670307005802 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 670307005803 catalytic triad [active] 670307005804 conserved cis-peptide bond; other site 670307005805 Protein of unknown function (DUF779); Region: DUF779; pfam05610 670307005806 Protein of unknown function (DUF779); Region: DUF779; cl01432 670307005807 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 670307005808 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 670307005809 NAD(P) binding site [chemical binding]; other site 670307005810 catalytic residues [active] 670307005811 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 670307005812 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 670307005813 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 670307005814 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 670307005815 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 670307005816 substrate binding site [chemical binding]; other site 670307005817 active site 670307005818 catalytic residues [active] 670307005819 heterodimer interface [polypeptide binding]; other site 670307005820 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 670307005821 putative active site [active] 670307005822 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 670307005823 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 670307005824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307005825 catalytic residue [active] 670307005826 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 670307005827 active site 670307005828 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 670307005829 IHF dimer interface [polypeptide binding]; other site 670307005830 IHF - DNA interface [nucleotide binding]; other site 670307005831 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 670307005832 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 670307005833 tandem repeat interface [polypeptide binding]; other site 670307005834 oligomer interface [polypeptide binding]; other site 670307005835 active site residues [active] 670307005836 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 670307005837 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 670307005838 RNA binding site [nucleotide binding]; other site 670307005839 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 670307005840 RNA binding site [nucleotide binding]; other site 670307005841 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 670307005842 RNA binding site [nucleotide binding]; other site 670307005843 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 670307005844 RNA binding site [nucleotide binding]; other site 670307005845 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 670307005846 RNA binding site [nucleotide binding]; other site 670307005847 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 670307005848 RNA binding site [nucleotide binding]; other site 670307005849 cytidylate kinase; Provisional; Region: cmk; PRK00023 670307005850 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 670307005851 CMP-binding site; other site 670307005852 The sites determining sugar specificity; other site 670307005853 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 670307005854 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 670307005855 hinge; other site 670307005856 active site 670307005857 TIGR02300 family protein; Region: FYDLN_acid 670307005858 carbon starvation protein A; Provisional; Region: PRK15015 670307005859 Carbon starvation protein CstA; Region: CstA; pfam02554 670307005860 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 670307005861 Protein of unknown function (DUF466); Region: DUF466; pfam04328 670307005862 ABC transporter ATPase component; Reviewed; Region: PRK11147 670307005863 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 670307005864 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 670307005865 PqqA family; Region: PqqA; cl15372 670307005866 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 670307005867 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 670307005868 putative dimer interface [polypeptide binding]; other site 670307005869 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 670307005870 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 670307005871 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 670307005872 putative NAD(P) binding site [chemical binding]; other site 670307005873 active site 670307005874 multiple promoter invertase; Provisional; Region: mpi; PRK13413 670307005875 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 670307005876 catalytic residues [active] 670307005877 catalytic nucleophile [active] 670307005878 Presynaptic Site I dimer interface [polypeptide binding]; other site 670307005879 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 670307005880 Synaptic Flat tetramer interface [polypeptide binding]; other site 670307005881 Synaptic Site I dimer interface [polypeptide binding]; other site 670307005882 DNA binding site [nucleotide binding] 670307005883 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 670307005884 DNA-binding interface [nucleotide binding]; DNA binding site 670307005885 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 670307005886 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 670307005887 DNA binding site [nucleotide binding] 670307005888 active site 670307005889 Int/Topo IB signature motif; other site 670307005890 catalytic residues [active] 670307005891 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 670307005892 Predicted GTPases [General function prediction only]; Region: COG1162 670307005893 RNA binding site [nucleotide binding]; other site 670307005894 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 670307005895 GTPase/Zn-binding domain interface [polypeptide binding]; other site 670307005896 GTP/Mg2+ binding site [chemical binding]; other site 670307005897 G4 box; other site 670307005898 G5 box; other site 670307005899 G1 box; other site 670307005900 Switch I region; other site 670307005901 G2 box; other site 670307005902 G3 box; other site 670307005903 Switch II region; other site 670307005904 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 670307005905 oligomerisation interface [polypeptide binding]; other site 670307005906 mobile loop; other site 670307005907 roof hairpin; other site 670307005908 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 670307005909 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 670307005910 ring oligomerisation interface [polypeptide binding]; other site 670307005911 ATP/Mg binding site [chemical binding]; other site 670307005912 stacking interactions; other site 670307005913 hinge regions; other site 670307005914 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 670307005915 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 670307005916 DNA-binding site [nucleotide binding]; DNA binding site 670307005917 RNA-binding motif; other site 670307005918 Tetratricopeptide repeat; Region: TPR_12; pfam13424 670307005919 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 670307005920 DNA binding site [nucleotide binding] 670307005921 active site 670307005922 Int/Topo IB signature motif; other site 670307005923 PRC-barrel domain; Region: PRC; pfam05239 670307005924 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 670307005925 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 670307005926 binding surface 670307005927 TPR motif; other site 670307005928 TPR repeat; Region: TPR_11; pfam13414 670307005929 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 670307005930 Response regulator receiver domain; Region: Response_reg; pfam00072 670307005931 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 670307005932 active site 670307005933 phosphorylation site [posttranslational modification] 670307005934 intermolecular recognition site; other site 670307005935 dimerization interface [polypeptide binding]; other site 670307005936 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 670307005937 CheB methylesterase; Region: CheB_methylest; pfam01339 670307005938 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 670307005939 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 670307005940 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 670307005941 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 670307005942 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 670307005943 dimer interface [polypeptide binding]; other site 670307005944 phosphorylation site [posttranslational modification] 670307005945 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 670307005946 ATP binding site [chemical binding]; other site 670307005947 Mg2+ binding site [ion binding]; other site 670307005948 G-X-G motif; other site 670307005949 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 670307005950 Response regulator receiver domain; Region: Response_reg; pfam00072 670307005951 active site 670307005952 phosphorylation site [posttranslational modification] 670307005953 intermolecular recognition site; other site 670307005954 dimerization interface [polypeptide binding]; other site 670307005955 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 670307005956 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 670307005957 active site 670307005958 phosphorylation site [posttranslational modification] 670307005959 intermolecular recognition site; other site 670307005960 dimerization interface [polypeptide binding]; other site 670307005961 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 670307005962 DNA binding residues [nucleotide binding] 670307005963 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 670307005964 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 670307005965 S-adenosylmethionine binding site [chemical binding]; other site 670307005966 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 670307005967 putative FMN binding site [chemical binding]; other site 670307005968 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 670307005969 HAMP domain; Region: HAMP; pfam00672 670307005970 dimerization interface [polypeptide binding]; other site 670307005971 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 670307005972 Histidine kinase; Region: HisKA_3; pfam07730 670307005973 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 670307005974 ATP binding site [chemical binding]; other site 670307005975 Mg2+ binding site [ion binding]; other site 670307005976 G-X-G motif; other site 670307005977 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 670307005978 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 670307005979 active site 670307005980 phosphorylation site [posttranslational modification] 670307005981 intermolecular recognition site; other site 670307005982 dimerization interface [polypeptide binding]; other site 670307005983 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 670307005984 DNA binding residues [nucleotide binding] 670307005985 dimerization interface [polypeptide binding]; other site 670307005986 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 670307005987 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 670307005988 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 670307005989 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 670307005990 Low-spin heme binding site [chemical binding]; other site 670307005991 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 670307005992 D-pathway; other site 670307005993 Binuclear center (active site) [active] 670307005994 K-pathway; other site 670307005995 Putative proton exit pathway; other site 670307005996 Putative water exit pathway; other site 670307005997 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 670307005998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307005999 NADH(P)-binding; Region: NAD_binding_10; pfam13460 670307006000 NAD(P) binding site [chemical binding]; other site 670307006001 active site 670307006002 Cupin domain; Region: Cupin_2; pfam07883 670307006003 Uncharacterized conserved protein [Function unknown]; Region: COG4544 670307006004 DNA Polymerase Y-family; Region: PolY_like; cd03468 670307006005 active site 670307006006 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 670307006007 DNA binding site [nucleotide binding] 670307006008 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 670307006009 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 670307006010 putative active site [active] 670307006011 putative PHP Thumb interface [polypeptide binding]; other site 670307006012 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 670307006013 generic binding surface II; other site 670307006014 generic binding surface I; other site 670307006015 Amino acid permease; Region: AA_permease_2; pfam13520 670307006016 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 670307006017 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_alpha; cd01715 670307006018 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 670307006019 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 670307006020 4Fe-4S binding domain; Region: Fer4; cl02805 670307006021 Cysteine-rich domain; Region: CCG; pfam02754 670307006022 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 670307006023 Ligand binding site [chemical binding]; other site 670307006024 Electron transfer flavoprotein domain; Region: ETF; pfam01012 670307006025 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 670307006026 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 670307006027 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 670307006028 FMN binding site [chemical binding]; other site 670307006029 active site 670307006030 homodimer interface [polypeptide binding]; other site 670307006031 putative catalytic residue [active] 670307006032 4Fe-4S cluster binding site [ion binding]; other site 670307006033 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 670307006034 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 670307006035 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 670307006036 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 670307006037 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 670307006038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307006039 homodimer interface [polypeptide binding]; other site 670307006040 catalytic residue [active] 670307006041 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 670307006042 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 670307006043 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 670307006044 dimer interface [polypeptide binding]; other site 670307006045 Trp docking motif [polypeptide binding]; other site 670307006046 active site 670307006047 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 670307006048 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 670307006049 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 670307006050 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 670307006051 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 670307006052 substrate binding pocket [chemical binding]; other site 670307006053 membrane-bound complex binding site; other site 670307006054 hinge residues; other site 670307006055 Cytochrome c; Region: Cytochrom_C; cl11414 670307006056 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 670307006057 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 670307006058 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 670307006059 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 670307006060 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 670307006061 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 670307006062 active site residue [active] 670307006063 Transposase; Region: DEDD_Tnp_IS110; pfam01548 670307006064 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 670307006065 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 670307006066 Predicted transcriptional regulator [Transcription]; Region: COG2378 670307006067 WYL domain; Region: WYL; pfam13280 670307006068 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 670307006069 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 670307006070 Walker A motif; other site 670307006071 ATP binding site [chemical binding]; other site 670307006072 Walker B motif; other site 670307006073 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 670307006074 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 670307006075 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 670307006076 Catalytic domain of Protein Kinases; Region: PKc; cd00180 670307006077 active site 670307006078 ATP binding site [chemical binding]; other site 670307006079 substrate binding site [chemical binding]; other site 670307006080 activation loop (A-loop); other site 670307006081 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 670307006082 AAA domain; Region: AAA_11; pfam13086 670307006083 Part of AAA domain; Region: AAA_19; pfam13245 670307006084 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 670307006085 AAA domain; Region: AAA_12; pfam13087 670307006086 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 670307006087 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 670307006088 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 670307006089 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 670307006090 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 670307006091 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 670307006092 C-terminal domain interface [polypeptide binding]; other site 670307006093 GSH binding site (G-site) [chemical binding]; other site 670307006094 dimer interface [polypeptide binding]; other site 670307006095 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 670307006096 N-terminal domain interface [polypeptide binding]; other site 670307006097 dimer interface [polypeptide binding]; other site 670307006098 substrate binding pocket (H-site) [chemical binding]; other site 670307006099 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 670307006100 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 670307006101 NADP binding site [chemical binding]; other site 670307006102 dimer interface [polypeptide binding]; other site 670307006103 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 670307006104 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 670307006105 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 670307006106 Cytochrome P450; Region: p450; cl12078 670307006107 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 670307006108 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 670307006109 GatB domain; Region: GatB_Yqey; smart00845 670307006110 Chorismate mutase type II; Region: CM_2; smart00830 670307006111 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 670307006112 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 670307006113 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 670307006114 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 670307006115 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 670307006116 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 670307006117 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 670307006118 dihydroorotase; Validated; Region: PRK09059 670307006119 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 670307006120 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 670307006121 active site 670307006122 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 670307006123 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 670307006124 DNA protecting protein DprA; Region: dprA; TIGR00732 670307006125 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 670307006126 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 670307006127 active site 670307006128 interdomain interaction site; other site 670307006129 putative metal-binding site [ion binding]; other site 670307006130 nucleotide binding site [chemical binding]; other site 670307006131 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 670307006132 domain I; other site 670307006133 DNA binding groove [nucleotide binding] 670307006134 phosphate binding site [ion binding]; other site 670307006135 domain II; other site 670307006136 domain III; other site 670307006137 nucleotide binding site [chemical binding]; other site 670307006138 catalytic site [active] 670307006139 domain IV; other site 670307006140 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 670307006141 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 670307006142 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 670307006143 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 670307006144 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 670307006145 RNB domain; Region: RNB; pfam00773 670307006146 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 670307006147 RNA binding site [nucleotide binding]; other site 670307006148 Protein of unknown function (DUF983); Region: DUF983; cl02211 670307006149 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 670307006150 nudix motif; other site 670307006151 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 670307006152 response regulator PleD; Reviewed; Region: pleD; PRK09581 670307006153 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 670307006154 active site 670307006155 phosphorylation site [posttranslational modification] 670307006156 intermolecular recognition site; other site 670307006157 dimerization interface [polypeptide binding]; other site 670307006158 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 670307006159 active site 670307006160 phosphorylation site [posttranslational modification] 670307006161 intermolecular recognition site; other site 670307006162 dimerization interface [polypeptide binding]; other site 670307006163 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 670307006164 metal binding site [ion binding]; metal-binding site 670307006165 active site 670307006166 I-site; other site 670307006167 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 670307006168 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 670307006169 active site 670307006170 phosphorylation site [posttranslational modification] 670307006171 intermolecular recognition site; other site 670307006172 dimerization interface [polypeptide binding]; other site 670307006173 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 670307006174 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 670307006175 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 670307006176 homotrimer interaction site [polypeptide binding]; other site 670307006177 putative active site [active] 670307006178 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 670307006179 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 670307006180 active site 670307006181 catalytic site [active] 670307006182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 670307006183 Protein of unknown function, DUF482; Region: DUF482; pfam04339 670307006184 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 670307006185 HIT family signature motif; other site 670307006186 catalytic residue [active] 670307006187 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 670307006188 NADH(P)-binding; Region: NAD_binding_10; pfam13460 670307006189 NAD binding site [chemical binding]; other site 670307006190 substrate binding site [chemical binding]; other site 670307006191 putative active site [active] 670307006192 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 670307006193 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 670307006194 Walker A motif; other site 670307006195 ATP binding site [chemical binding]; other site 670307006196 Walker B motif; other site 670307006197 arginine finger; other site 670307006198 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 670307006199 Walker A motif; other site 670307006200 ATP binding site [chemical binding]; other site 670307006201 Walker B motif; other site 670307006202 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 670307006203 Uncharacterized conserved protein [Function unknown]; Region: COG2127 670307006204 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 670307006205 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 670307006206 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 670307006207 Proline dehydrogenase; Region: Pro_dh; pfam01619 670307006208 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 670307006209 Glutamate binding site [chemical binding]; other site 670307006210 NAD binding site [chemical binding]; other site 670307006211 catalytic residues [active] 670307006212 Pantoate-beta-alanine ligase; Region: PanC; cd00560 670307006213 pantoate--beta-alanine ligase; Region: panC; TIGR00018 670307006214 active site 670307006215 ATP-binding site [chemical binding]; other site 670307006216 pantoate-binding site; other site 670307006217 HXXH motif; other site 670307006218 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 670307006219 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 670307006220 Mg2+ binding site [ion binding]; other site 670307006221 G-X-G motif; other site 670307006222 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 670307006223 anchoring element; other site 670307006224 dimer interface [polypeptide binding]; other site 670307006225 ATP binding site [chemical binding]; other site 670307006226 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 670307006227 active site 670307006228 putative metal-binding site [ion binding]; other site 670307006229 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 670307006230 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 670307006231 Fatty acid desaturase; Region: FA_desaturase; pfam00487 670307006232 putative di-iron ligands [ion binding]; other site 670307006233 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 670307006234 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 670307006235 amphipathic channel; other site 670307006236 Asn-Pro-Ala signature motifs; other site 670307006237 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 670307006238 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 670307006239 ATP binding site [chemical binding]; other site 670307006240 Mg++ binding site [ion binding]; other site 670307006241 motif III; other site 670307006242 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 670307006243 nucleotide binding region [chemical binding]; other site 670307006244 ATP-binding site [chemical binding]; other site 670307006245 TfoX N-terminal domain; Region: TfoX_N; pfam04993 670307006246 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 670307006247 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 670307006248 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 670307006249 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 670307006250 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 670307006251 catalytic residue [active] 670307006252 FeS assembly protein SufD; Region: sufD; TIGR01981 670307006253 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 670307006254 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 670307006255 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 670307006256 Walker A/P-loop; other site 670307006257 ATP binding site [chemical binding]; other site 670307006258 Q-loop/lid; other site 670307006259 ABC transporter signature motif; other site 670307006260 Walker B; other site 670307006261 D-loop; other site 670307006262 H-loop/switch region; other site 670307006263 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 670307006264 putative ABC transporter; Region: ycf24; CHL00085 670307006265 Transcriptional regulator; Region: Rrf2; cl17282 670307006266 Rrf2 family protein; Region: rrf2_super; TIGR00738 670307006267 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 670307006268 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 670307006269 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 670307006270 catalytic residue [active] 670307006271 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 670307006272 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 670307006273 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 670307006274 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 670307006275 active site 670307006276 HIGH motif; other site 670307006277 dimer interface [polypeptide binding]; other site 670307006278 KMSKS motif; other site 670307006279 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 670307006280 RNA binding surface [nucleotide binding]; other site 670307006281 Protein of unknown function; Region: DUF3971; pfam13116 670307006282 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 670307006283 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 670307006284 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 670307006285 catalytic triad [active] 670307006286 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 670307006287 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 670307006288 Usg-like family; Region: Usg; cl11567 670307006289 RNA polymerase sigma factor; Provisional; Region: PRK11922 670307006290 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307006291 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 670307006292 DNA binding residues [nucleotide binding] 670307006293 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 670307006294 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 670307006295 GTP cyclohydrolase I; Provisional; Region: PLN03044 670307006296 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 670307006297 active site 670307006298 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 670307006299 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 670307006300 MoxR-like ATPases [General function prediction only]; Region: COG0714 670307006301 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 670307006302 Walker A motif; other site 670307006303 ATP binding site [chemical binding]; other site 670307006304 Walker B motif; other site 670307006305 arginine finger; other site 670307006306 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 670307006307 Protein of unknown function DUF58; Region: DUF58; pfam01882 670307006308 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 670307006309 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 670307006310 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 670307006311 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 670307006312 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 670307006313 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cd10981 670307006314 Zn binding site [ion binding]; other site 670307006315 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 670307006316 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 670307006317 ThiC-associated domain; Region: ThiC-associated; pfam13667 670307006318 ThiC family; Region: ThiC; pfam01964 670307006319 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 670307006320 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 670307006321 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 670307006322 NodB motif; other site 670307006323 active site 670307006324 catalytic site [active] 670307006325 metal binding site [ion binding]; metal-binding site 670307006326 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 670307006327 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 670307006328 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 670307006329 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 670307006330 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 670307006331 Cl binding site [ion binding]; other site 670307006332 oligomer interface [polypeptide binding]; other site 670307006333 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 670307006334 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 670307006335 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 670307006336 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 670307006337 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 670307006338 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 670307006339 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 670307006340 non-specific DNA binding site [nucleotide binding]; other site 670307006341 salt bridge; other site 670307006342 sequence-specific DNA binding site [nucleotide binding]; other site 670307006343 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 670307006344 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 670307006345 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 670307006346 active site 670307006347 nucleophile elbow; other site 670307006348 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 670307006349 putative active site [active] 670307006350 putative metal binding site [ion binding]; other site 670307006351 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 670307006352 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 670307006353 active site 670307006354 metal binding site [ion binding]; metal-binding site 670307006355 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 670307006356 nudix motif; other site 670307006357 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 670307006358 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 670307006359 Coenzyme A binding pocket [chemical binding]; other site 670307006360 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 670307006361 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 670307006362 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 670307006363 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 670307006364 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 670307006365 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 670307006366 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 670307006367 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 670307006368 NodB motif; other site 670307006369 active site 670307006370 catalytic site [active] 670307006371 metal binding site [ion binding]; metal-binding site 670307006372 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 670307006373 nudix motif; other site 670307006374 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 670307006375 Phosphate transporter family; Region: PHO4; pfam01384 670307006376 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 670307006377 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 670307006378 GDP-binding site [chemical binding]; other site 670307006379 ACT binding site; other site 670307006380 IMP binding site; other site 670307006381 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 670307006382 conserved hypothetical protein; Region: TIGR02231 670307006383 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 670307006384 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 670307006385 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; cd01494 670307006386 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 670307006387 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 670307006388 catalytic residue [active] 670307006389 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 670307006390 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 670307006391 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 670307006392 active site 670307006393 substrate binding site [chemical binding]; other site 670307006394 metal binding site [ion binding]; metal-binding site 670307006395 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 670307006396 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 670307006397 P-loop; other site 670307006398 Magnesium ion binding site [ion binding]; other site 670307006399 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 670307006400 Magnesium ion binding site [ion binding]; other site 670307006401 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 670307006402 dihydropteroate synthase; Region: DHPS; TIGR01496 670307006403 substrate binding pocket [chemical binding]; other site 670307006404 dimer interface [polypeptide binding]; other site 670307006405 inhibitor binding site; inhibition site 670307006406 FtsH Extracellular; Region: FtsH_ext; pfam06480 670307006407 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 670307006408 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 670307006409 Walker A motif; other site 670307006410 ATP binding site [chemical binding]; other site 670307006411 Walker B motif; other site 670307006412 arginine finger; other site 670307006413 Peptidase family M41; Region: Peptidase_M41; pfam01434 670307006414 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 670307006415 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 670307006416 Ligand Binding Site [chemical binding]; other site 670307006417 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 670307006418 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 670307006419 binding surface 670307006420 TPR motif; other site 670307006421 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 670307006422 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 670307006423 ligand binding site [chemical binding]; other site 670307006424 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 670307006425 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 670307006426 ligand binding site [chemical binding]; other site 670307006427 translocation protein TolB; Provisional; Region: tolB; PRK05137 670307006428 TolB amino-terminal domain; Region: TolB_N; pfam04052 670307006429 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 670307006430 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 670307006431 TolR protein; Region: tolR; TIGR02801 670307006432 TolQ protein; Region: tolQ; TIGR02796 670307006433 ethanolamine permease; Region: 2A0305; TIGR00908 670307006434 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 670307006435 active site 670307006436 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 670307006437 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 670307006438 putative active site [active] 670307006439 putative metal binding site [ion binding]; other site 670307006440 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 670307006441 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 670307006442 Walker A motif; other site 670307006443 ATP binding site [chemical binding]; other site 670307006444 Walker B motif; other site 670307006445 arginine finger; other site 670307006446 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 670307006447 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 670307006448 RuvA N terminal domain; Region: RuvA_N; pfam01330 670307006449 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 670307006450 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 670307006451 active site 670307006452 putative DNA-binding cleft [nucleotide binding]; other site 670307006453 dimer interface [polypeptide binding]; other site 670307006454 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 670307006455 hypothetical protein; Validated; Region: PRK00110 670307006456 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 670307006457 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 670307006458 putative active site [active] 670307006459 metal binding site [ion binding]; metal-binding site 670307006460 homodimer binding site [polypeptide binding]; other site 670307006461 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 670307006462 Cell division protein ZapA; Region: ZapA; pfam05164 670307006463 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 670307006464 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 670307006465 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 670307006466 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 670307006467 active site 670307006468 intersubunit interface [polypeptide binding]; other site 670307006469 catalytic residue [active] 670307006470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 670307006471 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 670307006472 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307006473 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 670307006474 thiamine phosphate binding site [chemical binding]; other site 670307006475 active site 670307006476 pyrophosphate binding site [ion binding]; other site 670307006477 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 670307006478 Sel1-like repeats; Region: SEL1; smart00671 670307006479 Sel1-like repeats; Region: SEL1; smart00671 670307006480 Sel1-like repeats; Region: SEL1; smart00671 670307006481 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 670307006482 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 670307006483 active site 670307006484 dimerization interface [polypeptide binding]; other site 670307006485 hypothetical protein; Validated; Region: PRK09039 670307006486 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 670307006487 ligand binding site [chemical binding]; other site 670307006488 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 670307006489 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 670307006490 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 670307006491 Walker A/P-loop; other site 670307006492 ATP binding site [chemical binding]; other site 670307006493 Q-loop/lid; other site 670307006494 ABC transporter signature motif; other site 670307006495 Walker B; other site 670307006496 D-loop; other site 670307006497 H-loop/switch region; other site 670307006498 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 670307006499 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 670307006500 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 670307006501 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 670307006502 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 670307006503 NAD(P) binding site [chemical binding]; other site 670307006504 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 670307006505 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 670307006506 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 670307006507 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 670307006508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307006509 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 670307006510 NAD(P) binding site [chemical binding]; other site 670307006511 active site 670307006512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307006513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307006514 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 670307006515 dimerization interface [polypeptide binding]; other site 670307006516 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 670307006517 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 670307006518 putative dimer interface [polypeptide binding]; other site 670307006519 [2Fe-2S] cluster binding site [ion binding]; other site 670307006520 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 670307006521 putative dimer interface [polypeptide binding]; other site 670307006522 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 670307006523 SLBB domain; Region: SLBB; pfam10531 670307006524 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 670307006525 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 670307006526 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 670307006527 catalytic loop [active] 670307006528 iron binding site [ion binding]; other site 670307006529 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 670307006530 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 670307006531 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 670307006532 [4Fe-4S] binding site [ion binding]; other site 670307006533 molybdopterin cofactor binding site; other site 670307006534 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 670307006535 molybdopterin cofactor binding site; other site 670307006536 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 670307006537 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 670307006538 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 670307006539 elongation factor G; Reviewed; Region: PRK12740 670307006540 G1 box; other site 670307006541 putative GEF interaction site [polypeptide binding]; other site 670307006542 GTP/Mg2+ binding site [chemical binding]; other site 670307006543 Switch I region; other site 670307006544 G2 box; other site 670307006545 G3 box; other site 670307006546 Switch II region; other site 670307006547 G4 box; other site 670307006548 G5 box; other site 670307006549 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 670307006550 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 670307006551 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 670307006552 aspartate aminotransferase; Provisional; Region: PRK05764 670307006553 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 670307006554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307006555 homodimer interface [polypeptide binding]; other site 670307006556 catalytic residue [active] 670307006557 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 670307006558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307006559 NAD(P) binding site [chemical binding]; other site 670307006560 active site 670307006561 excinuclease ABC subunit B; Provisional; Region: PRK05298 670307006562 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 670307006563 ATP binding site [chemical binding]; other site 670307006564 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 670307006565 nucleotide binding region [chemical binding]; other site 670307006566 ATP-binding site [chemical binding]; other site 670307006567 Ultra-violet resistance protein B; Region: UvrB; pfam12344 670307006568 UvrB/uvrC motif; Region: UVR; pfam02151 670307006569 Uncharacterized conserved protein [Function unknown]; Region: COG3791 670307006570 GYD domain; Region: GYD; pfam08734 670307006571 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 670307006572 intracellular protease, PfpI family; Region: PfpI; TIGR01382 670307006573 proposed catalytic triad [active] 670307006574 conserved cys residue [active] 670307006575 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 670307006576 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 670307006577 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307006578 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 670307006579 active site 670307006580 phosphorylation site [posttranslational modification] 670307006581 intermolecular recognition site; other site 670307006582 dimerization interface [polypeptide binding]; other site 670307006583 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 670307006584 DNA binding site [nucleotide binding] 670307006585 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 670307006586 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 670307006587 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 670307006588 Ligand Binding Site [chemical binding]; other site 670307006589 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 670307006590 S-adenosylmethionine binding site [chemical binding]; other site 670307006591 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 670307006592 hypothetical protein; Provisional; Region: PRK09256 670307006593 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 670307006594 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 670307006595 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 670307006596 substrate-cofactor binding pocket; other site 670307006597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307006598 catalytic residue [active] 670307006599 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 670307006600 MarR family; Region: MarR_2; pfam12802 670307006601 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307006602 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 670307006603 active site 670307006604 phosphorylation site [posttranslational modification] 670307006605 intermolecular recognition site; other site 670307006606 dimerization interface [polypeptide binding]; other site 670307006607 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 670307006608 DNA binding site [nucleotide binding] 670307006609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307006610 HAMP domain; Region: HAMP; pfam00672 670307006611 dimerization interface [polypeptide binding]; other site 670307006612 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 670307006613 dimer interface [polypeptide binding]; other site 670307006614 phosphorylation site [posttranslational modification] 670307006615 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 670307006616 ATP binding site [chemical binding]; other site 670307006617 Mg2+ binding site [ion binding]; other site 670307006618 G-X-G motif; other site 670307006619 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 670307006620 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 670307006621 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 670307006622 Membrane fusogenic activity; Region: BMFP; pfam04380 670307006623 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 670307006624 Uncharacterized conserved protein [Function unknown]; Region: COG1565 670307006625 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 670307006626 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 670307006627 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 670307006628 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 670307006629 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 670307006630 active site 670307006631 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 670307006632 metal binding site 2 [ion binding]; metal-binding site 670307006633 putative DNA binding helix; other site 670307006634 metal binding site 1 [ion binding]; metal-binding site 670307006635 dimer interface [polypeptide binding]; other site 670307006636 structural Zn2+ binding site [ion binding]; other site 670307006637 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 670307006638 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 670307006639 5S rRNA interface [nucleotide binding]; other site 670307006640 CTC domain interface [polypeptide binding]; other site 670307006641 L16 interface [polypeptide binding]; other site 670307006642 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 670307006643 putative active site [active] 670307006644 catalytic residue [active] 670307006645 GTP-binding protein YchF; Reviewed; Region: PRK09601 670307006646 YchF GTPase; Region: YchF; cd01900 670307006647 G1 box; other site 670307006648 GTP/Mg2+ binding site [chemical binding]; other site 670307006649 Switch I region; other site 670307006650 G2 box; other site 670307006651 Switch II region; other site 670307006652 G3 box; other site 670307006653 G4 box; other site 670307006654 G5 box; other site 670307006655 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 670307006656 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 670307006657 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 670307006658 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 670307006659 intersubunit interface [polypeptide binding]; other site 670307006660 active site 670307006661 Zn2+ binding site [ion binding]; other site 670307006662 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 670307006663 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 670307006664 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 670307006665 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 670307006666 active site 670307006667 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 670307006668 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 670307006669 cytochrome b; Validated; Region: CYTB; MTH00022 670307006670 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 670307006671 Qi binding site; other site 670307006672 intrachain domain interface; other site 670307006673 interchain domain interface [polypeptide binding]; other site 670307006674 heme bH binding site [chemical binding]; other site 670307006675 heme bL binding site [chemical binding]; other site 670307006676 Qo binding site; other site 670307006677 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; cd00290 670307006678 interchain domain interface [polypeptide binding]; other site 670307006679 intrachain domain interface; other site 670307006680 Qi binding site; other site 670307006681 Qo binding site; other site 670307006682 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 670307006683 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 670307006684 [2Fe-2S] cluster binding site [ion binding]; other site 670307006685 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 670307006686 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 670307006687 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 670307006688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307006689 Walker A/P-loop; other site 670307006690 ATP binding site [chemical binding]; other site 670307006691 Q-loop/lid; other site 670307006692 ABC transporter signature motif; other site 670307006693 Walker B; other site 670307006694 D-loop; other site 670307006695 H-loop/switch region; other site 670307006696 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 670307006697 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 670307006698 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 670307006699 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 670307006700 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 670307006701 FMN binding site [chemical binding]; other site 670307006702 active site 670307006703 substrate binding site [chemical binding]; other site 670307006704 catalytic residue [active] 670307006705 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 670307006706 putative active site [active] 670307006707 putative CoA binding site [chemical binding]; other site 670307006708 nudix motif; other site 670307006709 metal binding site [ion binding]; metal-binding site 670307006710 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 670307006711 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 670307006712 active site 670307006713 NTP binding site [chemical binding]; other site 670307006714 metal binding triad [ion binding]; metal-binding site 670307006715 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 670307006716 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 670307006717 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 670307006718 putative active site [active] 670307006719 putative metal binding site [ion binding]; other site 670307006720 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 670307006721 Methyltransferase domain; Region: Methyltransf_23; pfam13489 670307006722 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 670307006723 S-adenosylmethionine binding site [chemical binding]; other site 670307006724 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 670307006725 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 670307006726 ring oligomerisation interface [polypeptide binding]; other site 670307006727 ATP/Mg binding site [chemical binding]; other site 670307006728 stacking interactions; other site 670307006729 hinge regions; other site 670307006730 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 670307006731 oligomerisation interface [polypeptide binding]; other site 670307006732 mobile loop; other site 670307006733 roof hairpin; other site 670307006734 H-NS histone family; Region: Histone_HNS; pfam00816 670307006735 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 670307006736 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 670307006737 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 670307006738 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 670307006739 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307006740 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 670307006741 ligand binding site [chemical binding]; other site 670307006742 flexible hinge region; other site 670307006743 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 670307006744 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 670307006745 active site 670307006746 nucleophile elbow; other site 670307006747 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 670307006748 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 670307006749 nucleophile elbow; other site 670307006750 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 670307006751 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 670307006752 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 670307006753 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 670307006754 heterodimer interface [polypeptide binding]; other site 670307006755 substrate interaction site [chemical binding]; other site 670307006756 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 670307006757 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 670307006758 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 670307006759 putative ion selectivity filter; other site 670307006760 putative pore gating glutamate residue; other site 670307006761 putative H+/Cl- coupling transport residue; other site 670307006762 Protein of unknown function (DUF817); Region: DUF817; pfam05675 670307006763 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 670307006764 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 670307006765 active site 670307006766 substrate binding site [chemical binding]; other site 670307006767 coenzyme B12 binding site [chemical binding]; other site 670307006768 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 670307006769 B12 binding site [chemical binding]; other site 670307006770 cobalt ligand [ion binding]; other site 670307006771 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 670307006772 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 670307006773 ATP binding site [chemical binding]; other site 670307006774 Mg++ binding site [ion binding]; other site 670307006775 motif III; other site 670307006776 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 670307006777 nucleotide binding region [chemical binding]; other site 670307006778 ATP-binding site [chemical binding]; other site 670307006779 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 670307006780 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 670307006781 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 670307006782 Putative serine esterase (DUF676); Region: DUF676; pfam05057 670307006783 membrane ATPase/protein kinase; Provisional; Region: PRK09435 670307006784 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 670307006785 Walker A; other site 670307006786 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 670307006787 putative substrate binding pocket [chemical binding]; other site 670307006788 AC domain interface; other site 670307006789 catalytic triad [active] 670307006790 AB domain interface; other site 670307006791 Right handed beta helix region; Region: Beta_helix; pfam13229 670307006792 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 670307006793 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 670307006794 ATP binding site [chemical binding]; other site 670307006795 putative Mg++ binding site [ion binding]; other site 670307006796 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 670307006797 nucleotide binding region [chemical binding]; other site 670307006798 ATP-binding site [chemical binding]; other site 670307006799 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 670307006800 HRDC domain; Region: HRDC; pfam00570 670307006801 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 670307006802 ATP phosphoribosyltransferase; Region: HisG; cl15266 670307006803 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 670307006804 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 670307006805 motif 1; other site 670307006806 dimer interface [polypeptide binding]; other site 670307006807 active site 670307006808 motif 2; other site 670307006809 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 670307006810 active site 670307006811 motif 3; other site 670307006812 histidyl-tRNA synthetase; Region: hisS; TIGR00442 670307006813 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 670307006814 dimer interface [polypeptide binding]; other site 670307006815 motif 1; other site 670307006816 motif 2; other site 670307006817 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 670307006818 active site 670307006819 motif 3; other site 670307006820 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 670307006821 anticodon binding site; other site 670307006822 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 670307006823 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 670307006824 cobalamin synthase; Reviewed; Region: cobS; PRK00235 670307006825 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 670307006826 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 670307006827 active site pocket [active] 670307006828 putative dimer interface [polypeptide binding]; other site 670307006829 putative cataytic base [active] 670307006830 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 670307006831 Cysteine-rich domain; Region: CCG; pfam02754 670307006832 Cysteine-rich domain; Region: CCG; pfam02754 670307006833 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 670307006834 FAD binding domain; Region: FAD_binding_4; pfam01565 670307006835 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 670307006836 FAD binding domain; Region: FAD_binding_4; pfam01565 670307006837 glutamate--cysteine ligase; Region: PLN02611 670307006838 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 670307006839 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 670307006840 UbiA prenyltransferase family; Region: UbiA; pfam01040 670307006841 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 670307006842 Putative phosphatase (DUF442); Region: DUF442; cl17385 670307006843 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 670307006844 putative acyl-acceptor binding pocket; other site 670307006845 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 670307006846 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 670307006847 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 670307006848 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 670307006849 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 670307006850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 670307006851 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 670307006852 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 670307006853 generic binding surface II; other site 670307006854 generic binding surface I; other site 670307006855 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 670307006856 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 670307006857 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 670307006858 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 670307006859 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 670307006860 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 670307006861 nucleophile elbow; other site 670307006862 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 670307006863 nucleoside/Zn binding site; other site 670307006864 dimer interface [polypeptide binding]; other site 670307006865 catalytic motif [active] 670307006866 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 670307006867 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 670307006868 RNA binding surface [nucleotide binding]; other site 670307006869 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 670307006870 active site 670307006871 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 670307006872 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 670307006873 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 670307006874 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 670307006875 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 670307006876 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 670307006877 putative substrate translocation pore; other site 670307006878 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 670307006879 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 670307006880 heme binding site [chemical binding]; other site 670307006881 ferroxidase pore; other site 670307006882 ferroxidase diiron center [ion binding]; other site 670307006883 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 670307006884 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 670307006885 ATP binding site [chemical binding]; other site 670307006886 Mg2+ binding site [ion binding]; other site 670307006887 G-X-G motif; other site 670307006888 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 670307006889 ATP binding site [chemical binding]; other site 670307006890 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 670307006891 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 670307006892 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 670307006893 dimer interface [polypeptide binding]; other site 670307006894 active site 670307006895 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 670307006896 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 670307006897 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 670307006898 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 670307006899 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 670307006900 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 670307006901 lipoprotein signal peptidase; Provisional; Region: PRK14796 670307006902 lipoprotein signal peptidase; Provisional; Region: PRK14787 670307006903 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 670307006904 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 670307006905 active site 670307006906 HIGH motif; other site 670307006907 nucleotide binding site [chemical binding]; other site 670307006908 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 670307006909 active site 670307006910 KMSKS motif; other site 670307006911 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 670307006912 tRNA binding surface [nucleotide binding]; other site 670307006913 anticodon binding site; other site 670307006914 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 670307006915 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 670307006916 active site 670307006917 Riboflavin kinase; Region: Flavokinase; pfam01687 670307006918 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 670307006919 dimer interaction site [polypeptide binding]; other site 670307006920 substrate-binding tunnel; other site 670307006921 active site 670307006922 catalytic site [active] 670307006923 substrate binding site [chemical binding]; other site 670307006924 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 670307006925 putative transporter; Provisional; Region: PRK11660 670307006926 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 670307006927 Sulfate transporter family; Region: Sulfate_transp; pfam00916 670307006928 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 670307006929 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 670307006930 non-specific DNA binding site [nucleotide binding]; other site 670307006931 salt bridge; other site 670307006932 sequence-specific DNA binding site [nucleotide binding]; other site 670307006933 acyl-CoA synthetase; Validated; Region: PRK08162 670307006934 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 670307006935 acyl-activating enzyme (AAE) consensus motif; other site 670307006936 putative active site [active] 670307006937 AMP binding site [chemical binding]; other site 670307006938 putative CoA binding site [chemical binding]; other site 670307006939 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 670307006940 putative heme binding pocket [chemical binding]; other site 670307006941 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 670307006942 putative hydrophobic ligand binding site [chemical binding]; other site 670307006943 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 670307006944 putative hydrophobic ligand binding site [chemical binding]; other site 670307006945 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 670307006946 dimerization interface [polypeptide binding]; other site 670307006947 putative DNA binding site [nucleotide binding]; other site 670307006948 putative Zn2+ binding site [ion binding]; other site 670307006949 Uncharacterized small protein [Function unknown]; Region: COG5570 670307006950 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 670307006951 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 670307006952 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 670307006953 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 670307006954 active site 670307006955 DNA binding site [nucleotide binding] 670307006956 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 670307006957 DNA binding site [nucleotide binding] 670307006958 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 670307006959 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 670307006960 ATP-grasp domain; Region: ATP-grasp; pfam02222 670307006961 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 670307006962 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 670307006963 MarR family; Region: MarR_2; pfam12802 670307006964 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 670307006965 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 670307006966 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 670307006967 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 670307006968 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 670307006969 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 670307006970 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 670307006971 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 670307006972 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 670307006973 ligand binding site [chemical binding]; other site 670307006974 homodimer interface [polypeptide binding]; other site 670307006975 NAD(P) binding site [chemical binding]; other site 670307006976 trimer interface B [polypeptide binding]; other site 670307006977 trimer interface A [polypeptide binding]; other site 670307006978 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 670307006979 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 670307006980 potassium uptake protein; Region: kup; TIGR00794 670307006981 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 670307006982 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 670307006983 active site 670307006984 Zn binding site [ion binding]; other site 670307006985 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 670307006986 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 670307006987 active site 670307006988 phosphorylation site [posttranslational modification] 670307006989 intermolecular recognition site; other site 670307006990 dimerization interface [polypeptide binding]; other site 670307006991 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 670307006992 Walker A motif; other site 670307006993 ATP binding site [chemical binding]; other site 670307006994 Walker B motif; other site 670307006995 arginine finger; other site 670307006996 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 670307006997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 670307006998 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307006999 Peptidase M15; Region: Peptidase_M15_3; cl01194 670307007000 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 670307007001 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 670307007002 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307007003 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 670307007004 dimerization interface [polypeptide binding]; other site 670307007005 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 670307007006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 670307007007 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 670307007008 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 670307007009 MOFRL family; Region: MOFRL; pfam05161 670307007010 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 670307007011 pyruvate kinase; Provisional; Region: PRK06247 670307007012 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 670307007013 domain interfaces; other site 670307007014 active site 670307007015 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 670307007016 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 670307007017 TPR repeat; Region: TPR_11; pfam13414 670307007018 binding surface 670307007019 TPR motif; other site 670307007020 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 670307007021 Response regulator receiver domain; Region: Response_reg; pfam00072 670307007022 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 670307007023 active site 670307007024 phosphorylation site [posttranslational modification] 670307007025 intermolecular recognition site; other site 670307007026 dimerization interface [polypeptide binding]; other site 670307007027 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 670307007028 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 670307007029 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 670307007030 active site 670307007031 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 670307007032 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 670307007033 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 670307007034 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 670307007035 putative dimer interface [polypeptide binding]; other site 670307007036 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 670307007037 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 670307007038 active site 670307007039 dimer interface [polypeptide binding]; other site 670307007040 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 670307007041 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 670307007042 active site 670307007043 FMN binding site [chemical binding]; other site 670307007044 substrate binding site [chemical binding]; other site 670307007045 3Fe-4S cluster binding site [ion binding]; other site 670307007046 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 670307007047 domain interface; other site 670307007048 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 670307007049 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 670307007050 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 670307007051 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 670307007052 active site 670307007053 catalytic triad [active] 670307007054 oxyanion hole [active] 670307007055 Transglycosylase SLT domain; Region: SLT_2; pfam13406 670307007056 murein hydrolase B; Provisional; Region: PRK10760; cl17906 670307007057 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 670307007058 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 670307007059 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 670307007060 NAD binding site [chemical binding]; other site 670307007061 homodimer interface [polypeptide binding]; other site 670307007062 active site 670307007063 substrate binding site [chemical binding]; other site 670307007064 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 670307007065 active site 670307007066 tetramer interface; other site 670307007067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 670307007068 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 670307007069 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 670307007070 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 670307007071 putative active site [active] 670307007072 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 670307007073 ferrochelatase; Reviewed; Region: hemH; PRK00035 670307007074 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 670307007075 C-terminal domain interface [polypeptide binding]; other site 670307007076 active site 670307007077 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 670307007078 active site 670307007079 N-terminal domain interface [polypeptide binding]; other site 670307007080 CHAD domain; Region: CHAD; pfam05235 670307007081 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 670307007082 thiamine phosphate binding site [chemical binding]; other site 670307007083 active site 670307007084 pyrophosphate binding site [ion binding]; other site 670307007085 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 670307007086 ThiS interaction site; other site 670307007087 putative active site [active] 670307007088 tetramer interface [polypeptide binding]; other site 670307007089 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 670307007090 thiS-thiF/thiG interaction site; other site 670307007091 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 670307007092 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 670307007093 putative acyl-acceptor binding pocket; other site 670307007094 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 670307007095 acyl-activating enzyme (AAE) consensus motif; other site 670307007096 AMP binding site [chemical binding]; other site 670307007097 active site 670307007098 CoA binding site [chemical binding]; other site 670307007099 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 670307007100 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 670307007101 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 670307007102 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 670307007103 Cupin domain; Region: Cupin_2; pfam07883 670307007104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 670307007105 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307007106 lipoyl synthase; Provisional; Region: PRK05481 670307007107 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 670307007108 FeS/SAM binding site; other site 670307007109 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 670307007110 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 670307007111 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 670307007112 dimerization interface [polypeptide binding]; other site 670307007113 putative Zn2+ binding site [ion binding]; other site 670307007114 putative DNA binding site [nucleotide binding]; other site 670307007115 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 670307007116 dimerization interface [polypeptide binding]; other site 670307007117 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 670307007118 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 670307007119 Walker A/P-loop; other site 670307007120 ATP binding site [chemical binding]; other site 670307007121 Q-loop/lid; other site 670307007122 ABC transporter signature motif; other site 670307007123 Walker B; other site 670307007124 D-loop; other site 670307007125 H-loop/switch region; other site 670307007126 sulfate transport protein; Provisional; Region: cysT; CHL00187 670307007127 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 670307007128 dimer interface [polypeptide binding]; other site 670307007129 conserved gate region; other site 670307007130 putative PBP binding loops; other site 670307007131 ABC-ATPase subunit interface; other site 670307007132 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 670307007133 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 670307007134 dimer interface [polypeptide binding]; other site 670307007135 conserved gate region; other site 670307007136 putative PBP binding loops; other site 670307007137 ABC-ATPase subunit interface; other site 670307007138 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 670307007139 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 670307007140 non-specific DNA binding site [nucleotide binding]; other site 670307007141 salt bridge; other site 670307007142 sequence-specific DNA binding site [nucleotide binding]; other site 670307007143 Cupin domain; Region: Cupin_2; pfam07883 670307007144 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 670307007145 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 670307007146 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 670307007147 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 670307007148 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 670307007149 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 670307007150 FtsX-like permease family; Region: FtsX; pfam02687 670307007151 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 670307007152 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 670307007153 Walker A/P-loop; other site 670307007154 ATP binding site [chemical binding]; other site 670307007155 Q-loop/lid; other site 670307007156 ABC transporter signature motif; other site 670307007157 Walker B; other site 670307007158 D-loop; other site 670307007159 H-loop/switch region; other site 670307007160 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 670307007161 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 670307007162 PAS fold; Region: PAS_3; pfam08447 670307007163 putative active site [active] 670307007164 heme pocket [chemical binding]; other site 670307007165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 670307007166 HWE histidine kinase; Region: HWE_HK; pfam07536 670307007167 CHASE3 domain; Region: CHASE3; pfam05227 670307007168 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 670307007169 Histidine kinase; Region: HisKA_2; pfam07568 670307007170 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 670307007171 ATP binding site [chemical binding]; other site 670307007172 Mg2+ binding site [ion binding]; other site 670307007173 G-X-G motif; other site 670307007174 two-component response regulator; Provisional; Region: PRK09191 670307007175 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 670307007176 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 670307007177 active site 670307007178 phosphorylation site [posttranslational modification] 670307007179 intermolecular recognition site; other site 670307007180 dimerization interface [polypeptide binding]; other site 670307007181 RNA polymerase sigma factor; Provisional; Region: PRK12547 670307007182 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 670307007183 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 670307007184 DNA binding residues [nucleotide binding] 670307007185 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 670307007186 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 670307007187 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 670307007188 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 670307007189 active site 670307007190 SAM binding site [chemical binding]; other site 670307007191 homodimer interface [polypeptide binding]; other site 670307007192 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 670307007193 active site 670307007194 putative homodimer interface [polypeptide binding]; other site 670307007195 SAM binding site [chemical binding]; other site 670307007196 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 670307007197 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 670307007198 S-adenosylmethionine binding site [chemical binding]; other site 670307007199 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 670307007200 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 670307007201 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 670307007202 active site 670307007203 SAM binding site [chemical binding]; other site 670307007204 homodimer interface [polypeptide binding]; other site 670307007205 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 670307007206 active site 670307007207 SAM binding site [chemical binding]; other site 670307007208 homodimer interface [polypeptide binding]; other site 670307007209 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 670307007210 Precorrin-8X methylmutase; Region: CbiC; pfam02570 670307007211 precorrin-3B synthase; Region: CobG; TIGR02435 670307007212 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 670307007213 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 670307007214 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 670307007215 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 670307007216 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 670307007217 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 670307007218 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 670307007219 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 670307007220 homotrimer interface [polypeptide binding]; other site 670307007221 Walker A motif; other site 670307007222 GTP binding site [chemical binding]; other site 670307007223 Walker B motif; other site 670307007224 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 670307007225 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 670307007226 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 670307007227 homodimer interface [polypeptide binding]; other site 670307007228 Walker A motif; other site 670307007229 ATP binding site [chemical binding]; other site 670307007230 hydroxycobalamin binding site [chemical binding]; other site 670307007231 Walker B motif; other site 670307007232 cobyric acid synthase; Provisional; Region: PRK00784 670307007233 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 670307007234 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 670307007235 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 670307007236 catalytic triad [active] 670307007237 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 670307007238 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 670307007239 putative FMN binding site [chemical binding]; other site 670307007240 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 670307007241 active site 670307007242 SAM binding site [chemical binding]; other site 670307007243 homodimer interface [polypeptide binding]; other site 670307007244 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 670307007245 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 670307007246 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 670307007247 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 670307007248 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 670307007249 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 670307007250 Walker A/P-loop; other site 670307007251 ATP binding site [chemical binding]; other site 670307007252 Q-loop/lid; other site 670307007253 ABC transporter signature motif; other site 670307007254 Walker B; other site 670307007255 D-loop; other site 670307007256 H-loop/switch region; other site 670307007257 hypothetical protein; Validated; Region: PRK01415 670307007258 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 670307007259 active site residue [active] 670307007260 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 670307007261 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 670307007262 Domain of unknown function (DUF329); Region: DUF329; pfam03884 670307007263 Maf-like protein; Region: Maf; pfam02545 670307007264 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 670307007265 active site 670307007266 dimer interface [polypeptide binding]; other site 670307007267 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307007268 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 670307007269 ligand binding site [chemical binding]; other site 670307007270 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 670307007271 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 670307007272 cyclase homology domain; Region: CHD; cd07302 670307007273 nucleotidyl binding site; other site 670307007274 metal binding site [ion binding]; metal-binding site 670307007275 dimer interface [polypeptide binding]; other site 670307007276 hypothetical protein; Provisional; Region: PRK02853 670307007277 histidinol dehydrogenase; Region: hisD; TIGR00069 670307007278 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 670307007279 NAD binding site [chemical binding]; other site 670307007280 dimerization interface [polypeptide binding]; other site 670307007281 product binding site; other site 670307007282 substrate binding site [chemical binding]; other site 670307007283 zinc binding site [ion binding]; other site 670307007284 catalytic residues [active] 670307007285 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 670307007286 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 670307007287 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 670307007288 hinge; other site 670307007289 active site 670307007290 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 670307007291 DNA binding residues [nucleotide binding] 670307007292 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 670307007293 Peptidase family M23; Region: Peptidase_M23; pfam01551 670307007294 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307007295 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 670307007296 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 670307007297 Walker A/P-loop; other site 670307007298 ATP binding site [chemical binding]; other site 670307007299 Q-loop/lid; other site 670307007300 ABC transporter signature motif; other site 670307007301 Walker B; other site 670307007302 D-loop; other site 670307007303 H-loop/switch region; other site 670307007304 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 670307007305 FOG: CBS domain [General function prediction only]; Region: COG0517 670307007306 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 670307007307 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 670307007308 dimer interface [polypeptide binding]; other site 670307007309 PYR/PP interface [polypeptide binding]; other site 670307007310 TPP binding site [chemical binding]; other site 670307007311 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 670307007312 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 670307007313 TPP-binding site [chemical binding]; other site 670307007314 dimer interface [polypeptide binding]; other site 670307007315 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 670307007316 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 670307007317 active site 670307007318 nucleophile elbow; other site 670307007319 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 670307007320 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307007321 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307007322 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 670307007323 Fusaric acid resistance protein family; Region: FUSC; pfam04632 670307007324 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 670307007325 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 670307007326 MgtE intracellular N domain; Region: MgtE_N; pfam03448 670307007327 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 670307007328 Divalent cation transporter; Region: MgtE; pfam01769 670307007329 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307007330 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307007331 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307007332 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 670307007333 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 670307007334 GTP cyclohydrolase I; Provisional; Region: PLN03044 670307007335 active site 670307007336 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 670307007337 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 670307007338 dimerization interface 3.5A [polypeptide binding]; other site 670307007339 active site 670307007340 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 670307007341 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 670307007342 putative active site [active] 670307007343 substrate binding site [chemical binding]; other site 670307007344 putative cosubstrate binding site; other site 670307007345 catalytic site [active] 670307007346 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 670307007347 substrate binding site [chemical binding]; other site 670307007348 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 670307007349 active site 670307007350 catalytic residues [active] 670307007351 metal binding site [ion binding]; metal-binding site 670307007352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 670307007353 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 670307007354 NAD(P) binding site [chemical binding]; other site 670307007355 active site 670307007356 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 670307007357 putative efflux protein, MATE family; Region: matE; TIGR00797 670307007358 recombination protein RecR; Reviewed; Region: recR; PRK00076 670307007359 RecR protein; Region: RecR; pfam02132 670307007360 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 670307007361 putative active site [active] 670307007362 putative metal-binding site [ion binding]; other site 670307007363 tetramer interface [polypeptide binding]; other site 670307007364 hypothetical protein; Validated; Region: PRK00153 670307007365 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 670307007366 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 670307007367 Walker A motif; other site 670307007368 ATP binding site [chemical binding]; other site 670307007369 Walker B motif; other site 670307007370 arginine finger; other site 670307007371 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 670307007372 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 670307007373 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 670307007374 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 670307007375 putative NAD(P) binding site [chemical binding]; other site 670307007376 active site 670307007377 prephenate dehydratase; Provisional; Region: PRK11899 670307007378 Prephenate dehydratase; Region: PDT; pfam00800 670307007379 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 670307007380 putative L-Phe binding site [chemical binding]; other site 670307007381 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 670307007382 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 670307007383 Ligand binding site; other site 670307007384 oligomer interface; other site 670307007385 Cytochrome c2 [Energy production and conversion]; Region: COG3474 670307007386 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 670307007387 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 670307007388 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 670307007389 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 670307007390 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 670307007391 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 670307007392 dimer interface [polypeptide binding]; other site 670307007393 conserved gate region; other site 670307007394 putative PBP binding loops; other site 670307007395 ABC-ATPase subunit interface; other site 670307007396 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 670307007397 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 670307007398 dimer interface [polypeptide binding]; other site 670307007399 conserved gate region; other site 670307007400 putative PBP binding loops; other site 670307007401 ABC-ATPase subunit interface; other site 670307007402 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 670307007403 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 670307007404 Walker A/P-loop; other site 670307007405 ATP binding site [chemical binding]; other site 670307007406 Q-loop/lid; other site 670307007407 ABC transporter signature motif; other site 670307007408 Walker B; other site 670307007409 D-loop; other site 670307007410 H-loop/switch region; other site 670307007411 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 670307007412 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 670307007413 Walker A/P-loop; other site 670307007414 ATP binding site [chemical binding]; other site 670307007415 Q-loop/lid; other site 670307007416 ABC transporter signature motif; other site 670307007417 Walker B; other site 670307007418 D-loop; other site 670307007419 H-loop/switch region; other site 670307007420 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 670307007421 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 670307007422 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 670307007423 putative C-terminal domain interface [polypeptide binding]; other site 670307007424 putative GSH binding site (G-site) [chemical binding]; other site 670307007425 putative dimer interface [polypeptide binding]; other site 670307007426 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 670307007427 dimer interface [polypeptide binding]; other site 670307007428 N-terminal domain interface [polypeptide binding]; other site 670307007429 putative substrate binding pocket (H-site) [chemical binding]; other site 670307007430 Menin; Region: Menin; pfam05053 670307007431 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 670307007432 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 670307007433 ligand binding site [chemical binding]; other site 670307007434 Staphylococcal nuclease homologues; Region: SNc; smart00318 670307007435 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 670307007436 Catalytic site; other site 670307007437 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 670307007438 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 670307007439 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 670307007440 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 670307007441 active site 670307007442 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 670307007443 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307007444 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 670307007445 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307007446 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 670307007447 AsmA family; Region: AsmA; pfam05170 670307007448 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 670307007449 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 670307007450 Uncharacterized conserved protein [Function unknown]; Region: COG5649 670307007451 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 670307007452 putative transporter; Provisional; Region: PRK10504 670307007453 putative substrate translocation pore; other site 670307007454 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 670307007455 Coenzyme A transferase; Region: CoA_trans; smart00882 670307007456 Coenzyme A transferase; Region: CoA_trans; cl17247 670307007457 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 670307007458 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 670307007459 protein binding site [polypeptide binding]; other site 670307007460 Domain of unknown function DUF59; Region: DUF59; pfam01883 670307007461 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 670307007462 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 670307007463 Walker A motif; other site 670307007464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 670307007465 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 670307007466 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 670307007467 GTP binding site; other site 670307007468 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 670307007469 Walker A motif; other site 670307007470 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 670307007471 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 670307007472 FeS/SAM binding site; other site 670307007473 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 670307007474 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 670307007475 Response regulator receiver domain; Region: Response_reg; pfam00072 670307007476 active site 670307007477 phosphorylation site [posttranslational modification] 670307007478 intermolecular recognition site; other site 670307007479 dimerization interface [polypeptide binding]; other site 670307007480 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 670307007481 active site 670307007482 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 670307007483 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 670307007484 Walker A/P-loop; other site 670307007485 ATP binding site [chemical binding]; other site 670307007486 Q-loop/lid; other site 670307007487 ABC transporter signature motif; other site 670307007488 Walker B; other site 670307007489 D-loop; other site 670307007490 H-loop/switch region; other site 670307007491 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 670307007492 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 670307007493 Uncharacterized conserved protein [Function unknown]; Region: COG1434 670307007494 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 670307007495 putative active site [active] 670307007496 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 670307007497 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 670307007498 putative acyl-acceptor binding pocket; other site 670307007499 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 670307007500 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 670307007501 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 670307007502 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 670307007503 active site 670307007504 dimer interface [polypeptide binding]; other site 670307007505 effector binding site; other site 670307007506 TSCPD domain; Region: TSCPD; pfam12637 670307007507 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 670307007508 prephenate dehydrogenase; Validated; Region: PRK08507 670307007509 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 670307007510 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 670307007511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307007512 homodimer interface [polypeptide binding]; other site 670307007513 catalytic residue [active] 670307007514 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 670307007515 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 670307007516 Methyltransferase domain; Region: Methyltransf_23; pfam13489 670307007517 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 670307007518 S-adenosylmethionine binding site [chemical binding]; other site 670307007519 Methyltransferase domain; Region: Methyltransf_11; pfam08241 670307007520 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 670307007521 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 670307007522 LabA_like proteins; Region: LabA_like; cd06167 670307007523 putative metal binding site [ion binding]; other site 670307007524 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 670307007525 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 670307007526 NAD(P) binding site [chemical binding]; other site 670307007527 homotetramer interface [polypeptide binding]; other site 670307007528 homodimer interface [polypeptide binding]; other site 670307007529 active site 670307007530 putative acyltransferase; Provisional; Region: PRK05790 670307007531 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 670307007532 dimer interface [polypeptide binding]; other site 670307007533 active site 670307007534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 670307007535 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 670307007536 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 670307007537 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 670307007538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 670307007539 metal binding site [ion binding]; metal-binding site 670307007540 active site 670307007541 I-site; other site 670307007542 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 670307007543 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 670307007544 Transglycosylase; Region: Transgly; cl17702 670307007545 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 670307007546 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 670307007547 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 670307007548 substrate binding pocket [chemical binding]; other site 670307007549 chain length determination region; other site 670307007550 substrate-Mg2+ binding site; other site 670307007551 catalytic residues [active] 670307007552 aspartate-rich region 1; other site 670307007553 active site lid residues [active] 670307007554 aspartate-rich region 2; other site 670307007555 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 670307007556 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 670307007557 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 670307007558 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 670307007559 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 670307007560 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 670307007561 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 670307007562 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 670307007563 putative PBP binding regions; other site 670307007564 ABC-ATPase subunit interface; other site 670307007565 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 670307007566 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 670307007567 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 670307007568 metal binding site 2 [ion binding]; metal-binding site 670307007569 putative DNA binding helix; other site 670307007570 metal binding site 1 [ion binding]; metal-binding site 670307007571 dimer interface [polypeptide binding]; other site 670307007572 structural Zn2+ binding site [ion binding]; other site 670307007573 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 670307007574 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 670307007575 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 670307007576 ABC-type Fe2+-enterobactin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG4592 670307007577 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 670307007578 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 670307007579 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 670307007580 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 670307007581 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 670307007582 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 670307007583 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 670307007584 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 670307007585 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 670307007586 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 670307007587 dimer interface [polypeptide binding]; other site 670307007588 anticodon binding site; other site 670307007589 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 670307007590 homodimer interface [polypeptide binding]; other site 670307007591 motif 1; other site 670307007592 active site 670307007593 motif 2; other site 670307007594 GAD domain; Region: GAD; pfam02938 670307007595 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 670307007596 active site 670307007597 motif 3; other site 670307007598 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 670307007599 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 670307007600 catalytic site [active] 670307007601 putative active site [active] 670307007602 putative substrate binding site [chemical binding]; other site 670307007603 HRDC domain; Region: HRDC; pfam00570 670307007604 chaperone protein DnaJ; Provisional; Region: PRK14299 670307007605 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 670307007606 HSP70 interaction site [polypeptide binding]; other site 670307007607 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 670307007608 substrate binding site [polypeptide binding]; other site 670307007609 dimer interface [polypeptide binding]; other site 670307007610 exopolyphosphatase; Region: exo_poly_only; TIGR03706 670307007611 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 670307007612 polyphosphate kinase; Provisional; Region: PRK05443 670307007613 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 670307007614 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 670307007615 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 670307007616 putative domain interface [polypeptide binding]; other site 670307007617 putative active site [active] 670307007618 catalytic site [active] 670307007619 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 670307007620 putative active site [active] 670307007621 putative domain interface [polypeptide binding]; other site 670307007622 catalytic site [active] 670307007623 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 670307007624 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 670307007625 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 670307007626 Domain of unknown function DUF20; Region: UPF0118; pfam01594 670307007627 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 670307007628 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 670307007629 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 670307007630 dimerization interface [polypeptide binding]; other site 670307007631 putative ATP binding site [chemical binding]; other site 670307007632 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 670307007633 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 670307007634 Trp docking motif [polypeptide binding]; other site 670307007635 dimer interface [polypeptide binding]; other site 670307007636 active site 670307007637 small subunit binding site [polypeptide binding]; other site 670307007638 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 670307007639 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 670307007640 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 670307007641 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 670307007642 active site 670307007643 substrate binding site [chemical binding]; other site 670307007644 cosubstrate binding site; other site 670307007645 catalytic site [active] 670307007646 Cytochrome P450; Region: p450; cl12078 670307007647 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 670307007648 DinB family; Region: DinB; cl17821 670307007649 DinB superfamily; Region: DinB_2; pfam12867 670307007650 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 670307007651 active site 670307007652 multimer interface [polypeptide binding]; other site 670307007653 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 670307007654 hypothetical protein; Provisional; Region: PRK09272 670307007655 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 670307007656 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 670307007657 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 670307007658 ABC transporter; Region: ABC_tran_2; pfam12848 670307007659 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 670307007660 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 670307007661 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 670307007662 Chromate transporter; Region: Chromate_transp; pfam02417 670307007663 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 670307007664 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 670307007665 dimer interface [polypeptide binding]; other site 670307007666 motif 1; other site 670307007667 active site 670307007668 motif 2; other site 670307007669 motif 3; other site 670307007670 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 670307007671 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 670307007672 tandem repeat interface [polypeptide binding]; other site 670307007673 oligomer interface [polypeptide binding]; other site 670307007674 active site residues [active] 670307007675 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 670307007676 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 670307007677 S-adenosylmethionine binding site [chemical binding]; other site 670307007678 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 670307007679 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 670307007680 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 670307007681 substrate binding pocket [chemical binding]; other site 670307007682 chain length determination region; other site 670307007683 substrate-Mg2+ binding site; other site 670307007684 catalytic residues [active] 670307007685 aspartate-rich region 1; other site 670307007686 active site lid residues [active] 670307007687 aspartate-rich region 2; other site 670307007688 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 670307007689 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 670307007690 binding surface 670307007691 TPR motif; other site 670307007692 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 670307007693 binding surface 670307007694 TPR motif; other site 670307007695 TPR repeat; Region: TPR_11; pfam13414 670307007696 TPR repeat; Region: TPR_11; pfam13414 670307007697 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 670307007698 binding surface 670307007699 TPR motif; other site 670307007700 TPR repeat; Region: TPR_11; pfam13414 670307007701 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 670307007702 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 670307007703 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 670307007704 Fe-S cluster binding site [ion binding]; other site 670307007705 active site 670307007706 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 670307007707 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 670307007708 MPT binding site; other site 670307007709 trimer interface [polypeptide binding]; other site 670307007710 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 670307007711 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 670307007712 active site 670307007713 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 670307007714 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 670307007715 FeS/SAM binding site; other site 670307007716 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 670307007717 RNA/DNA hybrid binding site [nucleotide binding]; other site 670307007718 active site 670307007719 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 670307007720 DNA methylase; Region: N6_N4_Mtase; pfam01555 670307007721 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 670307007722 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 670307007723 minor groove reading motif; other site 670307007724 helix-hairpin-helix signature motif; other site 670307007725 substrate binding pocket [chemical binding]; other site 670307007726 active site 670307007727 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 670307007728 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 670307007729 DNA binding and oxoG recognition site [nucleotide binding] 670307007730 Protein of unknown function (DUF721); Region: DUF721; cl02324 670307007731 Thioredoxin; Region: Thioredoxin_4; pfam13462 670307007732 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 670307007733 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 670307007734 Thioredoxin; Region: Thioredoxin_4; pfam13462 670307007735 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 670307007736 AAA domain; Region: AAA_23; pfam13476 670307007737 Walker A/P-loop; other site 670307007738 ATP binding site [chemical binding]; other site 670307007739 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 670307007740 Q-loop/lid; other site 670307007741 ABC transporter signature motif; other site 670307007742 Walker B; other site 670307007743 D-loop; other site 670307007744 H-loop/switch region; other site 670307007745 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 670307007746 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 670307007747 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 670307007748 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 670307007749 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 670307007750 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 670307007751 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 670307007752 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 670307007753 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 670307007754 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 670307007755 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 670307007756 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 670307007757 putative active site [active] 670307007758 putative substrate binding site [chemical binding]; other site 670307007759 ATP binding site [chemical binding]; other site 670307007760 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 670307007761 RNA/DNA hybrid binding site [nucleotide binding]; other site 670307007762 active site 670307007763 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 670307007764 catalytic triad [active] 670307007765 dimer interface [polypeptide binding]; other site 670307007766 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 670307007767 hypothetical protein; Validated; Region: PRK00228 670307007768 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 670307007769 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 670307007770 PAS fold; Region: PAS_3; pfam08447 670307007771 putative active site [active] 670307007772 heme pocket [chemical binding]; other site 670307007773 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 670307007774 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 670307007775 metal binding site [ion binding]; metal-binding site 670307007776 active site 670307007777 I-site; other site 670307007778 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 670307007779 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 670307007780 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 670307007781 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 670307007782 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 670307007783 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 670307007784 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 670307007785 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 670307007786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307007787 catalytic residue [active] 670307007788 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 670307007789 Protein of unknown function (DUF983); Region: DUF983; cl02211 670307007790 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 670307007791 Subunit III/VIIa interface [polypeptide binding]; other site 670307007792 Phospholipid binding site [chemical binding]; other site 670307007793 Subunit I/III interface [polypeptide binding]; other site 670307007794 Subunit III/VIb interface [polypeptide binding]; other site 670307007795 Subunit III/VIa interface; other site 670307007796 Subunit III/Vb interface [polypeptide binding]; other site 670307007797 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 670307007798 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 670307007799 UbiA prenyltransferase family; Region: UbiA; pfam01040 670307007800 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 670307007801 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 670307007802 Subunit I/III interface [polypeptide binding]; other site 670307007803 D-pathway; other site 670307007804 Subunit I/VIIc interface [polypeptide binding]; other site 670307007805 Subunit I/IV interface [polypeptide binding]; other site 670307007806 Subunit I/II interface [polypeptide binding]; other site 670307007807 Low-spin heme (heme a) binding site [chemical binding]; other site 670307007808 Subunit I/VIIa interface [polypeptide binding]; other site 670307007809 Subunit I/VIa interface [polypeptide binding]; other site 670307007810 Dimer interface; other site 670307007811 Putative water exit pathway; other site 670307007812 Binuclear center (heme a3/CuB) [ion binding]; other site 670307007813 K-pathway; other site 670307007814 Subunit I/Vb interface [polypeptide binding]; other site 670307007815 Putative proton exit pathway; other site 670307007816 Subunit I/VIb interface; other site 670307007817 Subunit I/VIc interface [polypeptide binding]; other site 670307007818 Electron transfer pathway; other site 670307007819 Subunit I/VIIIb interface [polypeptide binding]; other site 670307007820 Subunit I/VIIb interface [polypeptide binding]; other site 670307007821 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 670307007822 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 670307007823 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 670307007824 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 670307007825 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307007826 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307007827 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307007828 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307007829 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 670307007830 Protein of unknown function (DUF533); Region: DUF533; pfam04391 670307007831 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 670307007832 putative metal binding site [ion binding]; other site 670307007833 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 670307007834 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307007835 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 670307007836 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 670307007837 Walker A/P-loop; other site 670307007838 ATP binding site [chemical binding]; other site 670307007839 Q-loop/lid; other site 670307007840 ABC transporter signature motif; other site 670307007841 Walker B; other site 670307007842 D-loop; other site 670307007843 H-loop/switch region; other site 670307007844 DevC protein; Region: devC; TIGR01185 670307007845 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 670307007846 FtsX-like permease family; Region: FtsX; pfam02687 670307007847 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 670307007848 Esterase/lipase [General function prediction only]; Region: COG1647 670307007849 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 670307007850 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 670307007851 aminodeoxychorismate synthase; Provisional; Region: PRK07508 670307007852 chorismate binding enzyme; Region: Chorismate_bind; cl10555 670307007853 hypothetical protein; Provisional; Region: PRK07546 670307007854 substrate-cofactor binding pocket; other site 670307007855 homodimer interface [polypeptide binding]; other site 670307007856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307007857 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 670307007858 catalytic residue [active] 670307007859 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 670307007860 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 670307007861 N- and C-terminal domain interface [polypeptide binding]; other site 670307007862 active site 670307007863 MgATP binding site [chemical binding]; other site 670307007864 catalytic site [active] 670307007865 metal binding site [ion binding]; metal-binding site 670307007866 glycerol binding site [chemical binding]; other site 670307007867 homotetramer interface [polypeptide binding]; other site 670307007868 homodimer interface [polypeptide binding]; other site 670307007869 FBP binding site [chemical binding]; other site 670307007870 protein IIAGlc interface [polypeptide binding]; other site 670307007871 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 670307007872 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 670307007873 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 670307007874 amphipathic channel; other site 670307007875 Asn-Pro-Ala signature motifs; other site 670307007876 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 670307007877 Low molecular weight phosphatase family; Region: LMWPc; cd00115 670307007878 active site 670307007879 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 670307007880 dimerization interface [polypeptide binding]; other site 670307007881 putative DNA binding site [nucleotide binding]; other site 670307007882 putative Zn2+ binding site [ion binding]; other site 670307007883 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 670307007884 Uncharacterized conserved protein [Function unknown]; Region: COG5361 670307007885 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 670307007886 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 670307007887 Helix-turn-helix domain; Region: HTH_18; pfam12833 670307007888 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 670307007889 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 670307007890 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 670307007891 lipoyl attachment site [posttranslational modification]; other site 670307007892 glycine dehydrogenase; Provisional; Region: PRK05367 670307007893 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 670307007894 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 670307007895 catalytic residue [active] 670307007896 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 670307007897 tetramer interface [polypeptide binding]; other site 670307007898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307007899 catalytic residue [active] 670307007900 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 670307007901 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 670307007902 ligand binding site [chemical binding]; other site 670307007903 NAD binding site [chemical binding]; other site 670307007904 dimerization interface [polypeptide binding]; other site 670307007905 catalytic site [active] 670307007906 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 670307007907 putative L-serine binding site [chemical binding]; other site 670307007908 phosphoserine phosphatase SerB; Region: serB; TIGR00338 670307007909 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 670307007910 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 670307007911 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 670307007912 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 670307007913 P-loop; other site 670307007914 Magnesium ion binding site [ion binding]; other site 670307007915 Transglycosylase SLT domain; Region: SLT_2; pfam13406 670307007916 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 670307007917 N-acetyl-D-glucosamine binding site [chemical binding]; other site 670307007918 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 670307007919 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 670307007920 Cl- selectivity filter; other site 670307007921 Cl- binding residues [ion binding]; other site 670307007922 pore gating glutamate residue; other site 670307007923 dimer interface [polypeptide binding]; other site 670307007924 FOG: CBS domain [General function prediction only]; Region: COG0517 670307007925 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 670307007926 Transcriptional regulators [Transcription]; Region: MarR; COG1846 670307007927 MarR family; Region: MarR_2; pfam12802 670307007928 Protein of unknown function (DUF512); Region: DUF512; pfam04459 670307007929 dihydropteroate synthase-related protein; Region: TIGR00284 670307007930 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 670307007931 substrate binding pocket [chemical binding]; other site 670307007932 dimer interface [polypeptide binding]; other site 670307007933 inhibitor binding site; inhibition site 670307007934 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 670307007935 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 670307007936 active site 670307007937 SAM binding site [chemical binding]; other site 670307007938 homodimer interface [polypeptide binding]; other site 670307007939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307007940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307007941 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 670307007942 putative effector binding pocket; other site 670307007943 dimerization interface [polypeptide binding]; other site 670307007944 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 670307007945 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 670307007946 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 670307007947 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 670307007948 Zn binding site [ion binding]; other site 670307007949 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 670307007950 Zn binding site [ion binding]; other site 670307007951 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 670307007952 putative hydrolase; Provisional; Region: PRK11460 670307007953 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 670307007954 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 670307007955 [2Fe-2S] cluster binding site [ion binding]; other site 670307007956 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 670307007957 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 670307007958 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307007959 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 670307007960 Ferritin-like domain; Region: Ferritin; pfam00210 670307007961 dimerization interface [polypeptide binding]; other site 670307007962 DPS ferroxidase diiron center [ion binding]; other site 670307007963 ion pore; other site 670307007964 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 670307007965 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 670307007966 potential frameshift: common BLAST hit: gi|146340219|ref|YP_001205267.1| signal peptide 670307007967 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 670307007968 ligand binding site; other site 670307007969 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 670307007970 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 670307007971 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 670307007972 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 670307007973 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 670307007974 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 670307007975 FHIPEP family; Region: FHIPEP; pfam00771 670307007976 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 670307007977 Rod binding protein; Region: Rod-binding; cl01626 670307007978 CheD chemotactic sensory transduction; Region: CheD; cl00810 670307007979 Response regulator receiver domain; Region: Response_reg; pfam00072 670307007980 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 670307007981 active site 670307007982 phosphorylation site [posttranslational modification] 670307007983 intermolecular recognition site; other site 670307007984 dimerization interface [polypeptide binding]; other site 670307007985 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 670307007986 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 670307007987 active site 670307007988 phosphorylation site [posttranslational modification] 670307007989 intermolecular recognition site; other site 670307007990 dimerization interface [polypeptide binding]; other site 670307007991 CheB methylesterase; Region: CheB_methylest; pfam01339 670307007992 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 670307007993 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 670307007994 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 670307007995 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 670307007996 putative CheA interaction surface; other site 670307007997 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 670307007998 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 670307007999 putative binding surface; other site 670307008000 active site 670307008001 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 670307008002 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 670307008003 ATP binding site [chemical binding]; other site 670307008004 Mg2+ binding site [ion binding]; other site 670307008005 G-X-G motif; other site 670307008006 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 670307008007 Response regulator receiver domain; Region: Response_reg; pfam00072 670307008008 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 670307008009 active site 670307008010 phosphorylation site [posttranslational modification] 670307008011 intermolecular recognition site; other site 670307008012 dimerization interface [polypeptide binding]; other site 670307008013 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 670307008014 anti sigma factor interaction site; other site 670307008015 regulatory phosphorylation site [posttranslational modification]; other site 670307008016 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 670307008017 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 670307008018 dimer interface [polypeptide binding]; other site 670307008019 putative CheW interface [polypeptide binding]; other site 670307008020 PilZ domain; Region: PilZ; pfam07238 670307008021 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 670307008022 PAS domain; Region: PAS_9; pfam13426 670307008023 putative active site [active] 670307008024 heme pocket [chemical binding]; other site 670307008025 PAS fold; Region: PAS_7; pfam12860 670307008026 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 670307008027 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 670307008028 metal binding site [ion binding]; metal-binding site 670307008029 active site 670307008030 I-site; other site 670307008031 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 670307008032 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 670307008033 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 670307008034 metal binding site [ion binding]; metal-binding site 670307008035 active site 670307008036 I-site; other site 670307008037 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 670307008038 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 670307008039 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 670307008040 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 670307008041 Flagellar protein FlaF; Region: FlaF; cl11454 670307008042 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 670307008043 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 670307008044 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 670307008045 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 670307008046 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 670307008047 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 670307008048 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 670307008049 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 670307008050 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 670307008051 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 670307008052 DNA binding site [nucleotide binding] 670307008053 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 670307008054 PilZ domain; Region: PilZ; pfam07238 670307008055 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; cl02542 670307008056 HSP70 interaction site [polypeptide binding]; other site 670307008057 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 670307008058 chemotaxis protein; Reviewed; Region: PRK12798 670307008059 flagellar motor protein MotB; Validated; Region: motB; PRK05996 670307008060 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 670307008061 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 670307008062 ligand binding site [chemical binding]; other site 670307008063 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 670307008064 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 670307008065 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 670307008066 flagellin; Reviewed; Region: PRK12687 670307008067 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 670307008068 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 670307008069 FliP family; Region: FliP; cl00593 670307008070 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 670307008071 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 670307008072 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12788 670307008073 Uncharacterized conserved protein [Function unknown]; Region: COG3334 670307008074 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 670307008075 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 670307008076 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 670307008077 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 670307008078 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 670307008079 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 670307008080 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 670307008081 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 670307008082 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 670307008083 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 670307008084 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 670307008085 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 670307008086 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 670307008087 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 670307008088 FliG C-terminal domain; Region: FliG_C; pfam01706 670307008089 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 670307008090 Flagellar motor switch protein FliM; Region: FliM; pfam02154 670307008091 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 670307008092 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 670307008093 flagellar motor protein MotA; Validated; Region: PRK09110 670307008094 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 670307008095 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 670307008096 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 670307008097 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 670307008098 Walker A motif; other site 670307008099 ATP binding site [chemical binding]; other site 670307008100 Walker B motif; other site 670307008101 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 670307008102 catalytic residue [active] 670307008103 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 670307008104 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 670307008105 FOG: CBS domain [General function prediction only]; Region: COG0517 670307008106 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 670307008107 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307008108 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307008109 LysR substrate binding domain; Region: LysR_substrate; pfam03466 670307008110 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 670307008111 hydroxyglutarate oxidase; Provisional; Region: PRK11728 670307008112 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 670307008113 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 670307008114 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 670307008115 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 670307008116 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 670307008117 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 670307008118 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 670307008119 non-specific DNA binding site [nucleotide binding]; other site 670307008120 salt bridge; other site 670307008121 sequence-specific DNA binding site [nucleotide binding]; other site 670307008122 Cupin domain; Region: Cupin_2; pfam07883 670307008123 Sulfatase; Region: Sulfatase; cl17466 670307008124 Uncharacterized conserved protein [Function unknown]; Region: COG3287 670307008125 FIST N domain; Region: FIST; pfam08495 670307008126 FIST C domain; Region: FIST_C; pfam10442 670307008127 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307008128 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 670307008129 dimer interface [polypeptide binding]; other site 670307008130 phosphorylation site [posttranslational modification] 670307008131 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 670307008132 ATP binding site [chemical binding]; other site 670307008133 Mg2+ binding site [ion binding]; other site 670307008134 G-X-G motif; other site 670307008135 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 670307008136 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 670307008137 active site 670307008138 phosphorylation site [posttranslational modification] 670307008139 intermolecular recognition site; other site 670307008140 dimerization interface [polypeptide binding]; other site 670307008141 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 670307008142 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 670307008143 active site 670307008144 phosphorylation site [posttranslational modification] 670307008145 intermolecular recognition site; other site 670307008146 dimerization interface [polypeptide binding]; other site 670307008147 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 670307008148 DNA binding residues [nucleotide binding] 670307008149 dimerization interface [polypeptide binding]; other site 670307008150 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 670307008151 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 670307008152 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 670307008153 putative NAD(P) binding site [chemical binding]; other site 670307008154 active site 670307008155 putative substrate binding site [chemical binding]; other site 670307008156 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 670307008157 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 670307008158 ATP binding site [chemical binding]; other site 670307008159 putative Mg++ binding site [ion binding]; other site 670307008160 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 670307008161 nucleotide binding region [chemical binding]; other site 670307008162 ATP-binding site [chemical binding]; other site 670307008163 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 670307008164 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 670307008165 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 670307008166 substrate binding site [chemical binding]; other site 670307008167 hexamer interface [polypeptide binding]; other site 670307008168 metal binding site [ion binding]; metal-binding site 670307008169 phosphoribulokinase; Provisional; Region: PRK15453 670307008170 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 670307008171 AMP binding site [chemical binding]; other site 670307008172 metal binding site [ion binding]; metal-binding site 670307008173 active site 670307008174 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 670307008175 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 670307008176 active site 670307008177 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 670307008178 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 670307008179 Potassium binding sites [ion binding]; other site 670307008180 Cesium cation binding sites [ion binding]; other site 670307008181 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 670307008182 putative dimer interface [polypeptide binding]; other site 670307008183 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 670307008184 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 670307008185 active site 670307008186 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 670307008187 phosphopeptide binding site; other site 670307008188 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 670307008189 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 670307008190 phosphopeptide binding site; other site 670307008191 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 670307008192 Catalytic domain of Protein Kinases; Region: PKc; cd00180 670307008193 active site 670307008194 ATP binding site [chemical binding]; other site 670307008195 substrate binding site [chemical binding]; other site 670307008196 activation loop (A-loop); other site 670307008197 FOG: WD40 repeat [General function prediction only]; Region: COG2319 670307008198 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 670307008199 structural tetrad; other site 670307008200 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 670307008201 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 670307008202 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 670307008203 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 670307008204 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 670307008205 Catalytic site; other site 670307008206 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 670307008207 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 670307008208 Fatty acid desaturase; Region: FA_desaturase; pfam00487 670307008209 putative di-iron ligands [ion binding]; other site 670307008210 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 670307008211 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 670307008212 S-adenosylmethionine binding site [chemical binding]; other site 670307008213 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 670307008214 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 670307008215 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 670307008216 CoA binding domain; Region: CoA_binding; smart00881 670307008217 CoA-ligase; Region: Ligase_CoA; pfam00549 670307008218 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 670307008219 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 670307008220 CoA-ligase; Region: Ligase_CoA; pfam00549 670307008221 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 670307008222 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 670307008223 homodimer interface [polypeptide binding]; other site 670307008224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307008225 catalytic residue [active] 670307008226 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 670307008227 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 670307008228 active site 670307008229 phosphorylation site [posttranslational modification] 670307008230 intermolecular recognition site; other site 670307008231 dimerization interface [polypeptide binding]; other site 670307008232 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 670307008233 dimerization interface [polypeptide binding]; other site 670307008234 DNA binding residues [nucleotide binding] 670307008235 Staphylococcal nuclease homologues; Region: SNc; smart00318 670307008236 Catalytic site; other site 670307008237 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 670307008238 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 670307008239 Ferredoxin [Energy production and conversion]; Region: COG1146 670307008240 4Fe-4S binding domain; Region: Fer4; pfam00037 670307008241 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 670307008242 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 670307008243 RNA binding surface [nucleotide binding]; other site 670307008244 DEAD-like helicases superfamily; Region: DEXDc; smart00487 670307008245 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 670307008246 ATP binding site [chemical binding]; other site 670307008247 putative Mg++ binding site [ion binding]; other site 670307008248 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 670307008249 nucleotide binding region [chemical binding]; other site 670307008250 ATP-binding site [chemical binding]; other site 670307008251 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 670307008252 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 670307008253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 670307008254 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 670307008255 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 670307008256 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 670307008257 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 670307008258 metal ion-dependent adhesion site (MIDAS); other site 670307008259 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 670307008260 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 670307008261 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 670307008262 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 670307008263 HSP70 interaction site [polypeptide binding]; other site 670307008264 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 670307008265 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 670307008266 Domain of unknown function DUF21; Region: DUF21; pfam01595 670307008267 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 670307008268 Transporter associated domain; Region: CorC_HlyC; smart01091 670307008269 shikimate kinase; Provisional; Region: PRK13946 670307008270 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 670307008271 ADP binding site [chemical binding]; other site 670307008272 magnesium binding site [ion binding]; other site 670307008273 putative shikimate binding site; other site 670307008274 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 670307008275 active site 670307008276 dimer interface [polypeptide binding]; other site 670307008277 metal binding site [ion binding]; metal-binding site 670307008278 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 670307008279 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 670307008280 active site 670307008281 DNA binding site [nucleotide binding] 670307008282 Int/Topo IB signature motif; other site 670307008283 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 670307008284 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 670307008285 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 670307008286 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 670307008287 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 670307008288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 670307008289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 670307008290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 670307008291 hypothetical protein; Provisional; Region: PRK05208 670307008292 Nodulation protein Z (NodZ); Region: NodZ; pfam05830 670307008293 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 670307008294 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 670307008295 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 670307008296 SEC-C motif; Region: SEC-C; pfam02810 670307008297 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 670307008298 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 670307008299 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 670307008300 heterotetramer interface [polypeptide binding]; other site 670307008301 active site pocket [active] 670307008302 cleavage site 670307008303 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 670307008304 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 670307008305 active site 670307008306 8-oxo-dGMP binding site [chemical binding]; other site 670307008307 nudix motif; other site 670307008308 metal binding site [ion binding]; metal-binding site 670307008309 Methyltransferase domain; Region: Methyltransf_23; pfam13489 670307008310 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 670307008311 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 670307008312 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 670307008313 GSH binding site [chemical binding]; other site 670307008314 catalytic residues [active] 670307008315 nitrilase; Region: PLN02798 670307008316 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 670307008317 putative active site [active] 670307008318 catalytic triad [active] 670307008319 dimer interface [polypeptide binding]; other site 670307008320 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 670307008321 biotin synthase; Region: bioB; TIGR00433 670307008322 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 670307008323 FeS/SAM binding site; other site 670307008324 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 670307008325 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 670307008326 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 670307008327 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 670307008328 catalytic residue [active] 670307008329 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 670307008330 AAA domain; Region: AAA_26; pfam13500 670307008331 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 670307008332 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 670307008333 inhibitor-cofactor binding pocket; inhibition site 670307008334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307008335 catalytic residue [active] 670307008336 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 670307008337 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 670307008338 dimer interface [polypeptide binding]; other site 670307008339 active site 670307008340 CoA binding pocket [chemical binding]; other site 670307008341 YceI-like domain; Region: YceI; cl01001 670307008342 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 670307008343 Hemin uptake protein hemP; Region: hemP; pfam10636 670307008344 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 670307008345 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 670307008346 ATP binding site [chemical binding]; other site 670307008347 Mg2+ binding site [ion binding]; other site 670307008348 G-X-G motif; other site 670307008349 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 670307008350 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 670307008351 active site 670307008352 phosphorylation site [posttranslational modification] 670307008353 intermolecular recognition site; other site 670307008354 dimerization interface [polypeptide binding]; other site 670307008355 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 670307008356 DNA binding site [nucleotide binding] 670307008357 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 670307008358 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 670307008359 putative substrate translocation pore; other site 670307008360 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 670307008361 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 670307008362 NAD(P) binding pocket [chemical binding]; other site 670307008363 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 670307008364 RNA/DNA hybrid binding site [nucleotide binding]; other site 670307008365 active site 670307008366 HAD-superfamily subfamily IIA hydrolase, TIGR01458; Region: HAD-SF-IIA-hyp3 670307008367 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 670307008368 active site 670307008369 motif I; other site 670307008370 motif II; other site 670307008371 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 670307008372 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 670307008373 S-adenosylmethionine binding site [chemical binding]; other site 670307008374 Cupin; Region: Cupin_6; pfam12852 670307008375 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 670307008376 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 670307008377 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 670307008378 Domain of unknown function DUF20; Region: UPF0118; pfam01594 670307008379 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 670307008380 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 670307008381 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307008382 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307008383 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 670307008384 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 670307008385 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 670307008386 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 670307008387 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 670307008388 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 670307008389 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 670307008390 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 670307008391 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 670307008392 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 670307008393 Sulfate transporter family; Region: Sulfate_transp; pfam00916 670307008394 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 670307008395 phosphate acetyltransferase; Provisional; Region: PRK11890 670307008396 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 670307008397 propionate/acetate kinase; Provisional; Region: PRK12379 670307008398 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 670307008399 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 670307008400 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 670307008401 NAD binding site [chemical binding]; other site 670307008402 homotetramer interface [polypeptide binding]; other site 670307008403 homodimer interface [polypeptide binding]; other site 670307008404 substrate binding site [chemical binding]; other site 670307008405 active site 670307008406 potential protein location (hypothetical protein jgi_39343 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-R) 670307008407 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 670307008408 YGGT family; Region: YGGT; pfam02325 670307008409 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 670307008410 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 670307008411 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 670307008412 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 670307008413 homodimer interface [polypeptide binding]; other site 670307008414 NADP binding site [chemical binding]; other site 670307008415 substrate binding site [chemical binding]; other site 670307008416 KTSC domain; Region: KTSC; pfam13619 670307008417 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 670307008418 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 670307008419 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 670307008420 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 670307008421 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 670307008422 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 670307008423 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 670307008424 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 670307008425 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 670307008426 glutathione synthetase; Provisional; Region: PRK05246 670307008427 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 670307008428 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 670307008429 primosome assembly protein PriA; Validated; Region: PRK05580 670307008430 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 670307008431 ATP binding site [chemical binding]; other site 670307008432 putative Mg++ binding site [ion binding]; other site 670307008433 helicase superfamily c-terminal domain; Region: HELICc; smart00490 670307008434 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 670307008435 active site 670307008436 intersubunit interactions; other site 670307008437 catalytic residue [active] 670307008438 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 670307008439 FAD binding domain; Region: FAD_binding_4; pfam01565 670307008440 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 670307008441 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 670307008442 active site 670307008443 DNA binding site [nucleotide binding] 670307008444 Int/Topo IB signature motif; other site 670307008445 TraB family; Region: TraB; cl12050 670307008446 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 670307008447 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 670307008448 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307008449 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 670307008450 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 670307008451 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 670307008452 E3 interaction surface; other site 670307008453 lipoyl attachment site [posttranslational modification]; other site 670307008454 e3 binding domain; Region: E3_binding; pfam02817 670307008455 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 670307008456 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 670307008457 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 670307008458 TPP-binding site [chemical binding]; other site 670307008459 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 670307008460 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 670307008461 CoA binding domain; Region: CoA_binding; smart00881 670307008462 CoA-ligase; Region: Ligase_CoA; pfam00549 670307008463 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 670307008464 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 670307008465 CoA-ligase; Region: Ligase_CoA; pfam00549 670307008466 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 670307008467 malate dehydrogenase; Reviewed; Region: PRK06223 670307008468 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 670307008469 NAD(P) binding site [chemical binding]; other site 670307008470 dimer interface [polypeptide binding]; other site 670307008471 tetramer (dimer of dimers) interface [polypeptide binding]; other site 670307008472 substrate binding site [chemical binding]; other site 670307008473 Predicted ATPase [General function prediction only]; Region: COG1485 670307008474 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 670307008475 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 670307008476 Coenzyme A binding pocket [chemical binding]; other site 670307008477 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 670307008478 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 670307008479 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 670307008480 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 670307008481 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 670307008482 L-aspartate oxidase; Provisional; Region: PRK06175 670307008483 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 670307008484 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 670307008485 putative SdhC subunit interface [polypeptide binding]; other site 670307008486 putative proximal heme binding site [chemical binding]; other site 670307008487 putative Iron-sulfur protein interface [polypeptide binding]; other site 670307008488 putative proximal quinone binding site; other site 670307008489 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 670307008490 Iron-sulfur protein interface; other site 670307008491 proximal quinone binding site [chemical binding]; other site 670307008492 SdhD (CybS) interface [polypeptide binding]; other site 670307008493 proximal heme binding site [chemical binding]; other site 670307008494 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 670307008495 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 670307008496 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 670307008497 putative active site [active] 670307008498 putative catalytic site [active] 670307008499 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 670307008500 putative active site [active] 670307008501 putative catalytic site [active] 670307008502 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 670307008503 pyridoxamine kinase; Validated; Region: PRK05756 670307008504 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 670307008505 dimer interface [polypeptide binding]; other site 670307008506 pyridoxal binding site [chemical binding]; other site 670307008507 ATP binding site [chemical binding]; other site 670307008508 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 670307008509 ArsC family; Region: ArsC; pfam03960 670307008510 catalytic residues [active] 670307008511 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 670307008512 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 670307008513 active site clefts [active] 670307008514 zinc binding site [ion binding]; other site 670307008515 dimer interface [polypeptide binding]; other site 670307008516 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 670307008517 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 670307008518 catalytic residues [active] 670307008519 central insert; other site 670307008520 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 670307008521 heme exporter protein CcmC; Region: ccmC; TIGR01191 670307008522 heme exporter protein CcmB; Region: ccmB; TIGR01190 670307008523 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 670307008524 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307008525 Walker A/P-loop; other site 670307008526 ATP binding site [chemical binding]; other site 670307008527 Q-loop/lid; other site 670307008528 ABC transporter signature motif; other site 670307008529 Walker B; other site 670307008530 D-loop; other site 670307008531 H-loop/switch region; other site 670307008532 aconitate hydratase; Validated; Region: PRK09277 670307008533 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 670307008534 substrate binding site [chemical binding]; other site 670307008535 ligand binding site [chemical binding]; other site 670307008536 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 670307008537 substrate binding site [chemical binding]; other site 670307008538 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 670307008539 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 670307008540 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 670307008541 active site 670307008542 Zn binding site [ion binding]; other site 670307008543 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 670307008544 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 670307008545 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 670307008546 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 670307008547 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 670307008548 FtsX-like permease family; Region: FtsX; pfam02687 670307008549 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 670307008550 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 670307008551 Walker A/P-loop; other site 670307008552 ATP binding site [chemical binding]; other site 670307008553 Q-loop/lid; other site 670307008554 ABC transporter signature motif; other site 670307008555 Walker B; other site 670307008556 D-loop; other site 670307008557 H-loop/switch region; other site 670307008558 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 670307008559 active site 670307008560 catalytic triad [active] 670307008561 oxyanion hole [active] 670307008562 switch loop; other site 670307008563 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 670307008564 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 670307008565 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 670307008566 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 670307008567 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 670307008568 NAD(P) binding site [chemical binding]; other site 670307008569 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 670307008570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 670307008571 Smr domain; Region: Smr; pfam01713 670307008572 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 670307008573 MltA specific insert domain; Region: MltA; smart00925 670307008574 3D domain; Region: 3D; pfam06725 670307008575 Tim44-like domain; Region: Tim44; pfam04280 670307008576 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 670307008577 Preprotein translocase subunit SecB; Region: SecB; pfam02556 670307008578 SecA binding site; other site 670307008579 Preprotein binding site; other site 670307008580 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 670307008581 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 670307008582 active site 670307008583 catalytic site [active] 670307008584 substrate binding site [chemical binding]; other site 670307008585 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 670307008586 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 670307008587 CoA-binding site [chemical binding]; other site 670307008588 ATP-binding [chemical binding]; other site 670307008589 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 670307008590 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 670307008591 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 670307008592 shikimate binding site; other site 670307008593 NAD(P) binding site [chemical binding]; other site 670307008594 Maf-like protein; Region: Maf; pfam02545 670307008595 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 670307008596 active site 670307008597 dimer interface [polypeptide binding]; other site 670307008598 PEP synthetase regulatory protein; Provisional; Region: PRK05339 670307008599 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 670307008600 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 670307008601 substrate binding site [chemical binding]; other site 670307008602 active site 670307008603 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 670307008604 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 670307008605 active site 670307008606 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 670307008607 transcription termination factor Rho; Provisional; Region: rho; PRK09376 670307008608 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 670307008609 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 670307008610 RNA binding site [nucleotide binding]; other site 670307008611 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 670307008612 multimer interface [polypeptide binding]; other site 670307008613 Walker A motif; other site 670307008614 ATP binding site [chemical binding]; other site 670307008615 Walker B motif; other site 670307008616 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 670307008617 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 670307008618 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 670307008619 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 670307008620 catalytic residues [active] 670307008621 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 670307008622 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 670307008623 trmE is a tRNA modification GTPase; Region: trmE; cd04164 670307008624 G1 box; other site 670307008625 GTP/Mg2+ binding site [chemical binding]; other site 670307008626 Switch I region; other site 670307008627 G2 box; other site 670307008628 Switch II region; other site 670307008629 G3 box; other site 670307008630 G4 box; other site 670307008631 G5 box; other site 670307008632 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 670307008633 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 670307008634 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 670307008635 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 670307008636 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 670307008637 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 670307008638 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 670307008639 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 670307008640 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 670307008641 P-loop; other site 670307008642 Magnesium ion binding site [ion binding]; other site 670307008643 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 670307008644 Magnesium ion binding site [ion binding]; other site 670307008645 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 670307008646 ParB-like nuclease domain; Region: ParB; smart00470 670307008647 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 670307008648 metal binding site [ion binding]; metal-binding site 670307008649 pantothenate kinase; Provisional; Region: PRK05439 670307008650 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 670307008651 ATP-binding site [chemical binding]; other site 670307008652 CoA-binding site [chemical binding]; other site 670307008653 Mg2+-binding site [ion binding]; other site 670307008654 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 670307008655 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 670307008656 substrate binding site [chemical binding]; other site 670307008657 ATP binding site [chemical binding]; other site 670307008658 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 670307008659 Lipopolysaccharide-assembly; Region: LptE; cl01125 670307008660 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 670307008661 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 670307008662 HIGH motif; other site 670307008663 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 670307008664 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 670307008665 active site 670307008666 KMSKS motif; other site 670307008667 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 670307008668 tRNA binding surface [nucleotide binding]; other site 670307008669 Fic family protein [Function unknown]; Region: COG3177 670307008670 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 670307008671 Fic/DOC family; Region: Fic; pfam02661 670307008672 Domain of unknown function (DUF336); Region: DUF336; pfam03928 670307008673 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 670307008674 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 670307008675 catalytic residue [active] 670307008676 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 670307008677 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 670307008678 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 670307008679 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 670307008680 active site 670307008681 catalytic tetrad [active] 670307008682 TIGR02594 family protein; Region: TIGR02594 670307008683 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 670307008684 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 670307008685 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 670307008686 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 670307008687 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 670307008688 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 670307008689 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 670307008690 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 670307008691 ligand binding site [chemical binding]; other site 670307008692 flexible hinge region; other site 670307008693 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 670307008694 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 670307008695 active site 670307008696 phosphorylation site [posttranslational modification] 670307008697 intermolecular recognition site; other site 670307008698 dimerization interface [polypeptide binding]; other site 670307008699 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 670307008700 DNA binding site [nucleotide binding] 670307008701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 670307008702 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 670307008703 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 670307008704 Nitrogen regulatory protein P-II; Region: P-II; smart00938 670307008705 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 670307008706 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 670307008707 active site 670307008708 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 670307008709 catalytic triad [active] 670307008710 dimer interface [polypeptide binding]; other site 670307008711 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 670307008712 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 670307008713 RimM N-terminal domain; Region: RimM; pfam01782 670307008714 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 670307008715 PRC-barrel domain; Region: PRC; pfam05239 670307008716 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 670307008717 signal recognition particle protein; Provisional; Region: PRK10867 670307008718 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 670307008719 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 670307008720 P loop; other site 670307008721 GTP binding site [chemical binding]; other site 670307008722 Signal peptide binding domain; Region: SRP_SPB; pfam02978 670307008723 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 670307008724 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 670307008725 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 670307008726 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 670307008727 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 670307008728 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 670307008729 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 670307008730 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 670307008731 FeS/SAM binding site; other site 670307008732 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 670307008733 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 670307008734 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 670307008735 P loop; other site 670307008736 GTP binding site [chemical binding]; other site 670307008737 Intracellular septation protein A; Region: IspA; pfam04279 670307008738 intracellular septation protein A; Reviewed; Region: PRK00259 670307008739 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 670307008740 MarR family; Region: MarR_2; pfam12802 670307008741 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 670307008742 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 670307008743 tartrate dehydrogenase; Region: TTC; TIGR02089 670307008744 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 670307008745 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 670307008746 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 670307008747 catalytic core [active] 670307008748 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 670307008749 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 670307008750 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 670307008751 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 670307008752 dimer interface [polypeptide binding]; other site 670307008753 substrate binding site [chemical binding]; other site 670307008754 metal binding sites [ion binding]; metal-binding site 670307008755 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 670307008756 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 670307008757 Coenzyme A binding pocket [chemical binding]; other site 670307008758 Phasin protein; Region: Phasin_2; cl11491 670307008759 PIF1-like helicase; Region: PIF1; pfam05970 670307008760 AAA domain; Region: AAA_30; pfam13604 670307008761 Helicase; Region: Herpes_Helicase; pfam02689 670307008762 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 670307008763 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 670307008764 G1 box; other site 670307008765 putative GEF interaction site [polypeptide binding]; other site 670307008766 GTP/Mg2+ binding site [chemical binding]; other site 670307008767 Switch I region; other site 670307008768 G2 box; other site 670307008769 G3 box; other site 670307008770 Switch II region; other site 670307008771 G4 box; other site 670307008772 G5 box; other site 670307008773 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 670307008774 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 670307008775 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 670307008776 Peptidase family M50; Region: Peptidase_M50; pfam02163 670307008777 active site 670307008778 putative substrate binding region [chemical binding]; other site 670307008779 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 670307008780 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 670307008781 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 670307008782 putative active site; other site 670307008783 catalytic triad [active] 670307008784 putative dimer interface [polypeptide binding]; other site 670307008785 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 670307008786 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 670307008787 argininosuccinate synthase; Provisional; Region: PRK13820 670307008788 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 670307008789 ANP binding site [chemical binding]; other site 670307008790 Substrate Binding Site II [chemical binding]; other site 670307008791 Substrate Binding Site I [chemical binding]; other site 670307008792 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 670307008793 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 670307008794 FeS/SAM binding site; other site 670307008795 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 670307008796 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 670307008797 Walker A motif; other site 670307008798 ATP binding site [chemical binding]; other site 670307008799 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 670307008800 Walker B motif; other site 670307008801 arginine finger; other site 670307008802 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 670307008803 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 670307008804 active site 670307008805 HslU subunit interaction site [polypeptide binding]; other site 670307008806 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 670307008807 putative active site pocket [active] 670307008808 4-fold oligomerization interface [polypeptide binding]; other site 670307008809 metal binding residues [ion binding]; metal-binding site 670307008810 3-fold/trimer interface [polypeptide binding]; other site 670307008811 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 670307008812 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 670307008813 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 670307008814 putative active site [active] 670307008815 oxyanion strand; other site 670307008816 catalytic triad [active] 670307008817 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 670307008818 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 670307008819 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 670307008820 catalytic residues [active] 670307008821 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 670307008822 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 670307008823 G1 box; other site 670307008824 putative GEF interaction site [polypeptide binding]; other site 670307008825 GTP/Mg2+ binding site [chemical binding]; other site 670307008826 Switch I region; other site 670307008827 G2 box; other site 670307008828 G3 box; other site 670307008829 Switch II region; other site 670307008830 G4 box; other site 670307008831 G5 box; other site 670307008832 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 670307008833 AAA domain; Region: AAA_13; pfam13166 670307008834 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 670307008835 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 670307008836 substrate binding site [chemical binding]; other site 670307008837 glutamase interaction surface [polypeptide binding]; other site 670307008838 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 670307008839 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 670307008840 minor groove reading motif; other site 670307008841 helix-hairpin-helix signature motif; other site 670307008842 substrate binding pocket [chemical binding]; other site 670307008843 active site 670307008844 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 670307008845 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 670307008846 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 670307008847 dimer interface [polypeptide binding]; other site 670307008848 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 670307008849 active site 670307008850 metal binding site [ion binding]; metal-binding site 670307008851 glutathione binding site [chemical binding]; other site 670307008852 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 670307008853 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 670307008854 substrate binding site [chemical binding]; other site 670307008855 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 670307008856 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 670307008857 Methyltransferase domain; Region: Methyltransf_23; pfam13489 670307008858 Autoinducer synthetase; Region: Autoind_synth; cl17404 670307008859 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 670307008860 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 670307008861 substrate binding site [chemical binding]; other site 670307008862 ligand binding site [chemical binding]; other site 670307008863 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307008864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307008865 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 670307008866 putative effector binding pocket; other site 670307008867 dimerization interface [polypeptide binding]; other site 670307008868 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 670307008869 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307008870 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 670307008871 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 670307008872 putative substrate translocation pore; other site 670307008873 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 670307008874 MPN+ (JAMM) motif; other site 670307008875 Zinc-binding site [ion binding]; other site 670307008876 Predicted deacetylase [General function prediction only]; Region: COG3233 670307008877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 670307008878 Transposase; Region: HTH_Tnp_1; cl17663 670307008879 HTH-like domain; Region: HTH_21; pfam13276 670307008880 Integrase core domain; Region: rve; pfam00665 670307008881 Integrase core domain; Region: rve_3; pfam13683 670307008882 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 670307008883 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 670307008884 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 670307008885 DNA binding residues [nucleotide binding] 670307008886 dimer interface [polypeptide binding]; other site 670307008887 putative metal binding site [ion binding]; other site 670307008888 hypothetical protein; Provisional; Region: PRK02237 670307008889 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 670307008890 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 670307008891 DNA binding residues [nucleotide binding] 670307008892 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 670307008893 dimer interface [polypeptide binding]; other site 670307008894 putative metal binding site [ion binding]; other site 670307008895 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 670307008896 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 670307008897 metal-binding site [ion binding] 670307008898 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307008899 Soluble P-type ATPase [General function prediction only]; Region: COG4087 670307008900 Helix-turn-helix domain; Region: HTH_17; pfam12728 670307008901 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 670307008902 putative lipid kinase; Reviewed; Region: PRK13057 670307008903 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 670307008904 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 670307008905 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 670307008906 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 670307008907 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 670307008908 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 670307008909 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 670307008910 PAP2_like_2 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_2; cd03392 670307008911 active site 670307008912 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 670307008913 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 670307008914 active site 670307008915 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 670307008916 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 670307008917 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 670307008918 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 670307008919 catalytic residue [active] 670307008920 putative FPP diphosphate binding site; other site 670307008921 putative FPP binding hydrophobic cleft; other site 670307008922 dimer interface [polypeptide binding]; other site 670307008923 putative IPP diphosphate binding site; other site 670307008924 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 670307008925 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307008926 Outer membrane efflux protein; Region: OEP; pfam02321 670307008927 Outer membrane efflux protein; Region: OEP; pfam02321 670307008928 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 670307008929 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 670307008930 dimerization interface [polypeptide binding]; other site 670307008931 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 670307008932 dimer interface [polypeptide binding]; other site 670307008933 phosphorylation site [posttranslational modification] 670307008934 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 670307008935 ATP binding site [chemical binding]; other site 670307008936 Mg2+ binding site [ion binding]; other site 670307008937 G-X-G motif; other site 670307008938 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 670307008939 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 670307008940 active site 670307008941 phosphorylation site [posttranslational modification] 670307008942 intermolecular recognition site; other site 670307008943 dimerization interface [polypeptide binding]; other site 670307008944 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 670307008945 DNA binding site [nucleotide binding] 670307008946 Autoinducer binding domain; Region: Autoind_bind; pfam03472 670307008947 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 670307008948 DNA binding residues [nucleotide binding] 670307008949 dimerization interface [polypeptide binding]; other site 670307008950 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 670307008951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 670307008952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 670307008953 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 670307008954 dimerization interface [polypeptide binding]; other site 670307008955 substrate binding pocket [chemical binding]; other site 670307008956 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 670307008957 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 670307008958 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 670307008959 VirB7 interaction site; other site 670307008960 conjugal transfer protein TrbF; Provisional; Region: PRK13872 670307008961 conjugal transfer protein TrbL; Provisional; Region: PRK13875 670307008962 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 670307008963 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 670307008964 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 670307008965 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 670307008966 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 670307008967 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 670307008968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 670307008969 Walker A/P-loop; other site 670307008970 ATP binding site [chemical binding]; other site 670307008971 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 670307008972 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 670307008973 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 670307008974 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 670307008975 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 670307008976 ATP binding site [chemical binding]; other site 670307008977 Walker A motif; other site 670307008978 hexamer interface [polypeptide binding]; other site 670307008979 Walker B motif; other site 670307008980 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 670307008981 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 670307008982 Walker A motif; other site 670307008983 ATP binding site [chemical binding]; other site 670307008984 Walker B motif; other site 670307008985 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 670307008986 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 670307008987 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 670307008988 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 670307008989 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 670307008990 N-acetyl-D-glucosamine binding site [chemical binding]; other site 670307008991 catalytic residue [active] 670307008992 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 670307008993 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 670307008994 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 670307008995 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 670307008996 P-loop; other site 670307008997 Magnesium ion binding site [ion binding]; other site 670307008998 Replication initiator protein A; Region: RPA; pfam10134 670307008999 Helix-turn-helix domain; Region: HTH_17; pfam12728 670307009000 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 670307009001 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 670307009002 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 670307009003 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 670307009004 putative active site [active] 670307009005 Predicted membrane protein [Function unknown]; Region: COG4280 670307009006 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 670307009007 active site 670307009008 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 670307009009 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 670307009010 active site 670307009011 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 670307009012 Uncharacterized conserved protein [Function unknown]; Region: COG5489 670307009013 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 670307009014 Toprim domain; Region: Toprim_3; pfam13362 670307009015 Methyltransferase domain; Region: Methyltransf_26; pfam13659 670307009016 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 670307009017 Helicase_C-like; Region: Helicase_C_4; pfam13871 670307009018 ParB-like nuclease domain; Region: ParBc; pfam02195 670307009019 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 670307009020 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 670307009021 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 670307009022 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 670307009023 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 670307009024 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 670307009025 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 670307009026 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 670307009027 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 670307009028 active site 670307009029 integrase; Provisional; Region: PRK09692 670307009030 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 670307009031 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 670307009032 active site 670307009033 DNA binding site [nucleotide binding] 670307009034 Int/Topo IB signature motif; other site 670307009035 hypothetical protein; Reviewed; Region: PRK00024 670307009036 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 670307009037 MPN+ (JAMM) motif; other site 670307009038 Zinc-binding site [ion binding]; other site 670307009039 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 670307009040 active site 670307009041 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 670307009042 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 670307009043 ligand binding site [chemical binding]; other site 670307009044 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 670307009045 Uncharacterized conserved protein [Function unknown]; Region: COG3743 670307009046 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 670307009047 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 670307009048 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 670307009049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 670307009050 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 670307009051 active site 670307009052 dimer interface [polypeptide binding]; other site 670307009053 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 670307009054 Predicted flavoprotein [General function prediction only]; Region: COG0431 670307009055 chaperone protein DnaJ; Provisional; Region: PRK10767 670307009056 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 670307009057 HSP70 interaction site [polypeptide binding]; other site 670307009058 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 670307009059 substrate binding site [polypeptide binding]; other site 670307009060 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 670307009061 Zn binding sites [ion binding]; other site 670307009062 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 670307009063 dimer interface [polypeptide binding]; other site 670307009064 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 670307009065 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 670307009066 nucleotide binding site [chemical binding]; other site 670307009067 NEF interaction site [polypeptide binding]; other site 670307009068 SBD interface [polypeptide binding]; other site 670307009069 heat shock protein GrpE; Provisional; Region: PRK14141 670307009070 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 670307009071 dimer interface [polypeptide binding]; other site 670307009072 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 670307009073 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 670307009074 ribonuclease PH; Reviewed; Region: rph; PRK00173 670307009075 Ribonuclease PH; Region: RNase_PH_bact; cd11362 670307009076 hexamer interface [polypeptide binding]; other site 670307009077 active site 670307009078 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 670307009079 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 670307009080 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 670307009081 putative metal binding site [ion binding]; other site 670307009082 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 670307009083 active site 670307009084 dimerization interface [polypeptide binding]; other site 670307009085 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 670307009086 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 670307009087 FeS/SAM binding site; other site 670307009088 HemN C-terminal domain; Region: HemN_C; pfam06969 670307009089 Predicted membrane protein [Function unknown]; Region: COG1238 670307009090 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 670307009091 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 670307009092 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 670307009093 active site 670307009094 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 670307009095 active site 670307009096 HIGH motif; other site 670307009097 nucleotide binding site [chemical binding]; other site 670307009098 active site 670307009099 KMSKS motif; other site 670307009100 Predicted methyltransferases [General function prediction only]; Region: COG0313 670307009101 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 670307009102 putative SAM binding site [chemical binding]; other site 670307009103 putative homodimer interface [polypeptide binding]; other site 670307009104 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 670307009105 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 670307009106 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 670307009107 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 670307009108 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 670307009109 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 670307009110 beta subunit interaction interface [polypeptide binding]; other site 670307009111 Walker A motif; other site 670307009112 ATP binding site [chemical binding]; other site 670307009113 Walker B motif; other site 670307009114 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 670307009115 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 670307009116 core domain interface [polypeptide binding]; other site 670307009117 delta subunit interface [polypeptide binding]; other site 670307009118 epsilon subunit interface [polypeptide binding]; other site 670307009119 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 670307009120 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 670307009121 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 670307009122 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 670307009123 alpha subunit interaction interface [polypeptide binding]; other site 670307009124 Walker A motif; other site 670307009125 ATP binding site [chemical binding]; other site 670307009126 Walker B motif; other site 670307009127 inhibitor binding site; inhibition site 670307009128 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 670307009129 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 670307009130 gamma subunit interface [polypeptide binding]; other site 670307009131 epsilon subunit interface [polypeptide binding]; other site 670307009132 LBP interface [polypeptide binding]; other site 670307009133 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 670307009134 putative active site [active] 670307009135 Ap4A binding site [chemical binding]; other site 670307009136 nudix motif; other site 670307009137 putative metal binding site [ion binding]; other site 670307009138 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 670307009139 putative active site [active] 670307009140 Ap4A binding site [chemical binding]; other site 670307009141 nudix motif; other site 670307009142 putative metal binding site [ion binding]; other site 670307009143 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 670307009144 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 670307009145 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 670307009146 protein binding site [polypeptide binding]; other site 670307009147 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 670307009148 Catalytic dyad [active] 670307009149 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 670307009150 Peptidase family M23; Region: Peptidase_M23; pfam01551 670307009151 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 670307009152 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 670307009153 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 670307009154 Ligand binding site [chemical binding]; other site 670307009155 Electron transfer flavoprotein domain; Region: ETF; pfam01012 670307009156 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_alpha; cd01715 670307009157 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 670307009158 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 670307009159 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 670307009160 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 670307009161 Double zinc ribbon; Region: DZR; pfam12773 670307009162 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 670307009163 classical (c) SDRs; Region: SDR_c; cd05233 670307009164 NAD(P) binding site [chemical binding]; other site 670307009165 active site 670307009166 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 670307009167 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 670307009168 motif II; other site 670307009169 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 670307009170 feedback inhibition sensing region; other site 670307009171 homohexameric interface [polypeptide binding]; other site 670307009172 nucleotide binding site [chemical binding]; other site 670307009173 N-acetyl-L-glutamate binding site [chemical binding]; other site 670307009174 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 670307009175 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 670307009176 G1 box; other site 670307009177 GTP/Mg2+ binding site [chemical binding]; other site 670307009178 Switch I region; other site 670307009179 G2 box; other site 670307009180 G3 box; other site 670307009181 Switch II region; other site 670307009182 G4 box; other site 670307009183 G5 box; other site 670307009184 membrane protein insertase; Provisional; Region: PRK01318 670307009185 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 670307009186 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 670307009187 mercuric reductase; Validated; Region: PRK06370 670307009188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 670307009189 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 670307009190 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307009191 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 670307009192 ATP binding site [chemical binding]; other site 670307009193 Mg2+ binding site [ion binding]; other site 670307009194 G-X-G motif; other site 670307009195 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 670307009196 Ferredoxin [Energy production and conversion]; Region: COG1146 670307009197 4Fe-4S binding domain; Region: Fer4; pfam00037 670307009198 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 670307009199 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 670307009200 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 670307009201 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 670307009202 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 670307009203 active site residues [active] 670307009204 dimer interface [polypeptide binding]; other site 670307009205 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 670307009206 Protein of unknown function, DUF; Region: DUF411; cl01142 670307009207 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 670307009208 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 670307009209 active site residue [active] 670307009210 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 670307009211 active site residue [active] 670307009212 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 670307009213 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 670307009214 dimer interface [polypeptide binding]; other site 670307009215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307009216 catalytic residue [active] 670307009217 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 670307009218 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 670307009219 HAMP domain; Region: HAMP; pfam00672 670307009220 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 670307009221 dimer interface [polypeptide binding]; other site 670307009222 phosphorylation site [posttranslational modification] 670307009223 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 670307009224 ATP binding site [chemical binding]; other site 670307009225 Mg2+ binding site [ion binding]; other site 670307009226 G-X-G motif; other site 670307009227 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 670307009228 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 670307009229 active site 670307009230 phosphorylation site [posttranslational modification] 670307009231 intermolecular recognition site; other site 670307009232 dimerization interface [polypeptide binding]; other site 670307009233 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 670307009234 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 670307009235 active site 670307009236 phosphorylation site [posttranslational modification] 670307009237 intermolecular recognition site; other site 670307009238 dimerization interface [polypeptide binding]; other site 670307009239 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 670307009240 DNA binding residues [nucleotide binding] 670307009241 dimerization interface [polypeptide binding]; other site 670307009242 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 670307009243 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 670307009244 active site 670307009245 phosphorylation site [posttranslational modification] 670307009246 intermolecular recognition site; other site 670307009247 dimerization interface [polypeptide binding]; other site 670307009248 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 670307009249 PAS fold; Region: PAS_4; pfam08448 670307009250 PAS domain S-box; Region: sensory_box; TIGR00229 670307009251 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 670307009252 putative active site [active] 670307009253 heme pocket [chemical binding]; other site 670307009254 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 670307009255 HWE histidine kinase; Region: HWE_HK; pfam07536 670307009256 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 670307009257 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 670307009258 active site 670307009259 phosphorylation site [posttranslational modification] 670307009260 intermolecular recognition site; other site 670307009261 dimerization interface [polypeptide binding]; other site 670307009262 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 670307009263 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 670307009264 dimer interface [polypeptide binding]; other site 670307009265 active site 670307009266 CoA binding pocket [chemical binding]; other site 670307009267 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 670307009268 classical (c) SDRs; Region: SDR_c; cd05233 670307009269 NAD(P) binding site [chemical binding]; other site 670307009270 active site 670307009271 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 670307009272 ligand binding site [chemical binding]; other site 670307009273 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 670307009274 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 670307009275 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 670307009276 HlyD family secretion protein; Region: HlyD_3; pfam13437 670307009277 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 670307009278 non-specific DNA binding site [nucleotide binding]; other site 670307009279 salt bridge; other site 670307009280 sequence-specific DNA binding site [nucleotide binding]; other site 670307009281 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 670307009282 salt bridge; other site 670307009283 non-specific DNA binding site [nucleotide binding]; other site 670307009284 sequence-specific DNA binding site [nucleotide binding]; other site 670307009285 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 670307009286 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 670307009287 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 670307009288 integrase; Provisional; Region: PRK09692 670307009289 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 670307009290 active site 670307009291 DNA binding site [nucleotide binding] 670307009292 Int/Topo IB signature motif; other site 670307009293 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 670307009294 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 670307009295 leucoanthocyanidin dioxygenase like protein; Region: PLN02393 670307009296 TIR domain; Region: TIR_2; pfam13676 670307009297 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 670307009298 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 670307009299 HemY protein N-terminus; Region: HemY_N; pfam07219 670307009300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 670307009301 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 670307009302 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 670307009303 active site 670307009304 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 670307009305 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 670307009306 domain interfaces; other site 670307009307 active site 670307009308 UGMP family protein; Validated; Region: PRK09604 670307009309 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 670307009310 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 670307009311 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 670307009312 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 670307009313 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 670307009314 EVE domain; Region: EVE; cl00728 670307009315 Predicted methyltransferase [General function prediction only]; Region: COG3897 670307009316 acetyl-CoA synthetase; Provisional; Region: PRK00174 670307009317 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 670307009318 active site 670307009319 CoA binding site [chemical binding]; other site 670307009320 acyl-activating enzyme (AAE) consensus motif; other site 670307009321 AMP binding site [chemical binding]; other site 670307009322 acetate binding site [chemical binding]; other site 670307009323 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 670307009324 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 670307009325 Peptidase family M48; Region: Peptidase_M48; cl12018 670307009326 NusB family; Region: NusB; pfam01029 670307009327 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 670307009328 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 670307009329 S-adenosylmethionine binding site [chemical binding]; other site 670307009330 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 670307009331 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 670307009332 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 670307009333 purine monophosphate binding site [chemical binding]; other site 670307009334 dimer interface [polypeptide binding]; other site 670307009335 putative catalytic residues [active] 670307009336 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 670307009337 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 670307009338 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 670307009339 Predicted membrane protein [Function unknown]; Region: COG3762 670307009340 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 670307009341 Repair protein; Region: Repair_PSII; pfam04536 670307009342 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 670307009343 potential protein location (hypothetical protein jgi_41433 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-G) 670307009344 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 670307009345 putative deacylase active site [active] 670307009346 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 670307009347 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 670307009348 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 670307009349 TPR motif; other site 670307009350 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 670307009351 Uncharacterized conserved protein [Function unknown]; Region: COG2835 670307009352 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 670307009353 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 670307009354 putative active site [active] 670307009355 heme pocket [chemical binding]; other site 670307009356 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 670307009357 dimer interface [polypeptide binding]; other site 670307009358 phosphorylation site [posttranslational modification] 670307009359 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 670307009360 ATP binding site [chemical binding]; other site 670307009361 Mg2+ binding site [ion binding]; other site 670307009362 G-X-G motif; other site 670307009363 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 670307009364 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 670307009365 active site 670307009366 phosphorylation site [posttranslational modification] 670307009367 intermolecular recognition site; other site 670307009368 dimerization interface [polypeptide binding]; other site 670307009369 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 670307009370 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 670307009371 MutS domain I; Region: MutS_I; pfam01624 670307009372 MutS domain II; Region: MutS_II; pfam05188 670307009373 MutS domain III; Region: MutS_III; pfam05192 670307009374 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 670307009375 Walker A/P-loop; other site 670307009376 ATP binding site [chemical binding]; other site 670307009377 Q-loop/lid; other site 670307009378 ABC transporter signature motif; other site 670307009379 Walker B; other site 670307009380 D-loop; other site 670307009381 H-loop/switch region; other site 670307009382 PII uridylyl-transferase; Provisional; Region: PRK05092 670307009383 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 670307009384 metal binding triad; other site 670307009385 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 670307009386 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 670307009387 Zn2+ binding site [ion binding]; other site 670307009388 Mg2+ binding site [ion binding]; other site 670307009389 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 670307009390 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 670307009391 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 670307009392 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 670307009393 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 670307009394 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 670307009395 active site 670307009396 HIGH motif; other site 670307009397 dimer interface [polypeptide binding]; other site 670307009398 KMSKS motif; other site 670307009399 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 670307009400 Ligand Binding Site [chemical binding]; other site 670307009401 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 670307009402 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 670307009403 Nitroreductase-like family 5. 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_5; cd02148 670307009404 putative FMN binding site [chemical binding]; other site 670307009405 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 670307009406 Glycoprotease family; Region: Peptidase_M22; pfam00814 670307009407 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 670307009408 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 670307009409 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 670307009410 metal binding site 2 [ion binding]; metal-binding site 670307009411 putative DNA binding helix; other site 670307009412 metal binding site 1 [ion binding]; metal-binding site 670307009413 dimer interface [polypeptide binding]; other site 670307009414 structural Zn2+ binding site [ion binding]; other site 670307009415 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 670307009416 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 670307009417 putative acyl-acceptor binding pocket; other site 670307009418 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 670307009419 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 670307009420 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 670307009421 FeS/SAM binding site; other site 670307009422 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 670307009423 PhoH-like protein; Region: PhoH; pfam02562 670307009424 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 670307009425 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 670307009426 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 670307009427 Transporter associated domain; Region: CorC_HlyC; smart01091 670307009428 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 670307009429 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 670307009430 putative active site [active] 670307009431 catalytic triad [active] 670307009432 putative dimer interface [polypeptide binding]; other site 670307009433 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 670307009434 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 670307009435 non-specific DNA binding site [nucleotide binding]; other site 670307009436 salt bridge; other site 670307009437 sequence-specific DNA binding site [nucleotide binding]; other site 670307009438 S-adenosylmethionine synthetase; Validated; Region: PRK05250 670307009439 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 670307009440 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 670307009441 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 670307009442 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 670307009443 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 670307009444 Sm and related proteins; Region: Sm_like; cl00259 670307009445 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 670307009446 putative oligomer interface [polypeptide binding]; other site 670307009447 putative RNA binding site [nucleotide binding]; other site 670307009448 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 670307009449 NusA N-terminal domain; Region: NusA_N; pfam08529 670307009450 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 670307009451 RNA binding site [nucleotide binding]; other site 670307009452 homodimer interface [polypeptide binding]; other site 670307009453 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 670307009454 G-X-X-G motif; other site 670307009455 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 670307009456 G-X-X-G motif; other site 670307009457 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 670307009458 hypothetical protein; Provisional; Region: PRK09190 670307009459 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 670307009460 putative RNA binding cleft [nucleotide binding]; other site 670307009461 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 670307009462 translation initiation factor IF-2; Validated; Region: infB; PRK05306 670307009463 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 670307009464 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 670307009465 G1 box; other site 670307009466 putative GEF interaction site [polypeptide binding]; other site 670307009467 GTP/Mg2+ binding site [chemical binding]; other site 670307009468 Switch I region; other site 670307009469 G2 box; other site 670307009470 G3 box; other site 670307009471 Switch II region; other site 670307009472 G4 box; other site 670307009473 G5 box; other site 670307009474 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 670307009475 Translation-initiation factor 2; Region: IF-2; pfam11987 670307009476 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 670307009477 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 670307009478 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 670307009479 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 670307009480 RNA binding site [nucleotide binding]; other site 670307009481 active site 670307009482 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 670307009483 16S/18S rRNA binding site [nucleotide binding]; other site 670307009484 S13e-L30e interaction site [polypeptide binding]; other site 670307009485 25S rRNA binding site [nucleotide binding]; other site 670307009486 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 670307009487 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 670307009488 RNase E interface [polypeptide binding]; other site 670307009489 trimer interface [polypeptide binding]; other site 670307009490 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 670307009491 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 670307009492 RNase E interface [polypeptide binding]; other site 670307009493 trimer interface [polypeptide binding]; other site 670307009494 active site 670307009495 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 670307009496 putative nucleic acid binding region [nucleotide binding]; other site 670307009497 G-X-X-G motif; other site 670307009498 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 670307009499 RNA binding site [nucleotide binding]; other site 670307009500 domain interface; other site 670307009501 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 670307009502 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 670307009503 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 670307009504 NAD binding site [chemical binding]; other site 670307009505 homotetramer interface [polypeptide binding]; other site 670307009506 homodimer interface [polypeptide binding]; other site 670307009507 substrate binding site [chemical binding]; other site 670307009508 active site 670307009509 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 670307009510 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 670307009511 dimer interface [polypeptide binding]; other site 670307009512 active site 670307009513 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 670307009514 active site 2 [active] 670307009515 active site 1 [active] 670307009516 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 670307009517 metal binding site 2 [ion binding]; metal-binding site 670307009518 putative DNA binding helix; other site 670307009519 metal binding site 1 [ion binding]; metal-binding site 670307009520 dimer interface [polypeptide binding]; other site 670307009521 structural Zn2+ binding site [ion binding]; other site 670307009522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 670307009523 Bacterial SH3 domain; Region: SH3_4; pfam06347 670307009524 Bacterial SH3 domain; Region: SH3_4; pfam06347 670307009525 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 670307009526 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 670307009527 dimerization interface [polypeptide binding]; other site 670307009528 ligand binding site [chemical binding]; other site 670307009529 NADP binding site [chemical binding]; other site 670307009530 catalytic site [active] 670307009531 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 670307009532 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 670307009533 ATP binding site [chemical binding]; other site 670307009534 substrate interface [chemical binding]; other site 670307009535 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 670307009536 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 670307009537 dimer interface [polypeptide binding]; other site 670307009538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 670307009539 catalytic residue [active] 670307009540 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 670307009541 trimer interface [polypeptide binding]; other site 670307009542 active site 670307009543 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 670307009544 Flavoprotein; Region: Flavoprotein; pfam02441 670307009545 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 670307009546 Protein of unknown function (DUF461); Region: DUF461; pfam04314 670307009547 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 670307009548 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 670307009549 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 670307009550 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 670307009551 dimer interface [polypeptide binding]; other site 670307009552 phosphorylation site [posttranslational modification] 670307009553 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 670307009554 ATP binding site [chemical binding]; other site 670307009555 Mg2+ binding site [ion binding]; other site 670307009556 G-X-G motif; other site 670307009557 Predicted integral membrane protein [Function unknown]; Region: COG0392 670307009558 Uncharacterized conserved protein [Function unknown]; Region: COG2898 670307009559 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 670307009560 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 670307009561 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 670307009562 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 670307009563 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 670307009564 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 670307009565 S-adenosylmethionine binding site [chemical binding]; other site 670307009566 aspartate kinase; Reviewed; Region: PRK06635 670307009567 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 670307009568 putative nucleotide binding site [chemical binding]; other site 670307009569 putative catalytic residues [active] 670307009570 putative Mg ion binding site [ion binding]; other site 670307009571 putative aspartate binding site [chemical binding]; other site 670307009572 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 670307009573 putative allosteric regulatory site; other site 670307009574 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 670307009575 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 670307009576 GAF domain; Region: GAF; pfam01590 670307009577 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 670307009578 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 670307009579 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 670307009580 Helix-turn-helix domain; Region: HTH_25; pfam13413 670307009581 peptide chain release factor 1; Validated; Region: prfA; PRK00591 670307009582 This domain is found in peptide chain release factors; Region: PCRF; smart00937 670307009583 RF-1 domain; Region: RF-1; pfam00472 670307009584 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 670307009585 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 670307009586 S-adenosylmethionine binding site [chemical binding]; other site 670307009587 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 670307009588 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 670307009589 Clp amino terminal domain; Region: Clp_N; pfam02861 670307009590 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 670307009591 Walker A motif; other site 670307009592 ATP binding site [chemical binding]; other site 670307009593 Walker B motif; other site 670307009594 arginine finger; other site 670307009595 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 670307009596 Walker A motif; other site 670307009597 ATP binding site [chemical binding]; other site 670307009598 Walker B motif; other site 670307009599 arginine finger; other site 670307009600 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 670307009601 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 670307009602 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 670307009603 Peptidase family M23; Region: Peptidase_M23; pfam01551 670307009604 potential RNA of insufficient length (16S ribosomal RNA) 670307009605 potential protein location (hypothetical protein jgi_41768 [Hyphomicrobium denitrificans 1NES1]) that overlaps RNA (tRNA-A) 670307009606 potential RNA of insufficient length (23S ribosomal RNA) 670307009607 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 670307009608 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 670307009609 active site 670307009610 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 670307009611 putative deacylase active site [active] 670307009612 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 670307009613 Iron permease FTR1 family; Region: FTR1; cl00475 670307009614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 670307009615 SnoaL-like domain; Region: SnoaL_2; pfam12680 670307009616 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 670307009617 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 670307009618 ABC1 family; Region: ABC1; cl17513 670307009619 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 670307009620 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 670307009621 S-adenosylmethionine binding site [chemical binding]; other site 670307009622 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 670307009623 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 670307009624 DNA binding site [nucleotide binding] 670307009625 catalytic residue [active] 670307009626 H2TH interface [polypeptide binding]; other site 670307009627 putative catalytic residues [active] 670307009628 turnover-facilitating residue; other site 670307009629 intercalation triad [nucleotide binding]; other site 670307009630 8OG recognition residue [nucleotide binding]; other site 670307009631 putative reading head residues; other site 670307009632 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 670307009633 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 670307009634 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 670307009635 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 670307009636 active site residue [active]