-- dump date 20120504_162041 -- class Genbank::misc_feature -- table misc_feature_note -- id note 158189000001 hypothetical protein; Validated; Region: PRK06672 158189000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 158189000003 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 158189000004 Walker A motif; other site 158189000005 ATP binding site [chemical binding]; other site 158189000006 Walker B motif; other site 158189000007 arginine finger; other site 158189000008 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 158189000009 DnaA box-binding interface [nucleotide binding]; other site 158189000010 DNA polymerase III subunit beta; Provisional; Region: PRK14940 158189000011 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 158189000012 putative DNA binding surface [nucleotide binding]; other site 158189000013 dimer interface [polypeptide binding]; other site 158189000014 beta-clamp/clamp loader binding surface; other site 158189000015 beta-clamp/translesion DNA polymerase binding surface; other site 158189000016 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 158189000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000018 Walker A/P-loop; other site 158189000019 ATP binding site [chemical binding]; other site 158189000020 Q-loop/lid; other site 158189000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000022 ABC transporter signature motif; other site 158189000023 Walker B; other site 158189000024 D-loop; other site 158189000025 H-loop/switch region; other site 158189000026 Protein of unknown function (DUF721); Region: DUF721; cl02324 158189000027 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 158189000028 Ribonuclease P; Region: Ribonuclease_P; cl00457 158189000029 membrane protein insertase; Provisional; Region: PRK01318 158189000030 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 158189000031 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 158189000032 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 158189000033 G-X-X-G motif; other site 158189000034 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 158189000035 RxxxH motif; other site 158189000036 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 158189000037 ATP cone domain; Region: ATP-cone; pfam03477 158189000038 Class III ribonucleotide reductase; Region: RNR_III; cd01675 158189000039 effector binding site; other site 158189000040 active site 158189000041 Zn binding site [ion binding]; other site 158189000042 glycine loop; other site 158189000043 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 158189000044 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 158189000045 FeS/SAM binding site; other site 158189000046 S-adenosylmethionine synthetase; Validated; Region: PRK05250 158189000047 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 158189000048 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 158189000049 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 158189000050 Helix-turn-helix domains; Region: HTH; cl00088 158189000051 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 158189000052 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 adenosine...; Region: adenosine_kinase; cd01168 158189000053 substrate binding site [chemical binding]; other site 158189000054 ATP binding site [chemical binding]; other site 158189000055 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 158189000056 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 158189000057 hinge; other site 158189000058 active site 158189000059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 158189000060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189000061 metal binding site [ion binding]; metal-binding site 158189000062 active site 158189000063 I-site; other site 158189000064 FeoA domain; Region: FeoA; cl00838 158189000065 FeoA domain; Region: FeoA; cl00838 158189000066 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 158189000067 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 158189000068 G1 box; other site 158189000069 GTP/Mg2+ binding site [chemical binding]; other site 158189000070 Switch I region; other site 158189000071 G2 box; other site 158189000072 G3 box; other site 158189000073 Switch II region; other site 158189000074 G4 box; other site 158189000075 G5 box; other site 158189000076 Nucleoside recognition; Region: Gate; cl00486 158189000077 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 158189000078 Nucleoside recognition; Region: Gate; cl00486 158189000079 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 158189000080 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 158189000081 Walker A motif; other site 158189000082 ATP binding site [chemical binding]; other site 158189000083 Walker B motif; other site 158189000084 arginine finger; other site 158189000085 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 158189000086 C-terminal peptidase (prc); Region: prc; TIGR00225 158189000087 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 158189000088 protein binding site [polypeptide binding]; other site 158189000089 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 158189000090 Catalytic dyad [active] 158189000091 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 158189000092 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 158189000093 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 158189000094 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 158189000095 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 158189000096 active site 158189000097 Sulfatase; Region: Sulfatase; cl10460 158189000098 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 158189000099 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 158189000100 active site 158189000101 catalytic tetrad [active] 158189000102 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 158189000103 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 158189000104 active site 158189000105 catalytic site [active] 158189000106 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 158189000107 putative active site [active] 158189000108 catalytic residue [active] 158189000109 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 158189000110 Domain of unknown function DUF39; Region: DUF39; cl14897 158189000111 NIL domain; Region: NIL; cl09633 158189000112 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 158189000113 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 158189000114 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 158189000115 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 158189000116 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 158189000117 substrate binding pocket [chemical binding]; other site 158189000118 dimer interface [polypeptide binding]; other site 158189000119 inhibitor binding site; inhibition site 158189000120 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 158189000121 B12 binding site [chemical binding]; other site 158189000122 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 158189000123 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 158189000124 endonuclease III; Region: ENDO3c; smart00478 158189000125 minor groove reading motif; other site 158189000126 helix-hairpin-helix signature motif; other site 158189000127 substrate binding pocket [chemical binding]; other site 158189000128 active site 158189000129 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 158189000130 NeuB family; Region: NeuB; cl00496 158189000131 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 158189000132 Prephenate dehydratase; Region: PDT; pfam00800 158189000133 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 158189000134 putative L-Phe binding site [chemical binding]; other site 158189000135 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 158189000136 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 158189000137 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 158189000138 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 158189000139 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 158189000140 HIGH motif; other site 158189000141 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158189000142 active site 158189000143 KMSKS motif; other site 158189000144 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 158189000145 tRNA binding surface [nucleotide binding]; other site 158189000146 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 158189000147 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 158189000148 Domain of unknown function DUF21; Region: DUF21; pfam01595 158189000149 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 158189000150 Transporter associated domain; Region: CorC_HlyC; cl08393 158189000151 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189000152 Coenzyme A binding pocket [chemical binding]; other site 158189000153 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 158189000154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189000155 Coenzyme A binding pocket [chemical binding]; other site 158189000156 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 158189000157 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 158189000158 YhhN-like protein; Region: YhhN; cl01505 158189000159 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 158189000160 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 158189000161 ATP binding site [chemical binding]; other site 158189000162 Mg2+ binding site [ion binding]; other site 158189000163 G-X-G motif; other site 158189000164 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 158189000165 ATP binding site [chemical binding]; other site 158189000166 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 158189000167 active site 158189000168 putative metal-binding site [ion binding]; other site 158189000169 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 158189000170 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 158189000171 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cl00148 158189000172 CAP-like domain; other site 158189000173 active site 158189000174 primary dimer interface [polypeptide binding]; other site 158189000175 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 158189000176 active site 158189000177 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 158189000178 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 158189000179 TPP-binding site [chemical binding]; other site 158189000180 dimer interface [polypeptide binding]; other site 158189000181 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 158189000182 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 158189000183 PYR/PP interface [polypeptide binding]; other site 158189000184 dimer interface [polypeptide binding]; other site 158189000185 TPP binding site [chemical binding]; other site 158189000186 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158189000187 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189000188 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189000189 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189000190 DctM-like transporters; Region: DctM; pfam06808 158189000191 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189000192 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189000193 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189000194 catalytic residue [active] 158189000195 Cupin domain; Region: Cupin_2; cl09118 158189000196 Transcriptional regulators [Transcription]; Region: FadR; COG2186 158189000197 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189000198 DNA-binding site [nucleotide binding]; DNA binding site 158189000199 FCD domain; Region: FCD; cl11656 158189000200 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; cl09944 158189000201 phosphorylation site [posttranslational modification] 158189000202 intermolecular recognition site; other site 158189000203 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 158189000204 glutamate dehydrogenase; Provisional; Region: PRK09414 158189000205 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 158189000206 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 158189000207 NAD(P) binding site [chemical binding]; other site 158189000208 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 158189000209 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 158189000210 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 158189000211 active site 158189000212 dimer interface [polypeptide binding]; other site 158189000213 effector binding site; other site 158189000214 TSCPD domain; Region: TSCPD; cl14834 158189000215 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 158189000216 putative substrate translocation pore; other site 158189000217 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 158189000218 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 158189000219 dimer interface [polypeptide binding]; other site 158189000220 PYR/PP interface [polypeptide binding]; other site 158189000221 TPP binding site [chemical binding]; other site 158189000222 substrate binding site [chemical binding]; other site 158189000223 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 158189000224 Domain of unknown function; Region: EKR; cl11037 158189000225 4Fe-4S binding domain; Region: Fer4; cl02805 158189000226 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 158189000227 TPP-binding site [chemical binding]; other site 158189000228 dimer interface [polypeptide binding]; other site 158189000229 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158189000230 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 158189000231 ligand binding site [chemical binding]; other site 158189000232 calcium binding site [ion binding]; other site 158189000233 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189000234 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 158189000235 Walker A/P-loop; other site 158189000236 ATP binding site [chemical binding]; other site 158189000237 Q-loop/lid; other site 158189000238 ABC transporter signature motif; other site 158189000239 Walker B; other site 158189000240 D-loop; other site 158189000241 H-loop/switch region; other site 158189000242 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189000243 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189000244 TM-ABC transporter signature motif; other site 158189000245 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 158189000246 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 158189000247 substrate binding site [chemical binding]; other site 158189000248 hexamer interface [polypeptide binding]; other site 158189000249 metal binding site [ion binding]; metal-binding site 158189000250 KduI/IolB family; Region: KduI; cl01508 158189000251 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189000252 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189000253 DNA-binding site [nucleotide binding]; DNA binding site 158189000254 FCD domain; Region: FCD; cl11656 158189000255 DctM-like transporters; Region: DctM; pfam06808 158189000256 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189000257 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189000258 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189000259 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189000260 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 158189000261 Cache domain; Region: Cache_1; pfam02743 158189000262 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 158189000263 dimerization interface [polypeptide binding]; other site 158189000264 Histidine kinase; Region: His_kinase; pfam06580 158189000265 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 158189000266 ATP binding site [chemical binding]; other site 158189000267 Mg2+ binding site [ion binding]; other site 158189000268 G-X-G motif; other site 158189000269 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 158189000270 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 158189000271 active site 158189000272 phosphorylation site [posttranslational modification] 158189000273 intermolecular recognition site; other site 158189000274 dimerization interface [polypeptide binding]; other site 158189000275 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189000276 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189000277 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 158189000278 dimer interface [polypeptide binding]; other site 158189000279 FMN binding site [chemical binding]; other site 158189000280 NADPH bind site [chemical binding]; other site 158189000281 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 158189000282 putative substrate translocation pore; other site 158189000283 Nitroreductase-like family 2. 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_2; cd02138 158189000284 putative FMN binding site [chemical binding]; other site 158189000285 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 158189000286 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 158189000287 Rubredoxin; Region: Rubredoxin; pfam00301 158189000288 iron binding site [ion binding]; other site 158189000289 Predicted transcriptional regulator [Transcription]; Region: COG2378 158189000290 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 158189000291 DNA-binding interface [nucleotide binding]; DNA binding site 158189000292 SlyX; Region: SlyX; cl01090 158189000293 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 158189000294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000295 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 158189000296 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 158189000297 active site residue [active] 158189000298 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; cl00436 158189000299 CPxP motif; other site 158189000300 DsrE/DsrF-like family; Region: DrsE; cl00672 158189000301 Helix-turn-helix domains; Region: HTH; cl00088 158189000302 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189000303 DctM-like transporters; Region: DctM; pfam06808 158189000304 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189000305 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189000306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000307 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158189000308 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189000309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000310 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158189000311 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189000312 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189000313 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189000314 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189000315 DNA-binding site [nucleotide binding]; DNA binding site 158189000316 FCD domain; Region: FCD; cl11656 158189000317 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 158189000318 active site 158189000319 catalytic triad [active] 158189000320 oxyanion hole [active] 158189000321 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 158189000322 putative catalytic site [active] 158189000323 putative metal binding site [ion binding]; other site 158189000324 putative phosphate binding site [ion binding]; other site 158189000325 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189000326 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 158189000327 dimer interface [polypeptide binding]; other site 158189000328 conserved gate region; other site 158189000329 putative PBP binding loops; other site 158189000330 ABC-ATPase subunit interface; other site 158189000331 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189000332 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 158189000333 dimer interface [polypeptide binding]; other site 158189000334 conserved gate region; other site 158189000335 putative PBP binding loops; other site 158189000336 ABC-ATPase subunit interface; other site 158189000337 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 158189000338 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189000339 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189000340 DNA binding site [nucleotide binding] 158189000341 domain linker motif; other site 158189000342 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189000343 dimerization interface [polypeptide binding]; other site 158189000344 ligand binding site [chemical binding]; other site 158189000345 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 158189000346 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189000347 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 158189000348 putative trimer interface [polypeptide binding]; other site 158189000349 putative CoA binding site [chemical binding]; other site 158189000350 Helix-turn-helix domains; Region: HTH; cl00088 158189000351 CTP synthetase; Validated; Region: pyrG; PRK05380 158189000352 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 158189000353 Catalytic site [active] 158189000354 active site 158189000355 UTP binding site [chemical binding]; other site 158189000356 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 158189000357 active site 158189000358 putative oxyanion hole; other site 158189000359 catalytic triad [active] 158189000360 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; cl09944 158189000361 active site 158189000362 phosphorylation site [posttranslational modification] 158189000363 intermolecular recognition site; other site 158189000364 dimerization interface [polypeptide binding]; other site 158189000365 ANTAR domain; Region: ANTAR; cl04297 158189000366 glutamine synthetase, type I; Region: GlnA; TIGR00653 158189000367 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 158189000368 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 158189000369 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 158189000370 domain_subunit interface; other site 158189000371 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 158189000372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000373 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 158189000374 4Fe-4S binding domain; Region: Fer4; cl02805 158189000375 Ferredoxin [Energy production and conversion]; Region: COG1146 158189000376 4Fe-4S binding domain; Region: Fer4; cl02805 158189000377 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 158189000378 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 158189000379 active site 158189000380 FMN binding site [chemical binding]; other site 158189000381 substrate binding site [chemical binding]; other site 158189000382 3Fe-4S cluster binding site [ion binding]; other site 158189000383 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 158189000384 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 158189000385 putative active site [active] 158189000386 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 158189000387 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 158189000388 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 158189000389 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 158189000390 PAS fold; Region: PAS_4; pfam08448 158189000391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189000392 metal binding site [ion binding]; metal-binding site 158189000393 active site 158189000394 I-site; other site 158189000395 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 158189000396 PAS domain S-box; Region: sensory_box; TIGR00229 158189000397 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 158189000398 putative active site [active] 158189000399 heme pocket [chemical binding]; other site 158189000400 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189000401 metal binding site [ion binding]; metal-binding site 158189000402 active site 158189000403 I-site; other site 158189000404 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189000405 Zn2+ binding site [ion binding]; other site 158189000406 Mg2+ binding site [ion binding]; other site 158189000407 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG1102 158189000408 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000409 active site 158189000410 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189000411 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 158189000412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000413 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 158189000414 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 158189000415 heterotetramer interface [polypeptide binding]; other site 158189000416 active site pocket [active] 158189000417 cleavage site 158189000418 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 158189000419 feedback inhibition sensing region; other site 158189000420 homohexameric interface [polypeptide binding]; other site 158189000421 nucleotide binding site [chemical binding]; other site 158189000422 N-acetyl-L-glutamate binding site [chemical binding]; other site 158189000423 acetylornithine aminotransferase; Provisional; Region: PRK02627 158189000424 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 158189000425 inhibitor-cofactor binding pocket; inhibition site 158189000426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189000427 catalytic residue [active] 158189000428 asparagine synthetase B; Provisional; Region: asnB; PRK09431 158189000429 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 158189000430 active site 158189000431 dimer interface [polypeptide binding]; other site 158189000432 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 158189000433 Ligand Binding Site [chemical binding]; other site 158189000434 Molecular Tunnel; other site 158189000435 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 158189000436 Cadmium resistance transporter; Region: Cad; cl04177 158189000437 Helix-turn-helix domains; Region: HTH; cl00088 158189000438 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189000439 DNA binding site [nucleotide binding] 158189000440 domain linker motif; other site 158189000441 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 158189000442 ligand binding site [chemical binding]; other site 158189000443 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 158189000444 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189000445 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 158189000446 dimer interface [polypeptide binding]; other site 158189000447 conserved gate region; other site 158189000448 putative PBP binding loops; other site 158189000449 ABC-ATPase subunit interface; other site 158189000450 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189000451 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 158189000452 dimer interface [polypeptide binding]; other site 158189000453 conserved gate region; other site 158189000454 putative PBP binding loops; other site 158189000455 ABC-ATPase subunit interface; other site 158189000456 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 158189000457 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 158189000458 active site 158189000459 homotrimer interface [polypeptide binding]; other site 158189000460 catalytic site [active] 158189000461 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 158189000462 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 158189000463 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 158189000464 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 158189000465 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 158189000466 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 158189000467 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 158189000468 S-adenosylmethionine binding site [chemical binding]; other site 158189000469 Divergent AAA domain; Region: AAA_4; pfam04326 158189000470 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 158189000471 Helix-turn-helix domains; Region: HTH; cl00088 158189000472 RelB antitoxin; Region: RelB; cl01171 158189000473 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 158189000474 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 158189000475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000476 NAD(P) binding site [chemical binding]; other site 158189000477 active site 158189000478 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189000479 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158189000480 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189000481 Helix-turn-helix domains; Region: HTH; cl00088 158189000482 FtsX-like permease family; Region: FtsX; pfam02687 158189000483 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158189000484 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 158189000485 Walker A/P-loop; other site 158189000486 ATP binding site [chemical binding]; other site 158189000487 Q-loop/lid; other site 158189000488 ABC transporter signature motif; other site 158189000489 Walker B; other site 158189000490 D-loop; other site 158189000491 H-loop/switch region; other site 158189000492 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189000493 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189000494 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 158189000495 non-specific DNA binding site [nucleotide binding]; other site 158189000496 salt bridge; other site 158189000497 sequence-specific DNA binding site [nucleotide binding]; other site 158189000498 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 158189000499 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 158189000500 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 158189000501 catalytic residues [active] 158189000502 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 158189000503 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 158189000504 Protein of unknown function (DUF419); Region: DUF419; cl15265 158189000505 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 158189000506 S-adenosylmethionine binding site [chemical binding]; other site 158189000507 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189000508 Peptidase family M23; Region: Peptidase_M23; pfam01551 158189000509 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000510 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 158189000511 H+ Antiporter protein; Region: 2A0121; TIGR00900 158189000512 putative substrate translocation pore; other site 158189000513 peptidase; Reviewed; Region: PRK13004 158189000514 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 158189000515 putative metal binding site [ion binding]; other site 158189000516 putative dimer interface [polypeptide binding]; other site 158189000517 CHASE3 domain; Region: CHASE3; cl05000 158189000518 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 158189000519 PAS fold; Region: PAS_3; pfam08447 158189000520 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 158189000521 PAS domain S-box; Region: sensory_box; TIGR00229 158189000522 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 158189000523 PAS fold; Region: PAS_4; pfam08448 158189000524 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 158189000525 putative active site [active] 158189000526 heme pocket [chemical binding]; other site 158189000527 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189000528 metal binding site [ion binding]; metal-binding site 158189000529 active site 158189000530 I-site; other site 158189000531 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189000532 Zn2+ binding site [ion binding]; other site 158189000533 Mg2+ binding site [ion binding]; other site 158189000534 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 158189000535 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189000536 peroxiredoxin; Provisional; Region: PRK13189 158189000537 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 158189000538 dimer interface [polypeptide binding]; other site 158189000539 decamer (pentamer of dimers) interface [polypeptide binding]; other site 158189000540 catalytic triad [active] 158189000541 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 158189000542 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 158189000543 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 158189000544 Cupin domain; Region: Cupin_2; cl09118 158189000545 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 158189000546 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 158189000547 ligand binding site [chemical binding]; other site 158189000548 flexible hinge region; other site 158189000549 Helix-turn-helix domains; Region: HTH; cl00088 158189000550 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 158189000551 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 158189000552 KamA family protein; Region: TIGR00238; cl15377 158189000553 Predicted membrane protein [Function unknown]; Region: COG4129 158189000554 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189000555 ligand binding site [chemical binding]; other site 158189000556 dimerization interface [polypeptide binding]; other site 158189000557 Histidine kinase; Region: HisKA_3; pfam07730 158189000558 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 158189000559 ATP binding site [chemical binding]; other site 158189000560 Mg2+ binding site [ion binding]; other site 158189000561 G-X-G motif; other site 158189000562 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 158189000563 Response regulator receiver domain; Region: Response_reg; pfam00072 158189000564 active site 158189000565 phosphorylation site [posttranslational modification] 158189000566 intermolecular recognition site; other site 158189000567 dimerization interface [polypeptide binding]; other site 158189000568 glycerate dehydrogenase; Provisional; Region: PRK06487 158189000569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000570 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 158189000571 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 158189000572 dimer interface [polypeptide binding]; other site 158189000573 active site 158189000574 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158189000575 catalytic residues [active] 158189000576 substrate binding site [chemical binding]; other site 158189000577 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 158189000578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000579 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 158189000580 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 158189000581 inhibitor site; inhibition site 158189000582 active site 158189000583 dimer interface [polypeptide binding]; other site 158189000584 catalytic residue [active] 158189000585 Archaeal ATPase; Region: Arch_ATPase; pfam01637 158189000586 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 158189000587 Helix-turn-helix domains; Region: HTH; cl00088 158189000588 Transcriptional regulator [Transcription]; Region: IclR; COG1414 158189000589 Bacterial transcriptional regulator; Region: IclR; pfam01614 158189000590 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 158189000591 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 158189000592 active site 158189000593 tetramer interface [polypeptide binding]; other site 158189000594 Membrane transport protein; Region: Mem_trans; cl09117 158189000595 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189000596 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 158189000597 galactarate dehydratase; Region: galactar-dH20; TIGR03248 158189000598 SAF domain; Region: SAF; cl00555 158189000599 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 158189000600 TIGR04076 family protein; Region: TIGR04076 158189000601 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 158189000602 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 158189000603 active site 158189000604 dimer interface [polypeptide binding]; other site 158189000605 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 158189000606 active site 158189000607 trimer interface [polypeptide binding]; other site 158189000608 allosteric site; other site 158189000609 active site lid [active] 158189000610 hexamer (dimer of trimers) interface [polypeptide binding]; other site 158189000611 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189000612 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189000613 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189000614 DctM-like transporters; Region: DctM; pfam06808 158189000615 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189000616 Cupin domain; Region: Cupin_2; cl09118 158189000617 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189000618 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189000619 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189000620 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 158189000621 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 158189000622 non-specific DNA binding site [nucleotide binding]; other site 158189000623 salt bridge; other site 158189000624 sequence-specific DNA binding site [nucleotide binding]; other site 158189000625 Domain of unknown function (DUF955); Region: DUF955; cl01076 158189000626 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158189000627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000628 Walker A/P-loop; other site 158189000629 ATP binding site [chemical binding]; other site 158189000630 Q-loop/lid; other site 158189000631 ABC transporter signature motif; other site 158189000632 Walker B; other site 158189000633 D-loop; other site 158189000634 H-loop/switch region; other site 158189000635 TOBE domain; Region: TOBE_2; cl01440 158189000636 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 158189000637 dimer interface [polypeptide binding]; other site 158189000638 phosphorylation site [posttranslational modification] 158189000639 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 158189000640 ATP binding site [chemical binding]; other site 158189000641 Mg2+ binding site [ion binding]; other site 158189000642 G-X-G motif; other site 158189000643 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158189000644 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 158189000645 active site 158189000646 phosphorylation site [posttranslational modification] 158189000647 intermolecular recognition site; other site 158189000648 dimerization interface [polypeptide binding]; other site 158189000649 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 158189000650 DNA binding site [nucleotide binding] 158189000651 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 158189000652 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 158189000653 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 158189000654 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 158189000655 dimer interface [polypeptide binding]; other site 158189000656 conserved gate region; other site 158189000657 putative PBP binding loops; other site 158189000658 ABC-ATPase subunit interface; other site 158189000659 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 158189000660 dimer interface [polypeptide binding]; other site 158189000661 conserved gate region; other site 158189000662 putative PBP binding loops; other site 158189000663 ABC-ATPase subunit interface; other site 158189000664 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158189000665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000666 Walker A/P-loop; other site 158189000667 ATP binding site [chemical binding]; other site 158189000668 Q-loop/lid; other site 158189000669 ABC transporter signature motif; other site 158189000670 Walker B; other site 158189000671 D-loop; other site 158189000672 H-loop/switch region; other site 158189000673 TOBE domain; Region: TOBE_2; cl01440 158189000674 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 158189000675 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 158189000676 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189000677 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 158189000678 dimer interface [polypeptide binding]; other site 158189000679 conserved gate region; other site 158189000680 putative PBP binding loops; other site 158189000681 ABC-ATPase subunit interface; other site 158189000682 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189000683 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 158189000684 dimer interface [polypeptide binding]; other site 158189000685 conserved gate region; other site 158189000686 putative PBP binding loops; other site 158189000687 ABC-ATPase subunit interface; other site 158189000688 Probable beta-xylosidase; Provisional; Region: PLN03080 158189000689 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 158189000690 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 158189000691 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 158189000692 Cupin domain; Region: Cupin_2; cl09118 158189000693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189000694 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189000695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189000696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000697 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158189000698 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 158189000699 metal binding site [ion binding]; metal-binding site 158189000700 Domain of unknown function (DUF303); Region: DUF303; pfam03629 158189000701 Domain of unknown function (DUF303); Region: DUF303; pfam03629 158189000702 YeeE/YedE family (DUF395); Region: DUF395; cl01018 158189000703 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 158189000704 CPxP motif; other site 158189000705 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 158189000706 selenophosphate synthetase; Provisional; Region: PRK00943 158189000707 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 158189000708 dimerization interface [polypeptide binding]; other site 158189000709 putative ATP binding site [chemical binding]; other site 158189000710 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 158189000711 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 158189000712 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 158189000713 Divergent AAA domain; Region: AAA_4; pfam04326 158189000714 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 158189000715 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 158189000716 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 158189000717 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 158189000718 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 158189000719 shikimate binding site; other site 158189000720 NAD(P) binding site [chemical binding]; other site 158189000721 Transcription antiterminator [Transcription]; Region: NusG; COG0250 158189000722 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 158189000723 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 158189000724 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 158189000725 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 158189000726 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 158189000727 NAD(P) binding site [chemical binding]; other site 158189000728 homodimer interface [polypeptide binding]; other site 158189000729 substrate binding site [chemical binding]; other site 158189000730 active site 158189000731 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000732 Walker A/P-loop; other site 158189000733 ATP binding site [chemical binding]; other site 158189000734 Q-loop/lid; other site 158189000735 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 158189000736 active site 158189000737 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189000738 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 158189000739 dimer interface [polypeptide binding]; other site 158189000740 conserved gate region; other site 158189000741 putative PBP binding loops; other site 158189000742 ABC-ATPase subunit interface; other site 158189000743 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189000744 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 158189000745 dimer interface [polypeptide binding]; other site 158189000746 conserved gate region; other site 158189000747 putative PBP binding loops; other site 158189000748 ABC-ATPase subunit interface; other site 158189000749 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189000750 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 158189000751 Helix-turn-helix domains; Region: HTH; cl00088 158189000752 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 158189000753 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158189000754 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000755 Predicted ATPase [General function prediction only]; Region: COG4637 158189000756 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189000757 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 158189000758 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 158189000759 non-specific DNA binding site [nucleotide binding]; other site 158189000760 salt bridge; other site 158189000761 sequence-specific DNA binding site [nucleotide binding]; other site 158189000762 Domain of unknown function (DUF955); Region: DUF955; cl01076 158189000763 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 158189000764 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 158189000765 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158189000766 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 158189000767 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 158189000768 putative active site [active] 158189000769 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189000770 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 158189000771 dimer interface [polypeptide binding]; other site 158189000772 conserved gate region; other site 158189000773 putative PBP binding loops; other site 158189000774 ABC-ATPase subunit interface; other site 158189000775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189000776 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189000777 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 158189000778 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 158189000779 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 158189000780 putative active site [active] 158189000781 Predicted transcriptional regulator [Transcription]; Region: COG5340 158189000782 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 158189000783 Helix-turn-helix domains; Region: HTH; cl00088 158189000784 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 158189000785 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189000786 catalytic residue [active] 158189000787 Bacterial sugar transferase; Region: Bac_transf; cl00939 158189000788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000789 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 158189000790 NAD(P) binding site [chemical binding]; other site 158189000791 active site 158189000792 putative glycosyl transferase; Provisional; Region: PRK10307 158189000793 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 158189000794 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 158189000795 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 158189000796 NAD(P) binding site [chemical binding]; other site 158189000797 homodimer interface [polypeptide binding]; other site 158189000798 substrate binding site [chemical binding]; other site 158189000799 active site 158189000800 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 158189000801 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 158189000802 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 158189000803 putative NAD(P) binding site [chemical binding]; other site 158189000804 active site 158189000805 putative substrate binding site [chemical binding]; other site 158189000806 Cupin domain; Region: Cupin_2; cl09118 158189000807 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 158189000808 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 158189000809 active site 158189000810 homodimer interface [polypeptide binding]; other site 158189000811 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 158189000812 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158189000813 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158189000814 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 158189000815 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 158189000816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000817 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 158189000818 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 158189000819 NAD binding site [chemical binding]; other site 158189000820 substrate binding site [chemical binding]; other site 158189000821 homodimer interface [polypeptide binding]; other site 158189000822 active site 158189000823 putative glycosyl transferase; Provisional; Region: PRK10073 158189000824 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 158189000825 active site 158189000826 LicD family; Region: LicD; cl01378 158189000827 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 158189000828 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 158189000829 active site 158189000830 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 158189000831 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 158189000832 4Fe-4S binding domain; Region: Fer4; cl02805 158189000833 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 158189000834 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 158189000835 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158189000836 active site 158189000837 KMSKS motif; other site 158189000838 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 158189000839 tetramer interface [polypeptide binding]; other site 158189000840 active site 158189000841 Mg2+/Mn2+ binding site [ion binding]; other site 158189000842 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 158189000843 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 158189000844 PYR/PP interface [polypeptide binding]; other site 158189000845 dimer interface [polypeptide binding]; other site 158189000846 TPP binding site [chemical binding]; other site 158189000847 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 158189000848 TPP-binding site; other site 158189000849 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 158189000850 active site 158189000851 metal-binding site 158189000852 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 158189000853 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189000854 catalytic residue [active] 158189000855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000856 Integrase core domain; Region: rve; cl01316 158189000857 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 158189000858 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 158189000859 non-specific DNA binding site [nucleotide binding]; other site 158189000860 salt bridge; other site 158189000861 sequence-specific DNA binding site [nucleotide binding]; other site 158189000862 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 158189000863 non-specific DNA binding site [nucleotide binding]; other site 158189000864 salt bridge; other site 158189000865 sequence-specific DNA binding site [nucleotide binding]; other site 158189000866 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 158189000867 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 158189000868 Replicase family; Region: Replicase; pfam03090 158189000869 Domain of unknown function (DUF927); Region: DUF927; cl12098 158189000870 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 158189000871 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 158189000872 putative active site pocket [active] 158189000873 dimerization interface [polypeptide binding]; other site 158189000874 putative catalytic residue [active] 158189000875 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 158189000876 catalytic residues [active] 158189000877 catalytic nucleophile [active] 158189000878 Recombinase; Region: Recombinase; pfam07508 158189000879 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 158189000880 catalytic residues [active] 158189000881 catalytic nucleophile [active] 158189000882 Recombinase; Region: Recombinase; pfam07508 158189000883 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 158189000884 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 158189000885 catalytic residues [active] 158189000886 catalytic nucleophile [active] 158189000887 Recombinase; Region: Recombinase; pfam07508 158189000888 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 158189000889 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 158189000890 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 158189000891 non-specific DNA binding site [nucleotide binding]; other site 158189000892 salt bridge; other site 158189000893 sequence-specific DNA binding site [nucleotide binding]; other site 158189000894 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 158189000895 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 158189000896 catalytic residues [active] 158189000897 catalytic nucleophile [active] 158189000898 Recombinase; Region: Recombinase; pfam07508 158189000899 Archaeal ATPase; Region: Arch_ATPase; pfam01637 158189000900 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 158189000901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189000903 hypothetical protein; Validated; Region: PRK07668 158189000904 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 158189000905 DNA binding residues [nucleotide binding] 158189000906 dimerization interface [polypeptide binding]; other site 158189000907 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 158189000908 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 158189000909 non-specific DNA binding site [nucleotide binding]; other site 158189000910 salt bridge; other site 158189000911 sequence-specific DNA binding site [nucleotide binding]; other site 158189000912 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 158189000913 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189000914 DNA-binding site [nucleotide binding]; DNA binding site 158189000915 UTRA domain; Region: UTRA; cl01230 158189000916 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 158189000917 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 158189000918 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 158189000919 dimer interface [polypeptide binding]; other site 158189000920 conserved gate region; other site 158189000921 putative PBP binding loops; other site 158189000922 ABC-ATPase subunit interface; other site 158189000923 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 158189000924 dimer interface [polypeptide binding]; other site 158189000925 conserved gate region; other site 158189000926 putative PBP binding loops; other site 158189000927 ABC-ATPase subunit interface; other site 158189000928 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 158189000929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000930 Walker A/P-loop; other site 158189000931 ATP binding site [chemical binding]; other site 158189000932 Q-loop/lid; other site 158189000933 ABC transporter signature motif; other site 158189000934 Walker B; other site 158189000935 D-loop; other site 158189000936 H-loop/switch region; other site 158189000937 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 158189000938 active site 158189000939 dimerization interface [polypeptide binding]; other site 158189000940 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189000941 TfoX N-terminal domain; Region: TfoX_N; cl01167 158189000942 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 158189000943 Predicted transcriptional regulator [Transcription]; Region: COG5340 158189000944 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 158189000945 substrate binding site [chemical binding]; other site 158189000946 ATP binding site [chemical binding]; other site 158189000947 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 158189000948 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 158189000949 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 158189000950 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 158189000951 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 158189000952 active site 158189000953 phosphorylation site [posttranslational modification] 158189000954 intermolecular recognition site; other site 158189000955 dimerization interface [polypeptide binding]; other site 158189000956 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 158189000957 DNA binding residues [nucleotide binding] 158189000958 dimerization interface [polypeptide binding]; other site 158189000959 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 158189000960 Histidine kinase; Region: HisKA_3; pfam07730 158189000961 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 158189000962 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 158189000963 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 158189000964 ligand binding site [chemical binding]; other site 158189000965 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 158189000966 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189000967 Walker A/P-loop; other site 158189000968 ATP binding site [chemical binding]; other site 158189000969 Q-loop/lid; other site 158189000970 ABC transporter signature motif; other site 158189000971 Walker B; other site 158189000972 D-loop; other site 158189000973 H-loop/switch region; other site 158189000974 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189000975 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189000976 TM-ABC transporter signature motif; other site 158189000977 Cupin domain; Region: Cupin_2; cl09118 158189000978 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 158189000979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 158189000980 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 158189000981 Histidine kinase; Region: His_kinase; pfam06580 158189000982 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 158189000983 ATP binding site [chemical binding]; other site 158189000984 Mg2+ binding site [ion binding]; other site 158189000985 G-X-G motif; other site 158189000986 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 158189000987 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 158189000988 active site 158189000989 phosphorylation site [posttranslational modification] 158189000990 intermolecular recognition site; other site 158189000991 dimerization interface [polypeptide binding]; other site 158189000992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189000993 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189000994 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 158189000995 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189000996 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 158189000997 dimer interface [polypeptide binding]; other site 158189000998 conserved gate region; other site 158189000999 putative PBP binding loops; other site 158189001000 ABC-ATPase subunit interface; other site 158189001001 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189001002 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 158189001003 dimer interface [polypeptide binding]; other site 158189001004 conserved gate region; other site 158189001005 putative PBP binding loops; other site 158189001006 ABC-ATPase subunit interface; other site 158189001007 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 158189001008 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 158189001009 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158189001010 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 158189001011 active site 158189001012 catalytic tetrad [active] 158189001013 Helix-turn-helix domains; Region: HTH; cl00088 158189001014 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189001015 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189001016 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 158189001017 dimer interface [polypeptide binding]; other site 158189001018 conserved gate region; other site 158189001019 ABC-ATPase subunit interface; other site 158189001020 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189001021 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 158189001022 dimer interface [polypeptide binding]; other site 158189001023 conserved gate region; other site 158189001024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189001025 ABC-ATPase subunit interface; other site 158189001026 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 158189001027 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189001028 metal binding site [ion binding]; metal-binding site 158189001029 substrate binding pocket [chemical binding]; other site 158189001030 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189001031 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189001032 DNA-binding site [nucleotide binding]; DNA binding site 158189001033 FCD domain; Region: FCD; cl11656 158189001034 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 158189001035 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 158189001036 putative NAD(P) binding site [chemical binding]; other site 158189001037 catalytic Zn binding site [ion binding]; other site 158189001038 structural Zn binding site [ion binding]; other site 158189001039 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 158189001040 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 158189001041 Histidine kinase; Region: His_kinase; pfam06580 158189001042 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 158189001043 ATP binding site [chemical binding]; other site 158189001044 Mg2+ binding site [ion binding]; other site 158189001045 G-X-G motif; other site 158189001046 Response regulator receiver domain; Region: Response_reg; pfam00072 158189001047 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 158189001048 active site 158189001049 phosphorylation site [posttranslational modification] 158189001050 intermolecular recognition site; other site 158189001051 dimerization interface [polypeptide binding]; other site 158189001052 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189001053 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189001054 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189001055 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 158189001056 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189001057 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 158189001058 dimer interface [polypeptide binding]; other site 158189001059 conserved gate region; other site 158189001060 putative PBP binding loops; other site 158189001061 ABC-ATPase subunit interface; other site 158189001062 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189001063 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 158189001064 dimer interface [polypeptide binding]; other site 158189001065 conserved gate region; other site 158189001066 putative PBP binding loops; other site 158189001067 ABC-ATPase subunit interface; other site 158189001068 Sulfatase; Region: Sulfatase; cl10460 158189001069 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 158189001070 Amino acid permease; Region: AA_permease; cl00524 158189001071 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158189001072 active site 158189001073 HIGH motif; other site 158189001074 nucleotide binding site [chemical binding]; other site 158189001075 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158189001076 active site 158189001077 KMSKS motif; other site 158189001078 Riboflavin kinase; Region: Flavokinase; cl03312 158189001079 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 158189001080 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 158189001081 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 158189001082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001083 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 158189001084 NAD(P) binding site [chemical binding]; other site 158189001085 homodimer interface [polypeptide binding]; other site 158189001086 substrate binding site [chemical binding]; other site 158189001087 active site 158189001088 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 158189001089 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 158189001090 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 158189001091 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158189001092 catalytic residue [active] 158189001093 Bacterial sugar transferase; Region: Bac_transf; cl00939 158189001094 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 158189001095 homodimer interface [polypeptide binding]; other site 158189001096 substrate-cofactor binding pocket; other site 158189001097 Aminotransferase class IV; Region: Aminotran_4; pfam01063 158189001098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189001099 catalytic residue [active] 158189001100 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 158189001101 active site 158189001102 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 158189001103 active site 158189001104 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 158189001105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189001106 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 158189001107 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 158189001108 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 158189001109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001110 NAD(P) binding site [chemical binding]; other site 158189001111 active site 158189001112 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 158189001113 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 158189001114 trimer interface [polypeptide binding]; other site 158189001115 active site 158189001116 substrate binding site [chemical binding]; other site 158189001117 CoA binding site [chemical binding]; other site 158189001118 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 158189001119 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 158189001120 NADP binding site [chemical binding]; other site 158189001121 active site 158189001122 putative substrate binding site [chemical binding]; other site 158189001123 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 158189001124 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 158189001125 NAD binding site [chemical binding]; other site 158189001126 substrate binding site [chemical binding]; other site 158189001127 homodimer interface [polypeptide binding]; other site 158189001128 active site 158189001129 Cupin domain; Region: Cupin_2; cl09118 158189001130 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 158189001131 active site 158189001132 Substrate binding site; other site 158189001133 Mg++ binding site; other site 158189001134 galactokinase; Region: PLN02865 158189001135 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 158189001136 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 158189001137 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 158189001138 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 158189001139 active site 158189001140 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 158189001141 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 158189001142 substrate binding site; other site 158189001143 tetramer interface; other site 158189001144 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 158189001145 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 158189001146 NADP binding site [chemical binding]; other site 158189001147 active site 158189001148 putative substrate binding site [chemical binding]; other site 158189001149 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 158189001150 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 158189001151 NAD binding site [chemical binding]; other site 158189001152 substrate binding site [chemical binding]; other site 158189001153 homodimer interface [polypeptide binding]; other site 158189001154 active site 158189001155 Cupin domain; Region: Cupin_2; cl09118 158189001156 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 158189001157 Domain of unknown function (DUF1792); Region: DUF1792; cl07392 158189001158 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 158189001159 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 158189001160 active site 158189001161 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 158189001162 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 158189001163 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 158189001164 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 158189001165 putative ADP-binding pocket [chemical binding]; other site 158189001166 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189001167 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189001168 DNA binding site [nucleotide binding] 158189001169 domain linker motif; other site 158189001170 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189001171 dimerization interface [polypeptide binding]; other site 158189001172 ligand binding site [chemical binding]; other site 158189001173 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 158189001174 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 158189001175 active site 158189001176 catalytic site [active] 158189001177 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 158189001178 dimer interface [polypeptide binding]; other site 158189001179 conserved gate region; other site 158189001180 putative PBP binding loops; other site 158189001181 ABC-ATPase subunit interface; other site 158189001182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189001183 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189001184 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 158189001185 Uncharacterized conserved protein [Function unknown]; Region: COG5476 158189001186 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 158189001187 MlrC C-terminus; Region: MlrC_C; pfam07171 158189001188 CutC family; Region: CutC; cl01218 158189001189 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 158189001190 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189001191 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 158189001192 dimer interface [polypeptide binding]; other site 158189001193 conserved gate region; other site 158189001194 ABC-ATPase subunit interface; other site 158189001195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189001196 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 158189001197 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189001198 Sulfatase; Region: Sulfatase; cl10460 158189001199 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 158189001200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189001201 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 158189001202 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158189001203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189001204 Walker A/P-loop; other site 158189001205 ATP binding site [chemical binding]; other site 158189001206 Q-loop/lid; other site 158189001207 ABC transporter signature motif; other site 158189001208 Walker B; other site 158189001209 D-loop; other site 158189001210 H-loop/switch region; other site 158189001211 TOBE domain; Region: TOBE_2; cl01440 158189001212 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 158189001213 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 158189001214 dimer interface [polypeptide binding]; other site 158189001215 conserved gate region; other site 158189001216 putative PBP binding loops; other site 158189001217 ABC-ATPase subunit interface; other site 158189001218 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 158189001219 dimer interface [polypeptide binding]; other site 158189001220 conserved gate region; other site 158189001221 putative PBP binding loops; other site 158189001222 ABC-ATPase subunit interface; other site 158189001223 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 158189001224 Divergent AAA domain; Region: AAA_4; pfam04326 158189001225 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 158189001226 non-specific DNA binding site [nucleotide binding]; other site 158189001227 salt bridge; other site 158189001228 sequence-specific DNA binding site [nucleotide binding]; other site 158189001229 Predicted amidohydrolase [General function prediction only]; Region: COG0388 158189001230 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 158189001231 putative active site [active] 158189001232 catalytic triad [active] 158189001233 putative dimer interface [polypeptide binding]; other site 158189001234 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 158189001235 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 158189001236 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 158189001237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001238 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 158189001239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001240 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 158189001241 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 158189001242 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189001243 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189001244 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 158189001245 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 158189001246 dimer interface [polypeptide binding]; other site 158189001247 conserved gate region; other site 158189001248 putative PBP binding loops; other site 158189001249 ABC-ATPase subunit interface; other site 158189001250 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189001251 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 158189001252 dimer interface [polypeptide binding]; other site 158189001253 conserved gate region; other site 158189001254 putative PBP binding loops; other site 158189001255 ABC-ATPase subunit interface; other site 158189001256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001257 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 158189001258 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189001259 DNA binding site [nucleotide binding] 158189001260 domain linker motif; other site 158189001261 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189001262 dimerization interface [polypeptide binding]; other site 158189001263 ligand binding site [chemical binding]; other site 158189001264 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; cl01051 158189001265 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 158189001266 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 158189001267 dimerization interface [polypeptide binding]; other site 158189001268 putative active cleft [active] 158189001269 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189001270 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 158189001271 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 158189001272 dimer interface [polypeptide binding]; other site 158189001273 conserved gate region; other site 158189001274 putative PBP binding loops; other site 158189001275 ABC-ATPase subunit interface; other site 158189001276 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189001277 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 158189001278 dimer interface [polypeptide binding]; other site 158189001279 conserved gate region; other site 158189001280 putative PBP binding loops; other site 158189001281 ABC-ATPase subunit interface; other site 158189001282 alpha-galactosidase; Provisional; Region: PRK15076 158189001283 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 158189001284 NAD binding site [chemical binding]; other site 158189001285 sugar binding site [chemical binding]; other site 158189001286 divalent metal binding site [ion binding]; other site 158189001287 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 158189001288 dimer interface [polypeptide binding]; other site 158189001289 Cupin domain; Region: Cupin_2; cl09118 158189001290 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 158189001291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189001292 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; cl15691 158189001293 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189001294 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189001295 DNA binding site [nucleotide binding] 158189001296 domain linker motif; other site 158189001297 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189001298 ligand binding site [chemical binding]; other site 158189001299 dimerization interface [polypeptide binding]; other site 158189001300 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 158189001301 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 158189001302 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 158189001303 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 158189001304 dimer interface [polypeptide binding]; other site 158189001305 conserved gate region; other site 158189001306 putative PBP binding loops; other site 158189001307 ABC-ATPase subunit interface; other site 158189001308 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 158189001309 dimer interface [polypeptide binding]; other site 158189001310 conserved gate region; other site 158189001311 putative PBP binding loops; other site 158189001312 ABC-ATPase subunit interface; other site 158189001313 Sulfatase; Region: Sulfatase; cl10460 158189001314 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189001315 Chromate transporter; Region: Chromate_transp; pfam02417 158189001316 Chromate transporter; Region: Chromate_transp; pfam02417 158189001317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189001318 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 158189001319 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 158189001320 active site 158189001321 putative substrate binding pocket [chemical binding]; other site 158189001322 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 158189001323 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 158189001324 ligand binding site [chemical binding]; other site 158189001325 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 158189001326 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189001327 Walker A/P-loop; other site 158189001328 ATP binding site [chemical binding]; other site 158189001329 Q-loop/lid; other site 158189001330 ABC transporter signature motif; other site 158189001331 Walker B; other site 158189001332 D-loop; other site 158189001333 H-loop/switch region; other site 158189001334 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189001335 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189001336 TM-ABC transporter signature motif; other site 158189001337 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189001338 TM-ABC transporter signature motif; other site 158189001339 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 158189001340 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 158189001341 DNA binding residues [nucleotide binding] 158189001342 drug binding residues [chemical binding]; other site 158189001343 dimer interface [polypeptide binding]; other site 158189001344 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158189001345 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 158189001346 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 158189001347 intersubunit interface [polypeptide binding]; other site 158189001348 active site 158189001349 Zn2+ binding site [ion binding]; other site 158189001350 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 158189001351 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 158189001352 active site 158189001353 Cupin domain; Region: Cupin_2; cl09118 158189001354 Domain of unknown function (DUF955); Region: DUF955; cl01076 158189001355 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 158189001356 non-specific DNA binding site [nucleotide binding]; other site 158189001357 salt bridge; other site 158189001358 sequence-specific DNA binding site [nucleotide binding]; other site 158189001359 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 158189001360 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189001361 Zn2+ binding site [ion binding]; other site 158189001362 Mg2+ binding site [ion binding]; other site 158189001363 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 158189001364 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 158189001365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001366 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 158189001367 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 158189001368 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 158189001369 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 158189001370 dimer interface [polypeptide binding]; other site 158189001371 active site 158189001372 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 158189001373 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 158189001374 NAD(P) binding site [chemical binding]; other site 158189001375 homotetramer interface [polypeptide binding]; other site 158189001376 homodimer interface [polypeptide binding]; other site 158189001377 active site 158189001378 Acyl transferase domain; Region: Acyl_transf_1; cl08282 158189001379 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 158189001380 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 158189001381 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 158189001382 dimer interface [polypeptide binding]; other site 158189001383 active site 158189001384 CoA binding pocket [chemical binding]; other site 158189001385 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 158189001386 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 158189001387 carboxyltransferase (CT) interaction site; other site 158189001388 biotinylation site [posttranslational modification]; other site 158189001389 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 158189001390 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 158189001391 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158189001392 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 158189001393 Uncharacterised protein family UPF0547; Region: UPF0547; pfam10571 158189001394 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; cl14780 158189001395 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; cl14780 158189001396 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 158189001397 MatE; Region: MatE; cl10513 158189001398 MatE; Region: MatE; cl10513 158189001399 Transcriptional regulators [Transcription]; Region: MarR; COG1846 158189001400 Helix-turn-helix domains; Region: HTH; cl00088 158189001401 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 158189001402 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189001403 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 158189001404 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 158189001405 dimerization interface [polypeptide binding]; other site 158189001406 Histidine kinase; Region: His_kinase; pfam06580 158189001407 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 158189001408 ATP binding site [chemical binding]; other site 158189001409 Mg2+ binding site [ion binding]; other site 158189001410 G-X-G motif; other site 158189001411 Response regulator receiver domain; Region: Response_reg; pfam00072 158189001412 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 158189001413 active site 158189001414 phosphorylation site [posttranslational modification] 158189001415 intermolecular recognition site; other site 158189001416 dimerization interface [polypeptide binding]; other site 158189001417 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189001418 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189001419 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189001420 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189001421 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189001422 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189001423 DctM-like transporters; Region: DctM; pfam06808 158189001424 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189001425 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189001426 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189001427 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189001428 DctM-like transporters; Region: DctM; pfam06808 158189001429 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189001430 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189001431 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189001432 DNA-binding site [nucleotide binding]; DNA binding site 158189001433 FCD domain; Region: FCD; cl11656 158189001434 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 158189001435 Ligand binding site [chemical binding]; other site 158189001436 Electron transfer flavoprotein domain; Region: ETF; pfam01012 158189001437 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 158189001438 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 158189001439 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 158189001440 FAD binding domain; Region: FAD_binding_4; pfam01565 158189001441 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 158189001442 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189001443 Helix-turn-helix domains; Region: HTH; cl00088 158189001444 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; cd00229 158189001445 active site 158189001446 catalytic triad [active] 158189001447 oxyanion hole [active] 158189001448 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 158189001449 active site 158189001450 metal binding site [ion binding]; metal-binding site 158189001451 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 158189001452 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 158189001453 beta-D-glucuronidase; Provisional; Region: PRK10150 158189001454 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189001455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001456 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158189001457 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 158189001458 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189001459 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158189001460 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 158189001461 dimer interface [polypeptide binding]; other site 158189001462 active site 158189001463 metal binding site [ion binding]; metal-binding site 158189001464 glutathione binding site [chemical binding]; other site 158189001465 Permease family; Region: Xan_ur_permease; cl00967 158189001466 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 158189001467 transcriptional activator RhaR; Provisional; Region: PRK13500 158189001468 Cupin domain; Region: Cupin_2; cl09118 158189001469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189001470 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189001471 catalytic residue [active] 158189001472 Predicted acetyltransferase [General function prediction only]; Region: COG3393 158189001473 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189001474 Coenzyme A binding pocket [chemical binding]; other site 158189001475 subunit; Region: OAD_beta; cl00816 158189001476 Transcriptional regulators [Transcription]; Region: FadR; COG2186 158189001477 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189001478 DNA-binding site [nucleotide binding]; DNA binding site 158189001479 FCD domain; Region: FCD; cl11656 158189001480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 158189001481 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189001482 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 158189001483 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 158189001484 classical (c) SDRs; Region: SDR_c; cd05233 158189001485 NAD(P) binding site [chemical binding]; other site 158189001486 active site 158189001487 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 158189001488 TPP-binding site [chemical binding]; other site 158189001489 dimer interface [polypeptide binding]; other site 158189001490 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 158189001491 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 158189001492 PYR/PP interface [polypeptide binding]; other site 158189001493 dimer interface [polypeptide binding]; other site 158189001494 TPP binding site [chemical binding]; other site 158189001495 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158189001496 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 158189001497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001498 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189001499 catalytic residue [active] 158189001500 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 158189001501 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 158189001502 NADP binding site [chemical binding]; other site 158189001503 homodimer interface [polypeptide binding]; other site 158189001504 active site 158189001505 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189001506 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 158189001507 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 158189001508 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 158189001509 dimer interface [polypeptide binding]; other site 158189001510 putative PBP binding loops; other site 158189001511 ABC-ATPase subunit interface; other site 158189001512 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189001513 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 158189001514 dimer interface [polypeptide binding]; other site 158189001515 conserved gate region; other site 158189001516 putative PBP binding loops; other site 158189001517 ABC-ATPase subunit interface; other site 158189001518 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 158189001519 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 158189001520 inhibitor binding site; inhibition site 158189001521 active site 158189001522 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 158189001523 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189001524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001525 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158189001526 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 158189001527 active site 158189001528 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158189001529 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189001530 Walker A/P-loop; other site 158189001531 ATP binding site [chemical binding]; other site 158189001532 Q-loop/lid; other site 158189001533 ABC transporter signature motif; other site 158189001534 Walker B; other site 158189001535 D-loop; other site 158189001536 H-loop/switch region; other site 158189001537 TOBE domain; Region: TOBE_2; cl01440 158189001538 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 158189001539 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 158189001540 dimer interface [polypeptide binding]; other site 158189001541 conserved gate region; other site 158189001542 putative PBP binding loops; other site 158189001543 ABC-ATPase subunit interface; other site 158189001544 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 158189001545 dimer interface [polypeptide binding]; other site 158189001546 conserved gate region; other site 158189001547 putative PBP binding loops; other site 158189001548 ABC-ATPase subunit interface; other site 158189001549 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 158189001550 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 158189001551 Domain of unknown function DUF20; Region: UPF0118; cl00465 158189001552 Fic family protein [Function unknown]; Region: COG3177 158189001553 Fic/DOC family; Region: Fic; cl00960 158189001554 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189001555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001556 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158189001557 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 158189001558 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 158189001559 putative NAD(P) binding site [chemical binding]; other site 158189001560 catalytic Zn binding site [ion binding]; other site 158189001561 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 158189001562 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 158189001563 substrate binding site [chemical binding]; other site 158189001564 ATP binding site [chemical binding]; other site 158189001565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001566 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 158189001567 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 158189001568 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 158189001569 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 158189001570 putative active site [active] 158189001571 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189001572 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 158189001573 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 158189001574 dimer interface [polypeptide binding]; other site 158189001575 conserved gate region; other site 158189001576 putative PBP binding loops; other site 158189001577 ABC-ATPase subunit interface; other site 158189001578 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 158189001579 dimer interface [polypeptide binding]; other site 158189001580 conserved gate region; other site 158189001581 putative PBP binding loops; other site 158189001582 ABC-ATPase subunit interface; other site 158189001583 Protein of unknown function DUF89; Region: DUF89; cl15397 158189001584 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 158189001585 Cupin domain; Region: Cupin_2; cl09118 158189001586 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 158189001587 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 158189001588 putative active site [active] 158189001589 metal binding site [ion binding]; metal-binding site 158189001590 Chromate transporter; Region: Chromate_transp; pfam02417 158189001591 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 158189001592 Chromate transporter; Region: Chromate_transp; pfam02417 158189001593 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 158189001594 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 158189001595 FMN binding site [chemical binding]; other site 158189001596 substrate binding site [chemical binding]; other site 158189001597 putative catalytic residue [active] 158189001598 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 158189001599 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158189001600 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 158189001601 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 158189001602 active site 158189001603 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 158189001604 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189001605 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158189001606 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 158189001607 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 158189001608 S-adenosylmethionine binding site [chemical binding]; other site 158189001609 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 158189001610 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 158189001611 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 158189001612 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 158189001613 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 158189001614 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189001615 TM-ABC transporter signature motif; other site 158189001616 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189001617 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189001618 TM-ABC transporter signature motif; other site 158189001619 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 158189001620 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189001621 Walker A/P-loop; other site 158189001622 ATP binding site [chemical binding]; other site 158189001623 Q-loop/lid; other site 158189001624 ABC transporter signature motif; other site 158189001625 Walker B; other site 158189001626 D-loop; other site 158189001627 H-loop/switch region; other site 158189001628 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189001629 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189001630 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 158189001631 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 158189001632 putative substrate binding site [chemical binding]; other site 158189001633 putative ATP binding site [chemical binding]; other site 158189001634 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 158189001635 catalytic motif [active] 158189001636 Zn binding site [ion binding]; other site 158189001637 Esterase/lipase [General function prediction only]; Region: COG1647 158189001638 subunit; Region: OAD_beta; cl00816 158189001639 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 158189001640 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 158189001641 active site 158189001642 catalytic residues [active] 158189001643 metal binding site [ion binding]; metal-binding site 158189001644 homodimer binding site [polypeptide binding]; other site 158189001645 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 158189001646 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 158189001647 carboxyltransferase (CT) interaction site; other site 158189001648 biotinylation site [posttranslational modification]; other site 158189001649 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 158189001650 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 158189001651 Walker A motif; other site 158189001652 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 158189001653 ADP-ribose binding site [chemical binding]; other site 158189001654 dimer interface [polypeptide binding]; other site 158189001655 active site 158189001656 nudix motif; other site 158189001657 metal binding site [ion binding]; metal-binding site 158189001658 Protein of unknown function (DUF541); Region: SIMPL; cl01077 158189001659 Phd_YefM; Region: PhdYeFM; cl09153 158189001660 Fic/DOC family; Region: Fic; cl00960 158189001661 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 158189001662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001663 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 158189001664 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189001665 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 158189001666 active site 158189001667 trimer interface [polypeptide binding]; other site 158189001668 allosteric site; other site 158189001669 active site lid [active] 158189001670 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 158189001671 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 158189001672 dimer interface [polypeptide binding]; other site 158189001673 substrate binding site [chemical binding]; other site 158189001674 catalytic triad [active] 158189001675 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 158189001676 dimer interface [polypeptide binding]; other site 158189001677 conserved gate region; other site 158189001678 putative PBP binding loops; other site 158189001679 ABC-ATPase subunit interface; other site 158189001680 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 158189001681 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 158189001682 Walker A/P-loop; other site 158189001683 ATP binding site [chemical binding]; other site 158189001684 Q-loop/lid; other site 158189001685 ABC transporter signature motif; other site 158189001686 Walker B; other site 158189001687 D-loop; other site 158189001688 H-loop/switch region; other site 158189001689 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 158189001690 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 158189001691 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 158189001692 active site 158189001693 dimer interface [polypeptide binding]; other site 158189001694 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 158189001695 dimer interface [polypeptide binding]; other site 158189001696 active site 158189001697 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189001698 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189001699 DNA binding site [nucleotide binding] 158189001700 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189001701 ligand binding site [chemical binding]; other site 158189001702 dimerization interface [polypeptide binding]; other site 158189001703 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 158189001704 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 158189001705 active site 158189001706 dimer interface [polypeptide binding]; other site 158189001707 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 158189001708 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 158189001709 active site 158189001710 ADP/pyrophosphate binding site [chemical binding]; other site 158189001711 dimerization interface [polypeptide binding]; other site 158189001712 allosteric effector site; other site 158189001713 fructose-1,6-bisphosphate binding site; other site 158189001714 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 158189001715 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 158189001716 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189001717 hypothetical protein; Provisional; Region: PRK08185 158189001718 active site 158189001719 intersubunit interface [polypeptide binding]; other site 158189001720 zinc binding site [ion binding]; other site 158189001721 Na+ binding site [ion binding]; other site 158189001722 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 158189001723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001724 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 158189001725 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 158189001726 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 158189001727 putative active site [active] 158189001728 putative metal binding site [ion binding]; other site 158189001729 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158189001730 Gram-negative bacterial tonB protein; Region: TonB; cl10048 158189001731 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 158189001732 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 158189001733 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 158189001734 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 158189001735 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 158189001736 Divergent AAA domain; Region: AAA_4; pfam04326 158189001737 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 158189001738 active site 158189001739 NTP binding site [chemical binding]; other site 158189001740 metal binding triad [ion binding]; metal-binding site 158189001741 antibiotic binding site [chemical binding]; other site 158189001742 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 158189001743 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 158189001744 dimer interface [polypeptide binding]; other site 158189001745 conserved gate region; other site 158189001746 putative PBP binding loops; other site 158189001747 ABC-ATPase subunit interface; other site 158189001748 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 158189001749 dimer interface [polypeptide binding]; other site 158189001750 conserved gate region; other site 158189001751 putative PBP binding loops; other site 158189001752 ABC-ATPase subunit interface; other site 158189001753 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 158189001754 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 158189001755 substrate binding pocket [chemical binding]; other site 158189001756 membrane-bound complex binding site; other site 158189001757 hinge residues; other site 158189001758 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 158189001759 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 158189001760 Walker A/P-loop; other site 158189001761 ATP binding site [chemical binding]; other site 158189001762 Q-loop/lid; other site 158189001763 ABC transporter signature motif; other site 158189001764 Walker B; other site 158189001765 D-loop; other site 158189001766 H-loop/switch region; other site 158189001767 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 158189001768 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 158189001769 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 158189001770 Type III secretion protein YscO; Region: YscO; pfam07321 158189001771 Integrase core domain; Region: rve; cl01316 158189001772 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 158189001773 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 158189001774 putative ligand binding site [chemical binding]; other site 158189001775 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 158189001776 TM-ABC transporter signature motif; other site 158189001777 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 158189001778 TM-ABC transporter signature motif; other site 158189001779 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 158189001780 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 158189001781 Walker A/P-loop; other site 158189001782 ATP binding site [chemical binding]; other site 158189001783 Q-loop/lid; other site 158189001784 ABC transporter signature motif; other site 158189001785 Walker B; other site 158189001786 D-loop; other site 158189001787 H-loop/switch region; other site 158189001788 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 158189001789 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 158189001790 Walker A/P-loop; other site 158189001791 ATP binding site [chemical binding]; other site 158189001792 Q-loop/lid; other site 158189001793 ABC transporter signature motif; other site 158189001794 Walker B; other site 158189001795 D-loop; other site 158189001796 H-loop/switch region; other site 158189001797 Transposase domain (DUF772); Region: DUF772; cl12084 158189001798 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 158189001799 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 158189001800 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 158189001801 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 158189001802 ligand binding site [chemical binding]; other site 158189001803 flexible hinge region; other site 158189001804 Helix-turn-helix domains; Region: HTH; cl00088 158189001805 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 158189001806 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 158189001807 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 158189001808 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 158189001809 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 158189001810 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 158189001811 Helix-turn-helix domains; Region: HTH; cl00088 158189001812 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 158189001813 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 158189001814 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 158189001815 Malic enzyme, N-terminal domain; Region: malic; pfam00390 158189001816 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 158189001817 putative NAD(P) binding site [chemical binding]; other site 158189001818 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 158189001819 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189001820 Coenzyme A binding pocket [chemical binding]; other site 158189001821 Predicted membrane protein [Function unknown]; Region: COG2860 158189001822 UPF0126 domain; Region: UPF0126; pfam03458 158189001823 UPF0126 domain; Region: UPF0126; pfam03458 158189001824 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 158189001825 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 158189001826 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 158189001827 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 158189001828 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 158189001829 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 158189001830 tetramer interface [polypeptide binding]; other site 158189001831 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 158189001832 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 158189001833 histidinol-phosphatase; Provisional; Region: PRK07328 158189001834 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 158189001835 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189001836 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 158189001837 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 158189001838 dimer interface [polypeptide binding]; other site 158189001839 conserved gate region; other site 158189001840 ABC-ATPase subunit interface; other site 158189001841 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 158189001842 dimer interface [polypeptide binding]; other site 158189001843 conserved gate region; other site 158189001844 putative PBP binding loops; other site 158189001845 ABC-ATPase subunit interface; other site 158189001846 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 158189001847 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 158189001848 Walker A/P-loop; other site 158189001849 ATP binding site [chemical binding]; other site 158189001850 Q-loop/lid; other site 158189001851 ABC transporter signature motif; other site 158189001852 Walker B; other site 158189001853 D-loop; other site 158189001854 H-loop/switch region; other site 158189001855 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 158189001856 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 158189001857 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189001858 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 158189001859 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189001860 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 158189001861 switch II; other site 158189001862 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 158189001863 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 158189001864 P loop nucleotide binding; other site 158189001865 switch II; other site 158189001866 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 158189001867 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; cl15358 158189001868 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 158189001869 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 158189001870 GDP-binding site [chemical binding]; other site 158189001871 ACT binding site; other site 158189001872 IMP binding site; other site 158189001873 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158189001874 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158189001875 Flavin Reductases; Region: FlaRed; cl00801 158189001876 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 158189001877 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 158189001878 tetramer interface [polypeptide binding]; other site 158189001879 TPP-binding site [chemical binding]; other site 158189001880 heterodimer interface [polypeptide binding]; other site 158189001881 phosphorylation loop region [posttranslational modification] 158189001882 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 158189001883 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 158189001884 alpha subunit interface [polypeptide binding]; other site 158189001885 TPP binding site [chemical binding]; other site 158189001886 heterodimer interface [polypeptide binding]; other site 158189001887 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158189001888 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 158189001889 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 158189001890 dimer interface [polypeptide binding]; other site 158189001891 motif 1; other site 158189001892 active site 158189001893 motif 2; other site 158189001894 motif 3; other site 158189001895 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK09616 158189001896 B3/4 domain; Region: B3_4; cl11458 158189001897 tRNA synthetase B5 domain; Region: B5; cl08394 158189001898 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 158189001899 dimer interface [polypeptide binding]; other site 158189001900 motif 1; other site 158189001901 motif 3; other site 158189001902 motif 2; other site 158189001903 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 158189001904 ATP phosphoribosyltransferase; Region: HisG; cl15266 158189001905 HisG, C-terminal domain; Region: HisG_C; cl06867 158189001906 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 158189001907 histidinol dehydrogenase; Region: hisD; TIGR00069 158189001908 NAD binding site [chemical binding]; other site 158189001909 dimerization interface [polypeptide binding]; other site 158189001910 product binding site; other site 158189001911 substrate binding site [chemical binding]; other site 158189001912 zinc binding site [ion binding]; other site 158189001913 catalytic residues [active] 158189001914 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 158189001915 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 158189001916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189001917 homodimer interface [polypeptide binding]; other site 158189001918 catalytic residue [active] 158189001919 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 158189001920 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 158189001921 active site 158189001922 motif I; other site 158189001923 motif II; other site 158189001924 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 158189001925 putative active site pocket [active] 158189001926 4-fold oligomerization interface [polypeptide binding]; other site 158189001927 metal binding residues [ion binding]; metal-binding site 158189001928 3-fold/trimer interface [polypeptide binding]; other site 158189001929 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 158189001930 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 158189001931 putative active site [active] 158189001932 oxyanion strand; other site 158189001933 catalytic triad [active] 158189001934 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 158189001935 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 158189001936 catalytic residues [active] 158189001937 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 158189001938 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 158189001939 substrate binding site [chemical binding]; other site 158189001940 glutamase interaction surface [polypeptide binding]; other site 158189001941 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 158189001942 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 158189001943 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 158189001944 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 158189001945 catalytic core [active] 158189001946 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189001947 Helix-turn-helix domains; Region: HTH; cl00088 158189001948 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 158189001949 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 158189001950 Walker A/P-loop; other site 158189001951 ATP binding site [chemical binding]; other site 158189001952 Q-loop/lid; other site 158189001953 ABC transporter signature motif; other site 158189001954 Walker B; other site 158189001955 D-loop; other site 158189001956 H-loop/switch region; other site 158189001957 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 158189001958 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 158189001959 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 158189001960 alpha-glucosidase; Provisional; Region: PRK10426 158189001961 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 158189001962 putative active site [active] 158189001963 putative catalytic site [active] 158189001964 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 158189001965 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189001966 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 158189001967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189001968 NAD(P) binding site [chemical binding]; other site 158189001969 active site 158189001970 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 158189001971 Uncharacterized protein conserved in bacteria (DUF2329); Region: DUF2329; pfam10091 158189001972 Putative carbohydrate binding domain; Region: CBM_X; cl05621 158189001973 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 158189001974 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 158189001975 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 158189001976 Putative carbohydrate binding domain; Region: CBM_X; cl05621 158189001977 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 158189001978 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 158189001979 Carbon starvation protein CstA; Region: CstA; cl00856 158189001980 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 158189001981 rod shape-determining protein MreB; Provisional; Region: PRK13930 158189001982 Cell division protein FtsA; Region: FtsA; cl11496 158189001983 MreB/Mbl protein; Region: MreB_Mbl; pfam06723 158189001984 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 158189001985 MreB/Mbl protein; Region: MreB_Mbl; pfam06723 158189001986 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 158189001987 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 158189001988 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 158189001989 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 158189001990 active site 158189001991 catalytic triad [active] 158189001992 oxyanion hole [active] 158189001993 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 158189001994 putative active site [active] 158189001995 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 158189001996 hypothetical protein; Reviewed; Region: PRK00024 158189001997 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 158189001998 MPN+ (JAMM) motif; other site 158189001999 Zinc-binding site [ion binding]; other site 158189002000 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 158189002001 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 158189002002 DNA binding residues [nucleotide binding] 158189002003 dimer interface [polypeptide binding]; other site 158189002004 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 158189002005 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 158189002006 DNA interaction; other site 158189002007 Metal-binding active site; metal-binding site 158189002008 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189002009 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 158189002010 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 158189002011 dimer interface [polypeptide binding]; other site 158189002012 conserved gate region; other site 158189002013 putative PBP binding loops; other site 158189002014 ABC-ATPase subunit interface; other site 158189002015 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 158189002016 dimer interface [polypeptide binding]; other site 158189002017 conserved gate region; other site 158189002018 putative PBP binding loops; other site 158189002019 ABC-ATPase subunit interface; other site 158189002020 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 158189002021 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 158189002022 putative acyl-acceptor binding pocket; other site 158189002023 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 158189002024 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 158189002025 active site 158189002026 catalytic site [active] 158189002027 metal binding site [ion binding]; metal-binding site 158189002028 dimer interface [polypeptide binding]; other site 158189002029 DctM-like transporters; Region: DctM; pfam06808 158189002030 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189002031 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189002032 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189002033 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189002034 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189002035 Helix-turn-helix domains; Region: HTH; cl00088 158189002036 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189002037 ligand binding site [chemical binding]; other site 158189002038 dimerization interface [polypeptide binding]; other site 158189002039 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 158189002040 Nitrogen regulatory protein P-II; Region: P-II; cl00412 158189002041 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 158189002042 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 158189002043 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 158189002044 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 158189002045 TPP-binding site [chemical binding]; other site 158189002046 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 158189002047 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 158189002048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 158189002049 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189002050 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189002051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189002052 DNA-binding site [nucleotide binding]; DNA binding site 158189002053 FCD domain; Region: FCD; cl11656 158189002054 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 158189002055 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 158189002056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189002057 DNA-binding site [nucleotide binding]; DNA binding site 158189002058 FCD domain; Region: FCD; cl11656 158189002059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 158189002060 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189002061 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 158189002062 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 158189002063 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 158189002064 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 158189002065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189002066 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 158189002067 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 158189002068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189002069 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 158189002070 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 158189002071 inhibitor site; inhibition site 158189002072 active site 158189002073 dimer interface [polypeptide binding]; other site 158189002074 catalytic residue [active] 158189002075 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189002076 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 158189002077 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 158189002078 dimer interface [polypeptide binding]; other site 158189002079 conserved gate region; other site 158189002080 putative PBP binding loops; other site 158189002081 ABC-ATPase subunit interface; other site 158189002082 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189002083 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 158189002084 dimer interface [polypeptide binding]; other site 158189002085 conserved gate region; other site 158189002086 putative PBP binding loops; other site 158189002087 ABC-ATPase subunit interface; other site 158189002088 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 158189002089 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 158189002090 Predicted transcriptional regulator [Transcription]; Region: COG4189 158189002091 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 158189002092 dimerization interface [polypeptide binding]; other site 158189002093 putative DNA binding site [nucleotide binding]; other site 158189002094 putative Zn2+ binding site [ion binding]; other site 158189002095 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 158189002096 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 158189002097 Membrane transport protein; Region: Mem_trans; cl09117 158189002098 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 158189002099 DNA binding site [nucleotide binding] 158189002100 active site 158189002101 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 158189002102 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158189002103 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189002104 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 158189002105 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189002106 Coenzyme A binding pocket [chemical binding]; other site 158189002107 Predicted transcriptional regulator [Transcription]; Region: COG2378 158189002108 Helix-turn-helix domains; Region: HTH; cl00088 158189002109 Uncharacterized conserved protein [Function unknown]; Region: COG4832 158189002110 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158189002111 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 158189002112 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158189002113 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 158189002114 active site 158189002115 metal binding site [ion binding]; metal-binding site 158189002116 LysE type translocator; Region: LysE; cl00565 158189002117 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189002118 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189002119 DNA binding site [nucleotide binding] 158189002120 domain linker motif; other site 158189002121 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189002122 ligand binding site [chemical binding]; other site 158189002123 dimerization interface [polypeptide binding]; other site 158189002124 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 158189002125 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189002126 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189002127 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189002128 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 158189002129 active site 158189002130 catalytic site [active] 158189002131 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158189002132 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 158189002133 active site 158189002134 catalytic tetrad [active] 158189002135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 158189002136 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 158189002137 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189002138 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 158189002139 dimer interface [polypeptide binding]; other site 158189002140 conserved gate region; other site 158189002141 putative PBP binding loops; other site 158189002142 ABC-ATPase subunit interface; other site 158189002143 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 158189002144 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 158189002145 dimer interface [polypeptide binding]; other site 158189002146 conserved gate region; other site 158189002147 putative PBP binding loops; other site 158189002148 ABC-ATPase subunit interface; other site 158189002149 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189002150 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 158189002151 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189002152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189002153 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 158189002154 Fic/DOC family; Region: Fic; cl00960 158189002155 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 158189002156 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 158189002157 homotrimer interaction site [polypeptide binding]; other site 158189002158 zinc binding site [ion binding]; other site 158189002159 CDP-binding sites; other site 158189002160 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 158189002161 substrate binding site; other site 158189002162 dimer interface; other site 158189002163 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 158189002164 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 158189002165 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 158189002166 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 158189002167 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 158189002168 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 158189002169 RNA methyltransferase, RsmE family; Region: TIGR00046 158189002170 Thymidylate synthase complementing protein; Region: Thy1; cl03630 158189002171 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 158189002172 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 158189002173 Radical SAM superfamily; Region: Radical_SAM; pfam04055 158189002174 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 158189002175 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 158189002176 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 158189002177 GIY-YIG motif/motif A; other site 158189002178 active site 158189002179 catalytic site [active] 158189002180 putative DNA binding site [nucleotide binding]; other site 158189002181 metal binding site [ion binding]; metal-binding site 158189002182 UvrB/uvrC motif; Region: UVR; pfam02151 158189002183 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 158189002184 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 158189002185 DNA polymerase III, delta subunit; Region: holA; TIGR01128 158189002186 Helix-turn-helix domains; Region: HTH; cl00088 158189002187 LexA repressor; Validated; Region: PRK00215 158189002188 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 158189002189 Catalytic site [active] 158189002190 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 158189002191 dimerization domain swap beta strand [polypeptide binding]; other site 158189002192 regulatory protein interface [polypeptide binding]; other site 158189002193 active site 158189002194 regulatory phosphorylation site [posttranslational modification]; other site 158189002195 HPr kinase/phosphorylase; Provisional; Region: PRK05428 158189002196 DRTGG domain; Region: DRTGG; cl12147 158189002197 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 158189002198 Hpr binding site; other site 158189002199 active site 158189002200 homohexamer subunit interaction site [polypeptide binding]; other site 158189002201 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cl00250 158189002202 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 158189002203 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 158189002204 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 158189002205 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 158189002206 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 158189002207 Walker A/P-loop; other site 158189002208 ATP binding site [chemical binding]; other site 158189002209 Q-loop/lid; other site 158189002210 ABC transporter signature motif; other site 158189002211 Walker B; other site 158189002212 D-loop; other site 158189002213 H-loop/switch region; other site 158189002214 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 158189002215 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 158189002216 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158189002217 active site 158189002218 metal binding site [ion binding]; metal-binding site 158189002219 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 158189002220 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 158189002221 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 158189002222 active site 158189002223 Uncharacterized conserved protein [Function unknown]; Region: COG1284 158189002224 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 158189002225 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 158189002226 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 158189002227 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 158189002228 Fic/DOC family; Region: Fic; cl00960 158189002229 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 158189002230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189002231 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 158189002232 THUMP domain; Region: THUMP; cl12076 158189002233 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; cl12011 158189002234 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 158189002235 S-adenosylmethionine binding site [chemical binding]; other site 158189002236 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 158189002237 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 158189002238 dimerization interface [polypeptide binding]; other site 158189002239 domain crossover interface; other site 158189002240 redox-dependent activation switch; other site 158189002241 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 158189002242 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 158189002243 Walker A motif; other site 158189002244 ATP binding site [chemical binding]; other site 158189002245 Walker B motif; other site 158189002246 arginine finger; other site 158189002247 Peptidase family M41; Region: Peptidase_M41; pfam01434 158189002248 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 158189002249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189002250 NAD(P) binding site [chemical binding]; other site 158189002251 active site 158189002252 Outer membrane efflux protein; Region: OEP; pfam02321 158189002253 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 158189002254 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 158189002255 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158189002256 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 158189002257 Walker A/P-loop; other site 158189002258 ATP binding site [chemical binding]; other site 158189002259 Q-loop/lid; other site 158189002260 ABC transporter signature motif; other site 158189002261 Walker B; other site 158189002262 D-loop; other site 158189002263 H-loop/switch region; other site 158189002264 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 158189002265 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 158189002266 FtsX-like permease family; Region: FtsX; pfam02687 158189002267 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 158189002268 dimer interface [polypeptide binding]; other site 158189002269 phosphorylation site [posttranslational modification] 158189002270 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 158189002271 ATP binding site [chemical binding]; other site 158189002272 Mg2+ binding site [ion binding]; other site 158189002273 G-X-G motif; other site 158189002274 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 158189002275 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 158189002276 active site 158189002277 phosphorylation site [posttranslational modification] 158189002278 intermolecular recognition site; other site 158189002279 dimerization interface [polypeptide binding]; other site 158189002280 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 158189002281 Walker A motif; other site 158189002282 ATP binding site [chemical binding]; other site 158189002283 Walker B motif; other site 158189002284 arginine finger; other site 158189002285 Helix-turn-helix domains; Region: HTH; cl00088 158189002286 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 158189002287 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 158189002288 active site 158189002289 Zn binding site [ion binding]; other site 158189002290 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 158189002291 TRAM domain; Region: TRAM; cl01282 158189002292 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; cl12011 158189002293 NAD synthetase; Reviewed; Region: nadE; PRK02628 158189002294 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 158189002295 multimer interface [polypeptide binding]; other site 158189002296 active site 158189002297 catalytic triad [active] 158189002298 protein interface 1 [polypeptide binding]; other site 158189002299 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 158189002300 homodimer interface [polypeptide binding]; other site 158189002301 NAD binding pocket [chemical binding]; other site 158189002302 ATP binding pocket [chemical binding]; other site 158189002303 Mg binding site [ion binding]; other site 158189002304 active-site loop [active] 158189002305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189002306 DNA polymerase I; Provisional; Region: PRK05755 158189002307 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 158189002308 active site 158189002309 metal binding site 1 [ion binding]; metal-binding site 158189002310 putative 5' ssDNA interaction site; other site 158189002311 metal binding site 3; metal-binding site 158189002312 metal binding site 2 [ion binding]; metal-binding site 158189002313 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 158189002314 putative DNA binding site [nucleotide binding]; other site 158189002315 putative metal binding site [ion binding]; other site 158189002316 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 158189002317 active site 158189002318 catalytic site [active] 158189002319 substrate binding site [chemical binding]; other site 158189002320 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 158189002321 active site 158189002322 DNA binding site [nucleotide binding] 158189002323 catalytic site [active] 158189002324 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 158189002325 CoA-binding site [chemical binding]; other site 158189002326 ATP-binding [chemical binding]; other site 158189002327 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 158189002328 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 158189002329 FeS/SAM binding site; other site 158189002330 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 158189002331 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158189002332 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 158189002333 Domain of unknown function DUF; Region: DUF204; pfam02659 158189002334 Domain of unknown function DUF; Region: DUF204; pfam02659 158189002335 Cupin domain; Region: Cupin_2; cl09118 158189002336 hybrid cluster protein; Provisional; Region: PRK05290 158189002337 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 158189002338 ACS interaction site; other site 158189002339 CODH interaction site; other site 158189002340 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 158189002341 hybrid metal cluster; other site 158189002342 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 158189002343 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 158189002344 Helix-turn-helix domains; Region: HTH; cl00088 158189002345 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 158189002346 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189002347 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 158189002348 dimer interface [polypeptide binding]; other site 158189002349 conserved gate region; other site 158189002350 putative PBP binding loops; other site 158189002351 ABC-ATPase subunit interface; other site 158189002352 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 158189002353 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 158189002354 dimer interface [polypeptide binding]; other site 158189002355 conserved gate region; other site 158189002356 putative PBP binding loops; other site 158189002357 ABC-ATPase subunit interface; other site 158189002358 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189002359 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 158189002360 elongation factor P; Validated; Region: PRK00529 158189002361 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 158189002362 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 158189002363 RNA binding site [nucleotide binding]; other site 158189002364 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 158189002365 RNA binding site [nucleotide binding]; other site 158189002366 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 158189002367 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 158189002368 motif 1; other site 158189002369 dimer interface [polypeptide binding]; other site 158189002370 active site 158189002371 motif 2; other site 158189002372 motif 3; other site 158189002373 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 158189002374 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 158189002375 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 158189002376 G1 box; other site 158189002377 GTP/Mg2+ binding site [chemical binding]; other site 158189002378 Switch I region; other site 158189002379 G2 box; other site 158189002380 Switch II region; other site 158189002381 G3 box; other site 158189002382 G4 box; other site 158189002383 G5 box; other site 158189002384 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 158189002385 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 158189002386 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 158189002387 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 158189002388 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; cl12011 158189002389 DNA translocase FtsK; Provisional; Region: PRK10263 158189002390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189002391 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 158189002392 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 158189002393 homodimer interface [polypeptide binding]; other site 158189002394 substrate-cofactor binding pocket; other site 158189002395 Aminotransferase class IV; Region: Aminotran_4; pfam01063 158189002396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189002397 catalytic residue [active] 158189002398 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 158189002399 DEAD-like helicases superfamily; Region: DEXDc; smart00487 158189002400 ATP binding site [chemical binding]; other site 158189002401 Mg++ binding site [ion binding]; other site 158189002402 motif III; other site 158189002403 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 158189002404 nucleotide binding region [chemical binding]; other site 158189002405 ATP-binding site [chemical binding]; other site 158189002406 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 158189002407 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 158189002408 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 158189002409 Walker A/P-loop; other site 158189002410 ATP binding site [chemical binding]; other site 158189002411 Q-loop/lid; other site 158189002412 ABC transporter signature motif; other site 158189002413 Walker B; other site 158189002414 D-loop; other site 158189002415 H-loop/switch region; other site 158189002416 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 158189002417 putative acyl-acceptor binding pocket; other site 158189002418 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 158189002419 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 158189002420 Walker A/P-loop; other site 158189002421 ATP binding site [chemical binding]; other site 158189002422 Q-loop/lid; other site 158189002423 ABC transporter signature motif; other site 158189002424 Walker B; other site 158189002425 D-loop; other site 158189002426 H-loop/switch region; other site 158189002427 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 158189002428 Walker A/P-loop; other site 158189002429 ATP binding site [chemical binding]; other site 158189002430 Q-loop/lid; other site 158189002431 ABC transporter signature motif; other site 158189002432 Walker B; other site 158189002433 D-loop; other site 158189002434 H-loop/switch region; other site 158189002435 Cobalt transport protein; Region: CbiQ; cl00463 158189002436 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 158189002437 GMP synthase; Reviewed; Region: guaA; PRK00074 158189002438 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 158189002439 AMP/PPi binding site [chemical binding]; other site 158189002440 candidate oxyanion hole; other site 158189002441 catalytic triad [active] 158189002442 potential glutamine specificity residues [chemical binding]; other site 158189002443 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 158189002444 ATP Binding subdomain [chemical binding]; other site 158189002445 Ligand Binding sites [chemical binding]; other site 158189002446 Dimerization subdomain; other site 158189002447 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 158189002448 active site 158189002449 metal binding site [ion binding]; metal-binding site 158189002450 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158189002451 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 158189002452 MatE; Region: MatE; cl10513 158189002453 MatE; Region: MatE; cl10513 158189002454 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 158189002455 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 158189002456 putative substrate translocation pore; other site 158189002457 aspartate kinase; Reviewed; Region: PRK09034 158189002458 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 158189002459 nucleotide binding site [chemical binding]; other site 158189002460 substrate binding site [chemical binding]; other site 158189002461 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 158189002462 hypothetical protein; Provisional; Region: PRK04164 158189002463 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 158189002464 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 158189002465 putative ligand binding site [chemical binding]; other site 158189002466 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 158189002467 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189002468 Walker A/P-loop; other site 158189002469 ATP binding site [chemical binding]; other site 158189002470 Q-loop/lid; other site 158189002471 ABC transporter signature motif; other site 158189002472 Walker B; other site 158189002473 D-loop; other site 158189002474 H-loop/switch region; other site 158189002475 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189002476 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189002477 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189002478 TM-ABC transporter signature motif; other site 158189002479 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 158189002480 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 158189002481 Walker A/P-loop; other site 158189002482 ATP binding site [chemical binding]; other site 158189002483 Q-loop/lid; other site 158189002484 ABC transporter signature motif; other site 158189002485 Walker B; other site 158189002486 D-loop; other site 158189002487 H-loop/switch region; other site 158189002488 TOBE domain; Region: TOBE_2; cl01440 158189002489 TOBE domain; Region: TOBE_2; cl01440 158189002490 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189002491 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 158189002492 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 158189002493 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 158189002494 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 158189002495 active site 158189002496 phosphorylation site [posttranslational modification] 158189002497 intermolecular recognition site; other site 158189002498 dimerization interface [polypeptide binding]; other site 158189002499 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189002500 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189002501 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 158189002502 dimerization interface [polypeptide binding]; other site 158189002503 Histidine kinase; Region: His_kinase; pfam06580 158189002504 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 158189002505 ATP binding site [chemical binding]; other site 158189002506 Mg2+ binding site [ion binding]; other site 158189002507 G-X-G motif; other site 158189002508 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189002509 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 158189002510 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 158189002511 dimer interface [polypeptide binding]; other site 158189002512 conserved gate region; other site 158189002513 putative PBP binding loops; other site 158189002514 ABC-ATPase subunit interface; other site 158189002515 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189002516 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 158189002517 dimer interface [polypeptide binding]; other site 158189002518 conserved gate region; other site 158189002519 putative PBP binding loops; other site 158189002520 ABC-ATPase subunit interface; other site 158189002521 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 158189002522 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 158189002523 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 158189002524 Uncharacterized conserved protein [Function unknown]; Region: COG3461 158189002525 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 158189002526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189002527 DNA-binding site [nucleotide binding]; DNA binding site 158189002528 UTRA domain; Region: UTRA; cl01230 158189002529 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 158189002530 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189002531 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189002532 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189002533 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 158189002534 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 158189002535 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 158189002536 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 158189002537 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 158189002538 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 158189002539 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 158189002540 active site 158189002541 substrate binding site [chemical binding]; other site 158189002542 catalytic site [active] 158189002543 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 158189002544 active site 158189002545 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 158189002546 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 158189002547 Ligand Binding Site [chemical binding]; other site 158189002548 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 158189002549 active site 158189002550 trimer interface [polypeptide binding]; other site 158189002551 allosteric site; other site 158189002552 active site lid [active] 158189002553 hexamer (dimer of trimers) interface [polypeptide binding]; other site 158189002554 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 158189002555 Uncharacterized conserved protein [Function unknown]; Region: COG2006 158189002556 4Fe-4S binding domain; Region: Fer4; cl02805 158189002557 4Fe-4S binding domain; Region: Fer4; cl02805 158189002558 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 158189002559 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 158189002560 putative active site [active] 158189002561 catalytic site [active] 158189002562 putative metal binding site [ion binding]; other site 158189002563 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 158189002564 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 158189002565 Domain of unknown function DUF20; Region: UPF0118; cl00465 158189002566 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 158189002567 endonuclease III; Region: ENDO3c; smart00478 158189002568 minor groove reading motif; other site 158189002569 helix-hairpin-helix signature motif; other site 158189002570 substrate binding pocket [chemical binding]; other site 158189002571 active site 158189002572 Protein of unknown function, DUF606; Region: DUF606; cl01273 158189002573 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 158189002574 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 158189002575 active site pocket [active] 158189002576 putative dimer interface [polypeptide binding]; other site 158189002577 putative cataytic base [active] 158189002578 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 158189002579 Metal-binding active site; metal-binding site 158189002580 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 158189002581 homotrimer interface [polypeptide binding]; other site 158189002582 Walker A motif; other site 158189002583 GTP binding site [chemical binding]; other site 158189002584 Walker B motif; other site 158189002585 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 158189002586 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189002587 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 158189002588 Uncharacterized conserved protein [Function unknown]; Region: COG1912 158189002589 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 158189002590 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 158189002591 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 158189002592 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 158189002593 Walker A/P-loop; other site 158189002594 ATP binding site [chemical binding]; other site 158189002595 Q-loop/lid; other site 158189002596 ABC transporter signature motif; other site 158189002597 Walker B; other site 158189002598 D-loop; other site 158189002599 H-loop/switch region; other site 158189002600 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 158189002601 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 158189002602 Walker A/P-loop; other site 158189002603 ATP binding site [chemical binding]; other site 158189002604 Q-loop/lid; other site 158189002605 ABC transporter signature motif; other site 158189002606 Walker B; other site 158189002607 D-loop; other site 158189002608 H-loop/switch region; other site 158189002609 Cobalt transport protein; Region: CbiQ; cl00463 158189002610 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 158189002611 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189002612 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 158189002613 DbpA RNA binding domain; Region: DbpA; pfam03880 158189002614 YceG-like family; Region: YceG; pfam02618 158189002615 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 158189002616 dimerization interface [polypeptide binding]; other site 158189002617 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 158189002618 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 158189002619 dimerization interface [polypeptide binding]; other site 158189002620 putative DNA binding site [nucleotide binding]; other site 158189002621 putative Zn2+ binding site [ion binding]; other site 158189002622 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 158189002623 active site 158189002624 nucleophile elbow; other site 158189002625 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 158189002626 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 158189002627 binding surface 158189002628 TPR motif; other site 158189002629 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 158189002630 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 158189002631 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 158189002632 putative active site [active] 158189002633 catalytic site [active] 158189002634 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 158189002635 putative active site [active] 158189002636 catalytic site [active] 158189002637 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 158189002638 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 158189002639 substrate binding site [chemical binding]; other site 158189002640 dimer interface [polypeptide binding]; other site 158189002641 ATP binding site [chemical binding]; other site 158189002642 Cupin domain; Region: Cupin_2; cl09118 158189002643 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189002644 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189002645 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189002646 D-xylulose kinases, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 158189002647 N- and C-terminal domain interface [polypeptide binding]; other site 158189002648 D-xylulose kinase; Region: XylB; TIGR01312 158189002649 active site 158189002650 catalytic site [active] 158189002651 metal binding site [ion binding]; metal-binding site 158189002652 xylulose binding site [chemical binding]; other site 158189002653 ATP binding site [chemical binding]; other site 158189002654 putative homodimer interface [polypeptide binding]; other site 158189002655 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 158189002656 Membrane transport protein; Region: Mem_trans; cl09117 158189002657 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158189002658 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 158189002659 active site 158189002660 catalytic tetrad [active] 158189002661 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 158189002662 diiron binding motif [ion binding]; other site 158189002663 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 158189002664 Trp repressor protein; Region: Trp_repressor; cl01121 158189002665 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 158189002666 Bacterial sugar transferase; Region: Bac_transf; cl00939 158189002667 monogalactosyldiacylglycerol synthase; Region: PLN02605 158189002668 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 158189002669 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 158189002670 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 158189002671 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 158189002672 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 158189002673 helicase 45; Provisional; Region: PTZ00424 158189002674 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 158189002675 ATP binding site [chemical binding]; other site 158189002676 Mg++ binding site [ion binding]; other site 158189002677 motif III; other site 158189002678 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 158189002679 nucleotide binding region [chemical binding]; other site 158189002680 ATP-binding site [chemical binding]; other site 158189002681 DbpA RNA binding domain; Region: DbpA; pfam03880 158189002682 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 158189002683 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158189002684 active site 158189002685 metal binding site [ion binding]; metal-binding site 158189002686 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 158189002687 PPIC-type PPIASE domain; Region: Rotamase; cl08278 158189002688 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 158189002689 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 158189002690 motif II; other site 158189002691 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189002692 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 158189002693 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 158189002694 ligand binding site [chemical binding]; other site 158189002695 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 158189002696 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189002697 Walker A/P-loop; other site 158189002698 ATP binding site [chemical binding]; other site 158189002699 Q-loop/lid; other site 158189002700 ABC transporter signature motif; other site 158189002701 Walker B; other site 158189002702 D-loop; other site 158189002703 H-loop/switch region; other site 158189002704 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189002705 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189002706 TM-ABC transporter signature motif; other site 158189002707 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189002708 TM-ABC transporter signature motif; other site 158189002709 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158189002710 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 158189002711 FMN binding site [chemical binding]; other site 158189002712 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 158189002713 dimer interface [polypeptide binding]; other site 158189002714 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 158189002715 active site 158189002716 tetramer interface [polypeptide binding]; other site 158189002717 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 158189002718 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189002719 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 158189002720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189002721 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 158189002722 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 158189002723 active site 158189002724 putative substrate binding pocket [chemical binding]; other site 158189002725 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 158189002726 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 158189002727 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 158189002728 Walker A/P-loop; other site 158189002729 ATP binding site [chemical binding]; other site 158189002730 Q-loop/lid; other site 158189002731 ABC transporter signature motif; other site 158189002732 Walker B; other site 158189002733 D-loop; other site 158189002734 H-loop/switch region; other site 158189002735 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 158189002736 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 158189002737 dimer interface [polypeptide binding]; other site 158189002738 conserved gate region; other site 158189002739 putative PBP binding loops; other site 158189002740 ABC-ATPase subunit interface; other site 158189002741 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 158189002742 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 158189002743 substrate binding pocket [chemical binding]; other site 158189002744 membrane-bound complex binding site; other site 158189002745 hinge residues; other site 158189002746 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 158189002747 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 158189002748 G1 box; other site 158189002749 GTP/Mg2+ binding site [chemical binding]; other site 158189002750 Switch I region; other site 158189002751 G2 box; other site 158189002752 G3 box; other site 158189002753 Switch II region; other site 158189002754 G4 box; other site 158189002755 G5 box; other site 158189002756 Nucleoside recognition; Region: Gate; cl00486 158189002757 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 158189002758 Nucleoside recognition; Region: Gate; cl00486 158189002759 FeoA domain; Region: FeoA; cl00838 158189002760 Helix-turn-helix domains; Region: HTH; cl00088 158189002761 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 158189002762 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 158189002763 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189002764 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 158189002765 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189002766 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189002767 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 158189002768 dimer interface [polypeptide binding]; other site 158189002769 conserved gate region; other site 158189002770 putative PBP binding loops; other site 158189002771 ABC-ATPase subunit interface; other site 158189002772 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 158189002773 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189002774 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 158189002775 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 158189002776 active site 158189002777 phosphorylation site [posttranslational modification] 158189002778 intermolecular recognition site; other site 158189002779 dimerization interface [polypeptide binding]; other site 158189002780 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189002781 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189002782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189002783 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 158189002784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 158189002785 Histidine kinase; Region: His_kinase; pfam06580 158189002786 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 158189002787 ATP binding site [chemical binding]; other site 158189002788 Mg2+ binding site [ion binding]; other site 158189002789 G-X-G motif; other site 158189002790 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 158189002791 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 158189002792 putative valine binding site [chemical binding]; other site 158189002793 dimer interface [polypeptide binding]; other site 158189002794 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 158189002795 ketol-acid reductoisomerase; Provisional; Region: PRK05479 158189002796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189002797 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 158189002798 2-isopropylmalate synthase; Validated; Region: PRK00915 158189002799 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 158189002800 active site 158189002801 catalytic residues [active] 158189002802 metal binding site [ion binding]; metal-binding site 158189002803 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 158189002804 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 158189002805 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 158189002806 active site 158189002807 catalytic residues [active] 158189002808 metal binding site [ion binding]; metal-binding site 158189002809 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 158189002810 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 158189002811 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 158189002812 substrate binding site [chemical binding]; other site 158189002813 ligand binding site [chemical binding]; other site 158189002814 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 158189002815 substrate binding site [chemical binding]; other site 158189002816 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 158189002817 tartrate dehydrogenase; Provisional; Region: PRK08194 158189002818 Dehydratase family; Region: ILVD_EDD; cl00340 158189002819 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 158189002820 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 158189002821 PYR/PP interface [polypeptide binding]; other site 158189002822 dimer interface [polypeptide binding]; other site 158189002823 TPP binding site [chemical binding]; other site 158189002824 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 158189002825 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 158189002826 TPP-binding site [chemical binding]; other site 158189002827 dimer interface [polypeptide binding]; other site 158189002828 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 158189002829 non-specific DNA binding site [nucleotide binding]; other site 158189002830 salt bridge; other site 158189002831 sequence-specific DNA binding site [nucleotide binding]; other site 158189002832 Rubrerythrin [Energy production and conversion]; Region: COG1592 158189002833 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 158189002834 iron binding site [ion binding]; other site 158189002835 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 158189002836 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 158189002837 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158189002838 putative substrate translocation pore; other site 158189002839 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 158189002840 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 158189002841 active site 158189002842 motif I; other site 158189002843 motif II; other site 158189002844 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189002845 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 158189002846 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 158189002847 putative catalytic cysteine [active] 158189002848 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 158189002849 putative active site [active] 158189002850 metal binding site [ion binding]; metal-binding site 158189002851 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 158189002852 NGN-insert domain found between N-terminal domain (D1) and C-terminal KOW domain (DIII) repeats of some N-Utilization Substance G (NusG) N-terminal (NGN); Region: NGN-insert_like; cd09910 158189002853 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158189002854 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 158189002855 active site 158189002856 phosphorylation site [posttranslational modification] 158189002857 intermolecular recognition site; other site 158189002858 dimerization interface [polypeptide binding]; other site 158189002859 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 158189002860 DNA binding site [nucleotide binding] 158189002861 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158189002862 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 158189002863 active site 158189002864 phosphorylation site [posttranslational modification] 158189002865 intermolecular recognition site; other site 158189002866 dimerization interface [polypeptide binding]; other site 158189002867 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 158189002868 DNA binding site [nucleotide binding] 158189002869 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 158189002870 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 158189002871 dimer interface [polypeptide binding]; other site 158189002872 phosphorylation site [posttranslational modification] 158189002873 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 158189002874 ATP binding site [chemical binding]; other site 158189002875 Mg2+ binding site [ion binding]; other site 158189002876 G-X-G motif; other site 158189002877 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 158189002878 active site 158189002879 metal binding site [ion binding]; metal-binding site 158189002880 homotetramer interface [polypeptide binding]; other site 158189002881 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 158189002882 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 158189002883 putative active site [active] 158189002884 putative NTP binding site [chemical binding]; other site 158189002885 putative nucleic acid binding site [nucleotide binding]; other site 158189002886 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 158189002887 Protein of unknown function (DUF419); Region: DUF419; cl15265 158189002888 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 158189002889 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 158189002890 putative active site [active] 158189002891 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 158189002892 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 158189002893 dimer interface [polypeptide binding]; other site 158189002894 active site 158189002895 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 158189002896 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158189002897 N-acetylmannosamine kinase; Provisional; Region: PRK05082 158189002898 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189002899 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 158189002900 dimer interface [polypeptide binding]; other site 158189002901 conserved gate region; other site 158189002902 putative PBP binding loops; other site 158189002903 ABC-ATPase subunit interface; other site 158189002904 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189002905 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 158189002906 dimer interface [polypeptide binding]; other site 158189002907 conserved gate region; other site 158189002908 putative PBP binding loops; other site 158189002909 ABC-ATPase subunit interface; other site 158189002910 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189002911 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 158189002912 GTPase RsgA; Reviewed; Region: PRK01889 158189002913 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 158189002914 GTPase/OB domain interface [polypeptide binding]; other site 158189002915 GTPase/Zn-binding domain interface [polypeptide binding]; other site 158189002916 GTP/Mg2+ binding site [chemical binding]; other site 158189002917 G4 box; other site 158189002918 G5 box; other site 158189002919 G1 box; other site 158189002920 Switch I region; other site 158189002921 G2 box; other site 158189002922 G3 box; other site 158189002923 Switch II region; other site 158189002924 RNHCP domain; Region: RNHCP; pfam12647 158189002925 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 158189002926 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 158189002927 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 158189002928 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 158189002929 metal-binding site [ion binding] 158189002930 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 158189002931 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189002932 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 158189002933 metal-binding site [ion binding] 158189002934 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 158189002935 putative homotetramer interface [polypeptide binding]; other site 158189002936 putative homodimer interface [polypeptide binding]; other site 158189002937 putative allosteric switch controlling residues; other site 158189002938 putative metal binding site [ion binding]; other site 158189002939 putative homodimer-homodimer interface [polypeptide binding]; other site 158189002940 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 158189002941 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 158189002942 Condensation domain; Region: Condensation; pfam00668 158189002943 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 158189002944 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 158189002945 ApbE family; Region: ApbE; cl00643 158189002946 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 158189002947 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 158189002948 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 158189002949 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189002950 Sodium:solute symporter family; Region: SSF; cl00456 158189002951 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 158189002952 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 158189002953 active site 158189002954 phosphorylation site [posttranslational modification] 158189002955 intermolecular recognition site; other site 158189002956 dimerization interface [polypeptide binding]; other site 158189002957 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 158189002958 DNA binding residues [nucleotide binding] 158189002959 dimerization interface [polypeptide binding]; other site 158189002960 Histidine kinase; Region: HisKA_3; pfam07730 158189002961 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 158189002962 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189002963 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 158189002964 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 158189002965 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 158189002966 dimer interface [polypeptide binding]; other site 158189002967 putative PBP binding loops; other site 158189002968 ABC-ATPase subunit interface; other site 158189002969 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189002970 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 158189002971 dimer interface [polypeptide binding]; other site 158189002972 conserved gate region; other site 158189002973 putative PBP binding loops; other site 158189002974 ABC-ATPase subunit interface; other site 158189002975 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 158189002976 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 158189002977 domain; Region: Glyco_hydro_2; pfam00703 158189002978 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 158189002979 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 158189002980 catalytic residues [active] 158189002981 dimer interface [polypeptide binding]; other site 158189002982 Fic/DOC family; Region: Fic; cl00960 158189002983 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 158189002984 catalytic residues [active] 158189002985 dimer interface [polypeptide binding]; other site 158189002986 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 158189002987 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 158189002988 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189002989 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189002990 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189002991 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189002992 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189002993 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189002994 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189002995 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189002996 DNA binding site [nucleotide binding] 158189002997 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 158189002998 dimerization interface [polypeptide binding]; other site 158189002999 ligand binding site [chemical binding]; other site 158189003000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189003001 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 158189003002 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 158189003003 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 158189003004 ligand binding site [chemical binding]; other site 158189003005 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 158189003006 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189003007 Walker A/P-loop; other site 158189003008 ATP binding site [chemical binding]; other site 158189003009 Q-loop/lid; other site 158189003010 ABC transporter signature motif; other site 158189003011 Walker B; other site 158189003012 D-loop; other site 158189003013 H-loop/switch region; other site 158189003014 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189003015 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189003016 TM-ABC transporter signature motif; other site 158189003017 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189003018 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189003019 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158189003020 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 158189003021 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 158189003022 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 158189003023 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 158189003024 homodimer interface [polypeptide binding]; other site 158189003025 substrate-cofactor binding pocket; other site 158189003026 catalytic residue [active] 158189003027 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 158189003028 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 158189003029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003030 Walker A/P-loop; other site 158189003031 ATP binding site [chemical binding]; other site 158189003032 Q-loop/lid; other site 158189003033 ABC transporter signature motif; other site 158189003034 Walker B; other site 158189003035 D-loop; other site 158189003036 H-loop/switch region; other site 158189003037 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 158189003038 EamA-like transporter family; Region: EamA; cl01037 158189003039 EamA-like transporter family; Region: EamA; cl01037 158189003040 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 158189003041 Protein export membrane protein; Region: SecD_SecF; cl14618 158189003042 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 158189003043 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 158189003044 carboxyltransferase (CT) interaction site; other site 158189003045 biotinylation site [posttranslational modification]; other site 158189003046 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 158189003047 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 158189003048 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 158189003049 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 158189003050 putative active site [active] 158189003051 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 158189003052 Helix-turn-helix domains; Region: HTH; cl00088 158189003053 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 158189003054 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 158189003055 Metal-binding active site; metal-binding site 158189003056 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 158189003057 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 158189003058 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158189003059 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003060 Walker A/P-loop; other site 158189003061 ATP binding site [chemical binding]; other site 158189003062 Q-loop/lid; other site 158189003063 ABC transporter signature motif; other site 158189003064 Walker B; other site 158189003065 D-loop; other site 158189003066 H-loop/switch region; other site 158189003067 TOBE domain; Region: TOBE_2; cl01440 158189003068 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 158189003069 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 158189003070 dimer interface [polypeptide binding]; other site 158189003071 conserved gate region; other site 158189003072 putative PBP binding loops; other site 158189003073 ABC-ATPase subunit interface; other site 158189003074 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 158189003075 dimer interface [polypeptide binding]; other site 158189003076 conserved gate region; other site 158189003077 ABC-ATPase subunit interface; other site 158189003078 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 158189003079 dimerization interface [polypeptide binding]; other site 158189003080 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 158189003081 putative active cleft [active] 158189003082 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 158189003083 active site 158189003084 substrate binding site [chemical binding]; other site 158189003085 metal binding site [ion binding]; metal-binding site 158189003086 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 158189003087 active site 158189003088 trimer interface [polypeptide binding]; other site 158189003089 allosteric site; other site 158189003090 active site lid [active] 158189003091 hexamer (dimer of trimers) interface [polypeptide binding]; other site 158189003092 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 158189003093 putative active site [active] 158189003094 heme pocket [chemical binding]; other site 158189003095 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 158189003096 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 158189003097 binding surface 158189003098 TPR motif; other site 158189003099 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 158189003100 RNA/DNA binding site [nucleotide binding]; other site 158189003101 RRM dimerization site [polypeptide binding]; other site 158189003102 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 158189003103 active site 158189003104 8-oxo-dGMP binding site [chemical binding]; other site 158189003105 nudix motif; other site 158189003106 metal binding site [ion binding]; metal-binding site 158189003107 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 158189003108 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189003109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 158189003110 TolB amino-terminal domain; Region: TolB_N; cl00639 158189003111 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 158189003112 catalytic site [active] 158189003113 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 158189003114 active site residue [active] 158189003115 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 158189003116 PAS domain S-box; Region: sensory_box; TIGR00229 158189003117 PAS fold; Region: PAS; pfam00989 158189003118 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 158189003119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189003120 metal binding site [ion binding]; metal-binding site 158189003121 active site 158189003122 I-site; other site 158189003123 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189003124 Zn2+ binding site [ion binding]; other site 158189003125 Mg2+ binding site [ion binding]; other site 158189003126 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189003127 metal binding site [ion binding]; metal-binding site 158189003128 active site 158189003129 I-site; other site 158189003130 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 158189003131 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 158189003132 4Fe-4S binding domain; Region: Fer4_5; pfam12801 158189003133 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 158189003134 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158189003135 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 158189003136 active site 158189003137 catalytic tetrad [active] 158189003138 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 158189003139 catalytic residues [active] 158189003140 dimer interface [polypeptide binding]; other site 158189003141 Transcriptional regulators [Transcription]; Region: MarR; COG1846 158189003142 Helix-turn-helix domains; Region: HTH; cl00088 158189003143 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 158189003144 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 158189003145 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 158189003146 FeS/SAM binding site; other site 158189003147 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 158189003148 Pyruvate formate lyase 1; Region: PFL1; cd01678 158189003149 coenzyme A binding site [chemical binding]; other site 158189003150 active site 158189003151 catalytic residues [active] 158189003152 glycine loop; other site 158189003153 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 158189003154 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 158189003155 ligand binding site [chemical binding]; other site 158189003156 flexible hinge region; other site 158189003157 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 158189003158 putative switch regulator; other site 158189003159 non-specific DNA interactions [nucleotide binding]; other site 158189003160 DNA binding site [nucleotide binding] 158189003161 sequence specific DNA binding site [nucleotide binding]; other site 158189003162 putative cAMP binding site [chemical binding]; other site 158189003163 Predicted permease; Region: DUF318; cl00487 158189003164 Predicted permease; Region: DUF318; cl00487 158189003165 FOG: CBS domain [General function prediction only]; Region: COG0517 158189003166 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 158189003167 Uncharacterized conserved protein [Function unknown]; Region: COG2461 158189003168 Family of unknown function (DUF438); Region: DUF438; pfam04282 158189003169 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 158189003170 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 158189003171 substrate binding pocket [chemical binding]; other site 158189003172 chain length determination region; other site 158189003173 substrate-Mg2+ binding site; other site 158189003174 catalytic residues [active] 158189003175 aspartate-rich region 1; other site 158189003176 active site lid residues [active] 158189003177 aspartate-rich region 2; other site 158189003178 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 158189003179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189003180 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 158189003181 LysE type translocator; Region: LysE; cl00565 158189003182 oligoendopeptidase F; Region: pepF; TIGR00181 158189003183 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 158189003184 active site 158189003185 Zn binding site [ion binding]; other site 158189003186 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 158189003187 active site 158189003188 dimerization interface [polypeptide binding]; other site 158189003189 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 158189003190 DHH family; Region: DHH; pfam01368 158189003191 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 158189003192 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 158189003193 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003194 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 158189003195 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 158189003196 oligomer interface [polypeptide binding]; other site 158189003197 active site residues [active] 158189003198 trigger factor; Provisional; Region: tig; PRK01490 158189003199 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 158189003200 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 158189003201 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 158189003202 ArsC family; Region: ArsC; pfam03960 158189003203 putative ArsC-like catalytic residues; other site 158189003204 putative TRX-like catalytic residues [active] 158189003205 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 158189003206 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189003207 Coenzyme A binding pocket [chemical binding]; other site 158189003208 Pectinesterase; Region: Pectinesterase; cl01911 158189003209 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 158189003210 Transcriptional regulator [Transcription]; Region: LysR; COG0583 158189003211 Helix-turn-helix domains; Region: HTH; cl00088 158189003212 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 158189003213 dimerization interface [polypeptide binding]; other site 158189003214 Fic family protein [Function unknown]; Region: COG3177 158189003215 Fic/DOC family; Region: Fic; cl00960 158189003216 recombination factor protein RarA/unknown domain fusion protein; Reviewed; Region: PRK13341 158189003217 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 158189003218 Walker A motif; other site 158189003219 ATP binding site [chemical binding]; other site 158189003220 Walker B motif; other site 158189003221 arginine finger; other site 158189003222 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 158189003223 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 158189003224 MatE; Region: MatE; cl10513 158189003225 MatE; Region: MatE; cl10513 158189003226 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 158189003227 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 158189003228 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 158189003229 DRTGG domain; Region: DRTGG; cl12147 158189003230 FOG: CBS domain [General function prediction only]; Region: COG0517 158189003231 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 158189003232 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 158189003233 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 158189003234 active site 158189003235 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 158189003236 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 158189003237 Nitrogen regulatory protein P-II; Region: P-II; cl00412 158189003238 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 158189003239 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 158189003240 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 158189003241 putative active site [active] 158189003242 putative substrate binding site [chemical binding]; other site 158189003243 putative cosubstrate binding site; other site 158189003244 catalytic site [active] 158189003245 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 158189003246 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 158189003247 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 158189003248 generic binding surface I; other site 158189003249 generic binding surface II; other site 158189003250 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 158189003251 4Fe-4S binding domain; Region: Fer4; cl02805 158189003252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189003253 metal binding site [ion binding]; metal-binding site 158189003254 active site 158189003255 I-site; other site 158189003256 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 158189003257 DNA topoisomerase III; Provisional; Region: PRK07726 158189003258 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 158189003259 active site 158189003260 putative interdomain interaction site [polypeptide binding]; other site 158189003261 putative metal-binding site [ion binding]; other site 158189003262 putative nucleotide binding site [chemical binding]; other site 158189003263 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 158189003264 domain I; other site 158189003265 DNA binding groove [nucleotide binding] 158189003266 phosphate binding site [ion binding]; other site 158189003267 domain II; other site 158189003268 domain III; other site 158189003269 nucleotide binding site [chemical binding]; other site 158189003270 catalytic site [active] 158189003271 domain IV; other site 158189003272 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 158189003273 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189003274 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189003275 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 158189003276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189003277 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 158189003278 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 158189003279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189003280 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 158189003281 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 158189003282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189003283 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 158189003284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189003285 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 158189003286 4Fe-4S binding domain; Region: Fer4; cl02805 158189003287 dihydrodipicolinate reductase; Provisional; Region: PRK00048 158189003288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189003289 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 158189003290 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 158189003291 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 158189003292 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 158189003293 dihydrodipicolinate synthase; Region: dapA; TIGR00674 158189003294 dimer interface [polypeptide binding]; other site 158189003295 active site 158189003296 catalytic residue [active] 158189003297 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 158189003298 FCD domain; Region: FCD; cl11656 158189003299 dihydrodipicolinate reductase; Provisional; Region: PRK00048 158189003300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189003301 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 158189003302 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 158189003303 dihydrodipicolinate synthase; Region: dapA; TIGR00674 158189003304 dimer interface [polypeptide binding]; other site 158189003305 active site 158189003306 catalytic residue [active] 158189003307 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 158189003308 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 158189003309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189003310 homodimer interface [polypeptide binding]; other site 158189003311 catalytic residue [active] 158189003312 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 158189003313 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 158189003314 active site 158189003315 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158189003316 substrate binding site [chemical binding]; other site 158189003317 catalytic residues [active] 158189003318 dimer interface [polypeptide binding]; other site 158189003319 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 158189003320 active site 158189003321 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 158189003322 putative ligand binding site [chemical binding]; other site 158189003323 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 158189003324 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 158189003325 putative ATP binding site [chemical binding]; other site 158189003326 putative substrate interface [chemical binding]; other site 158189003327 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 158189003328 active site 158189003329 AzlC protein; Region: AzlC; cl00570 158189003330 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 158189003331 SelR domain; Region: SelR; cl00369 158189003332 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 158189003333 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 158189003334 FMN-binding domain; Region: FMN_bind; cl01081 158189003335 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158189003336 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 158189003337 active site 158189003338 metal binding site [ion binding]; metal-binding site 158189003339 YhhN-like protein; Region: YhhN; cl01505 158189003340 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 158189003341 Helix-turn-helix domains; Region: HTH; cl00088 158189003342 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 158189003343 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 158189003344 V-type ATP synthase subunit I; Validated; Region: PRK05771 158189003345 ATP synthase subunit C; Region: ATP-synt_C; cl00466 158189003346 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 158189003347 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 158189003348 ATP synthase (E/31 kDa) subunit; Region: vATP-synt_E; pfam01991 158189003349 V-type ATP synthase subunit A; Provisional; Region: PRK04192 158189003350 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 158189003351 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 158189003352 Walker A motif/ATP binding site; other site 158189003353 Walker B motif; other site 158189003354 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 158189003355 V-type ATP synthase subunit B; Provisional; Region: PRK04196 158189003356 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 158189003357 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 158189003358 Walker A motif homologous position; other site 158189003359 Walker B motif; other site 158189003360 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 158189003361 ATP synthase subunit D; Region: ATP-synt_D; cl00613 158189003362 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 158189003363 Ligand Binding Site [chemical binding]; other site 158189003364 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 158189003365 active site 158189003366 phosphorylation site [posttranslational modification] 158189003367 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 158189003368 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 158189003369 dimer interface [polypeptide binding]; other site 158189003370 active site 158189003371 metal binding site [ion binding]; metal-binding site 158189003372 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 158189003373 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 158189003374 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189003375 Beta-Casp domain; Region: Beta-Casp; cl12567 158189003376 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 158189003377 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189003378 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 158189003379 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 158189003380 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 158189003381 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 158189003382 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 158189003383 dimerization interface [polypeptide binding]; other site 158189003384 putative DNA binding site [nucleotide binding]; other site 158189003385 putative Zn2+ binding site [ion binding]; other site 158189003386 Predicted permease; Region: DUF318; cl00487 158189003387 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 158189003388 Low molecular weight phosphatase family; Region: LMWPc; cd00115 158189003389 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 158189003390 active site 158189003391 EamA-like transporter family; Region: EamA; cl01037 158189003392 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 158189003393 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 158189003394 putative substrate translocation pore; other site 158189003395 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 158189003396 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 158189003397 G1 box; other site 158189003398 putative GEF interaction site [polypeptide binding]; other site 158189003399 GTP/Mg2+ binding site [chemical binding]; other site 158189003400 Switch I region; other site 158189003401 G2 box; other site 158189003402 G3 box; other site 158189003403 Switch II region; other site 158189003404 G4 box; other site 158189003405 G5 box; other site 158189003406 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 158189003407 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 158189003408 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 158189003409 active site 158189003410 DNA binding site [nucleotide binding] 158189003411 putative phosphate binding site [ion binding]; other site 158189003412 putative catalytic site [active] 158189003413 metal binding site A [ion binding]; metal-binding site 158189003414 AP binding site [nucleotide binding]; other site 158189003415 metal binding site B [ion binding]; metal-binding site 158189003416 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 158189003417 motif 1; other site 158189003418 dimer interface [polypeptide binding]; other site 158189003419 active site 158189003420 motif 2; other site 158189003421 motif 3; other site 158189003422 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 158189003423 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 158189003424 motif II; other site 158189003425 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 158189003426 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 158189003427 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 158189003428 P loop; other site 158189003429 Nucleotide binding site [chemical binding]; other site 158189003430 DTAP/Switch II; other site 158189003431 Switch I; other site 158189003432 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 158189003433 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 158189003434 active site 158189003435 catalytic site [active] 158189003436 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 158189003437 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 158189003438 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 158189003439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003440 Walker A/P-loop; other site 158189003441 ATP binding site [chemical binding]; other site 158189003442 Q-loop/lid; other site 158189003443 ABC transporter signature motif; other site 158189003444 Walker B; other site 158189003445 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 158189003446 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003448 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 158189003449 Uncharacterized conserved protein [Function unknown]; Region: COG2006 158189003450 Domain of unknown function (DUF362); Region: DUF362; pfam04015 158189003451 Ferredoxin [Energy production and conversion]; Region: COG1146 158189003452 4Fe-4S binding domain; Region: Fer4; cl02805 158189003453 4Fe-4S binding domain; Region: Fer4; cl02805 158189003454 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; cl12011 158189003455 LysE type translocator; Region: LysE; cl00565 158189003456 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 158189003457 catalytic residues [active] 158189003458 Haemolysin-III related; Region: HlyIII; cl03831 158189003459 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 158189003460 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 158189003461 Walker A/P-loop; other site 158189003462 ATP binding site [chemical binding]; other site 158189003463 Q-loop/lid; other site 158189003464 ABC transporter signature motif; other site 158189003465 Walker B; other site 158189003466 D-loop; other site 158189003467 H-loop/switch region; other site 158189003468 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 158189003469 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 158189003470 dimer interface [polypeptide binding]; other site 158189003471 conserved gate region; other site 158189003472 putative PBP binding loops; other site 158189003473 ABC-ATPase subunit interface; other site 158189003474 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 158189003475 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 158189003476 substrate binding pocket [chemical binding]; other site 158189003477 membrane-bound complex binding site; other site 158189003478 hinge residues; other site 158189003479 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 158189003480 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 158189003481 substrate binding pocket [chemical binding]; other site 158189003482 membrane-bound complex binding site; other site 158189003483 hinge residues; other site 158189003484 Divergent PAP2 family; Region: DUF212; cl00855 158189003485 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 158189003486 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 158189003487 putative substrate translocation pore; other site 158189003488 aconitate hydratase; Validated; Region: PRK07229 158189003489 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 158189003490 substrate binding site [chemical binding]; other site 158189003491 ligand binding site [chemical binding]; other site 158189003492 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 158189003493 substrate binding site [chemical binding]; other site 158189003494 isocitrate dehydrogenase; Validated; Region: PRK07362 158189003495 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 158189003496 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 158189003497 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 158189003498 motif II; other site 158189003499 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 158189003500 dimer interface [polypeptide binding]; other site 158189003501 Citrate synthase; Region: Citrate_synt; pfam00285 158189003502 active site 158189003503 citrylCoA binding site [chemical binding]; other site 158189003504 NADH binding [chemical binding]; other site 158189003505 cationic pore residues; other site 158189003506 oxalacetate/citrate binding site [chemical binding]; other site 158189003507 coenzyme A binding site [chemical binding]; other site 158189003508 catalytic triad [active] 158189003509 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 158189003510 dimerization interface [polypeptide binding]; other site 158189003511 putative DNA binding site [nucleotide binding]; other site 158189003512 putative Zn2+ binding site [ion binding]; other site 158189003513 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 158189003514 nucleoside/Zn binding site; other site 158189003515 dimer interface [polypeptide binding]; other site 158189003516 catalytic motif [active] 158189003517 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 158189003518 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 158189003519 ANP binding site [chemical binding]; other site 158189003520 Substrate Binding Site II [chemical binding]; other site 158189003521 Substrate Binding Site I [chemical binding]; other site 158189003522 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 158189003523 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 158189003524 Walker A/P-loop; other site 158189003525 ATP binding site [chemical binding]; other site 158189003526 Q-loop/lid; other site 158189003527 ABC transporter signature motif; other site 158189003528 Walker B; other site 158189003529 D-loop; other site 158189003530 H-loop/switch region; other site 158189003531 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 158189003532 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189003533 HflC protein; Region: hflC; TIGR01932 158189003534 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 158189003535 HflK protein; Region: hflK; TIGR01933 158189003536 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 158189003537 probable methionyl-tRNA synthetase; Region: PLN02610 158189003538 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 158189003539 active site 158189003540 HIGH motif; other site 158189003541 KMSKS motif; other site 158189003542 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 158189003543 tRNA binding surface [nucleotide binding]; other site 158189003544 anticodon binding site; other site 158189003545 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 158189003546 putative tRNA-binding site [nucleotide binding]; other site 158189003547 FemAB family; Region: FemAB; cl11444 158189003548 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 158189003549 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158189003550 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 158189003551 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 158189003552 dimer interface [polypeptide binding]; other site 158189003553 ssDNA binding site [nucleotide binding]; other site 158189003554 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158189003555 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 158189003556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 158189003557 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 158189003558 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 158189003559 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 158189003560 replicative DNA helicase; Region: DnaB; TIGR00665 158189003561 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 158189003562 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 158189003563 Walker A motif; other site 158189003564 ATP binding site [chemical binding]; other site 158189003565 Walker B motif; other site 158189003566 DNA binding loops [nucleotide binding] 158189003567 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 158189003568 active site 158189003569 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 158189003570 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 158189003571 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 158189003572 putative substrate binding region [chemical binding]; other site 158189003573 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 158189003574 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 158189003575 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 158189003576 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 158189003577 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 158189003578 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 158189003579 catalytic residue [active] 158189003580 putative FPP diphosphate binding site; other site 158189003581 putative FPP binding hydrophobic cleft; other site 158189003582 dimer interface [polypeptide binding]; other site 158189003583 putative IPP diphosphate binding site; other site 158189003584 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 158189003585 hinge region; other site 158189003586 elongation factor Ts; Provisional; Region: tsf; PRK09377 158189003587 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 158189003588 Elongation factor TS; Region: EF_TS; pfam00889 158189003589 Elongation factor TS; Region: EF_TS; pfam00889 158189003590 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 158189003591 rRNA interaction site [nucleotide binding]; other site 158189003592 S8 interaction site; other site 158189003593 putative laminin-1 binding site; other site 158189003594 DctM-like transporters; Region: DctM; pfam06808 158189003595 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189003596 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189003597 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189003598 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189003599 Maf-like protein; Region: Maf; pfam02545 158189003600 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 158189003601 active site 158189003602 dimer interface [polypeptide binding]; other site 158189003603 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 158189003604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003605 Walker A/P-loop; other site 158189003606 ATP binding site [chemical binding]; other site 158189003607 Q-loop/lid; other site 158189003608 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 158189003609 ABC transporter signature motif; other site 158189003610 Walker B; other site 158189003611 D-loop; other site 158189003612 ABC transporter; Region: ABC_tran_2; pfam12848 158189003613 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 158189003614 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase; Region: PLN02520 158189003615 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 158189003616 active site 158189003617 catalytic residue [active] 158189003618 dimer interface [polypeptide binding]; other site 158189003619 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 158189003620 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 158189003621 shikimate binding site; other site 158189003622 NAD(P) binding site [chemical binding]; other site 158189003623 DNA repair helicase rad25; Region: rad25; TIGR00603 158189003624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003625 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 158189003626 nucleotide binding region [chemical binding]; other site 158189003627 ATP-binding site [chemical binding]; other site 158189003628 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 158189003629 Tetramer interface [polypeptide binding]; other site 158189003630 active site 158189003631 FMN-binding site [chemical binding]; other site 158189003632 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 158189003633 ADP binding site [chemical binding]; other site 158189003634 shikimate kinase; Reviewed; Region: aroK; PRK00131 158189003635 magnesium binding site [ion binding]; other site 158189003636 putative shikimate binding site; other site 158189003637 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158189003638 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 158189003639 ATP cone domain; Region: ATP-cone; pfam03477 158189003640 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 158189003641 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 158189003642 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003643 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 158189003644 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 158189003645 active site 158189003646 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 158189003647 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 158189003648 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 158189003649 ATP binding site [chemical binding]; other site 158189003650 putative Mg++ binding site [ion binding]; other site 158189003651 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 158189003652 nucleotide binding region [chemical binding]; other site 158189003653 ATP-binding site [chemical binding]; other site 158189003654 TRCF domain; Region: TRCF; cl04088 158189003655 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; cl12011 158189003656 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G_bact; cd04170 158189003657 elongation factor G; Reviewed; Region: PRK12740 158189003658 G1 box; other site 158189003659 putative GEF interaction site [polypeptide binding]; other site 158189003660 GTP/Mg2+ binding site [chemical binding]; other site 158189003661 Switch I region; other site 158189003662 G2 box; other site 158189003663 G3 box; other site 158189003664 Switch II region; other site 158189003665 G4 box; other site 158189003666 G5 box; other site 158189003667 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 158189003668 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 158189003669 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 158189003670 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 158189003671 non-specific DNA binding site [nucleotide binding]; other site 158189003672 salt bridge; other site 158189003673 sequence-specific DNA binding site [nucleotide binding]; other site 158189003674 elongation factor G; Reviewed; Region: PRK00007 158189003675 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 158189003676 G1 box; other site 158189003677 putative GEF interaction site [polypeptide binding]; other site 158189003678 GTP/Mg2+ binding site [chemical binding]; other site 158189003679 Switch I region; other site 158189003680 G2 box; other site 158189003681 G3 box; other site 158189003682 Switch II region; other site 158189003683 G4 box; other site 158189003684 G5 box; other site 158189003685 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 158189003686 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 158189003687 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 158189003688 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 158189003689 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 158189003690 metal-binding site [ion binding] 158189003691 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 158189003692 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189003693 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; cl02915 158189003694 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 158189003695 Cl- selectivity filter; other site 158189003696 Cl- binding residues [ion binding]; other site 158189003697 pore gating glutamate residue; other site 158189003698 dimer interface [polypeptide binding]; other site 158189003699 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 158189003700 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 158189003701 intersubunit interface [polypeptide binding]; other site 158189003702 active site 158189003703 Zn2+ binding site [ion binding]; other site 158189003704 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 158189003705 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 158189003706 hexamer (dimer of trimers) interface [polypeptide binding]; other site 158189003707 substrate binding site [chemical binding]; other site 158189003708 trimer interface [polypeptide binding]; other site 158189003709 Mn binding site [ion binding]; other site 158189003710 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 158189003711 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 158189003712 NAD(P) binding site [chemical binding]; other site 158189003713 catalytic residues [active] 158189003714 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 158189003715 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 158189003716 oligomer interface [polypeptide binding]; other site 158189003717 active site 158189003718 metal binding site [ion binding]; metal-binding site 158189003719 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 158189003720 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 158189003721 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 158189003722 Walker A motif; other site 158189003723 ATP binding site [chemical binding]; other site 158189003724 Walker B motif; other site 158189003725 putative efflux protein, MATE family; Region: matE; TIGR00797 158189003726 MatE; Region: MatE; cl10513 158189003727 MatE; Region: MatE; cl10513 158189003728 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 158189003729 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 158189003730 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189003731 catalytic residue [active] 158189003732 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 158189003733 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 158189003734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003735 Walker A/P-loop; other site 158189003736 ATP binding site [chemical binding]; other site 158189003737 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 158189003738 ABC transporter signature motif; other site 158189003739 Walker B; other site 158189003740 D-loop; other site 158189003741 H-loop/switch region; other site 158189003742 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189003743 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 158189003744 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 158189003745 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158189003746 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 158189003747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 158189003748 Uncharacterized conserved protein [Function unknown]; Region: COG1543 158189003749 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 158189003750 cell division protein MraZ; Reviewed; Region: PRK00326 158189003751 MraZ protein; Region: MraZ; pfam02381 158189003752 MraZ protein; Region: MraZ; pfam02381 158189003753 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 158189003754 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; cl12011 158189003755 Septum formation initiator; Region: DivIC; cl11433 158189003756 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 158189003757 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 158189003758 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158189003759 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 158189003760 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 158189003761 Mg++ binding site [ion binding]; other site 158189003762 putative catalytic motif [active] 158189003763 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 158189003764 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 158189003765 cell division protein FtsA; Region: ftsA; TIGR01174 158189003766 Cell division protein FtsA; Region: FtsA; cl11496 158189003767 Cell division protein FtsA; Region: FtsA; cl11496 158189003768 cell division protein FtsZ; Validated; Region: PRK09330 158189003769 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 158189003770 nucleotide binding site [chemical binding]; other site 158189003771 SulA interaction site; other site 158189003772 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 158189003773 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 158189003774 DNA binding site [nucleotide binding] 158189003775 Int/Topo IB signature motif; other site 158189003776 active site 158189003777 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 158189003778 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 158189003779 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 158189003780 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 158189003781 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 158189003782 DNA binding site [nucleotide binding] 158189003783 Int/Topo IB signature motif; other site 158189003784 active site 158189003785 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 158189003786 active site 158189003787 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 158189003788 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 158189003789 Walker A motif; other site 158189003790 ATP binding site [chemical binding]; other site 158189003791 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003792 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 158189003793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003794 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 158189003795 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 158189003796 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158189003797 autolysin; Reviewed; Region: PRK06347 158189003798 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 158189003799 putative peptidoglycan binding site; other site 158189003800 Peptidase family M23; Region: Peptidase_M23; pfam01551 158189003801 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 158189003802 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 158189003803 SEC-C motif; Region: SEC-C; pfam02810 158189003804 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 158189003805 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 158189003806 active site 158189003807 homodimer interface [polypeptide binding]; other site 158189003808 Colicin V production protein; Region: Colicin_V; cl00567 158189003809 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 158189003810 DNA polymerase III subunit delta'; Validated; Region: PRK06964 158189003811 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003812 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 158189003813 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 158189003814 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 158189003815 dimer interface [polypeptide binding]; other site 158189003816 phosphorylation site [posttranslational modification] 158189003817 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 158189003818 ATP binding site [chemical binding]; other site 158189003819 Mg2+ binding site [ion binding]; other site 158189003820 G-X-G motif; other site 158189003821 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 158189003822 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 158189003823 active site 158189003824 phosphorylation site [posttranslational modification] 158189003825 intermolecular recognition site; other site 158189003826 dimerization interface [polypeptide binding]; other site 158189003827 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 158189003828 Walker A motif; other site 158189003829 ATP binding site [chemical binding]; other site 158189003830 Walker B motif; other site 158189003831 arginine finger; other site 158189003832 Helix-turn-helix domains; Region: HTH; cl00088 158189003833 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 158189003834 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003835 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003836 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 158189003837 oligomerisation interface [polypeptide binding]; other site 158189003838 mobile loop; other site 158189003839 roof hairpin; other site 158189003840 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 158189003841 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 158189003842 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 158189003843 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 158189003844 DNA binding residues [nucleotide binding] 158189003845 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189003846 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189003847 DNA-binding site [nucleotide binding]; DNA binding site 158189003848 FCD domain; Region: FCD; cl11656 158189003849 KduI/IolB family; Region: KduI; cl01508 158189003850 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 158189003851 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 158189003852 NADP binding site [chemical binding]; other site 158189003853 homodimer interface [polypeptide binding]; other site 158189003854 active site 158189003855 pyruvate phosphate dikinase; Provisional; Region: PRK09279 158189003856 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 158189003857 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 158189003858 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 158189003859 UGMP family protein; Validated; Region: PRK09604 158189003860 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 158189003861 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 158189003862 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158189003863 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 158189003864 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003865 Walker A/P-loop; other site 158189003866 ATP binding site [chemical binding]; other site 158189003867 Q-loop/lid; other site 158189003868 ABC transporter signature motif; other site 158189003869 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 158189003870 Walker B; other site 158189003871 D-loop; other site 158189003872 H-loop/switch region; other site 158189003873 ABC transporter; Region: ABC_tran_2; pfam12848 158189003874 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 158189003875 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 158189003876 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 158189003877 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 158189003878 Protein of unknown function (DUF3276); Region: DUF3276; cl15305 158189003879 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 158189003880 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189003881 Coenzyme A binding pocket [chemical binding]; other site 158189003882 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 158189003883 RNA/DNA hybrid binding site [nucleotide binding]; other site 158189003884 active site 158189003885 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 158189003886 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 158189003887 Walker A/P-loop; other site 158189003888 ATP binding site [chemical binding]; other site 158189003889 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 158189003890 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 158189003891 Q-loop/lid; other site 158189003892 ABC transporter signature motif; other site 158189003893 Walker B; other site 158189003894 D-loop; other site 158189003895 H-loop/switch region; other site 158189003896 signal recognition particle protein; Provisional; Region: PRK10867 158189003897 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 158189003898 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 158189003899 P loop; other site 158189003900 GTP binding site [chemical binding]; other site 158189003901 Signal peptide binding domain; Region: SRP_SPB; pfam02978 158189003902 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 158189003903 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 158189003904 hypothetical protein; Provisional; Region: PRK00468; cl00794 158189003905 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 158189003906 RimM N-terminal domain; Region: RimM; pfam01782 158189003907 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 158189003908 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 158189003909 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 158189003910 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 158189003911 active site 158189003912 (T/H)XGH motif; other site 158189003913 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 158189003914 Phosphopantetheine attachment site; Region: PP-binding; cl09936 158189003915 ribonuclease III; Reviewed; Region: rnc; PRK00102 158189003916 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 158189003917 dimerization interface [polypeptide binding]; other site 158189003918 active site 158189003919 metal binding site [ion binding]; metal-binding site 158189003920 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 158189003921 dsRNA binding site [nucleotide binding]; other site 158189003922 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 158189003923 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 158189003924 active site 158189003925 NTP binding site [chemical binding]; other site 158189003926 metal binding triad [ion binding]; metal-binding site 158189003927 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 158189003928 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158189003929 aminoacyl-tRNA ligase; Region: PLN02882 158189003930 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 158189003931 HIGH motif; other site 158189003932 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 158189003933 active site 158189003934 KMSKS motif; other site 158189003935 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 158189003936 tRNA binding surface [nucleotide binding]; other site 158189003937 anticodon binding site; other site 158189003938 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 158189003939 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 158189003940 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 158189003941 active site 158189003942 HIGH motif; other site 158189003943 dimer interface [polypeptide binding]; other site 158189003944 KMSKS motif; other site 158189003945 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 158189003946 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 158189003947 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 158189003948 dimer interface [polypeptide binding]; other site 158189003949 conserved gate region; other site 158189003950 putative PBP binding loops; other site 158189003951 ABC-ATPase subunit interface; other site 158189003952 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 158189003953 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 158189003954 dimer interface [polypeptide binding]; other site 158189003955 conserved gate region; other site 158189003956 putative PBP binding loops; other site 158189003957 ABC-ATPase subunit interface; other site 158189003958 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 158189003959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189003960 Walker A/P-loop; other site 158189003961 ATP binding site [chemical binding]; other site 158189003962 Q-loop/lid; other site 158189003963 ABC transporter signature motif; other site 158189003964 Walker B; other site 158189003965 D-loop; other site 158189003966 H-loop/switch region; other site 158189003967 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 158189003968 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 158189003969 active site 158189003970 substrate binding site [chemical binding]; other site 158189003971 metal binding site [ion binding]; metal-binding site 158189003972 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 158189003973 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 158189003974 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 158189003975 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 158189003976 putative active site [active] 158189003977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 158189003978 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158189003979 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 158189003980 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158189003981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 158189003982 CoA enzyme activase uncharacterised domain (DUF2229); Region: DUF2229; pfam09989 158189003983 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 158189003984 THUMP domain; Region: THUMP; cl12076 158189003985 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 158189003986 Ligand Binding Site [chemical binding]; other site 158189003987 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 158189003988 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 158189003989 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189003990 catalytic residue [active] 158189003991 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 158189003992 active site 158189003993 dimer interface [polypeptide binding]; other site 158189003994 metal binding site [ion binding]; metal-binding site 158189003995 DEAD-like helicases superfamily; Region: DEXDc; smart00487 158189003996 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 158189003997 ATP binding site [chemical binding]; other site 158189003998 putative Mg++ binding site [ion binding]; other site 158189003999 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 158189004000 nucleotide binding region [chemical binding]; other site 158189004001 ATP-binding site [chemical binding]; other site 158189004002 Helicase associated domain (HA2); Region: HA2; cl04503 158189004003 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 158189004004 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 158189004005 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 158189004006 dimer interface [polypeptide binding]; other site 158189004007 motif 1; other site 158189004008 active site 158189004009 motif 2; other site 158189004010 motif 3; other site 158189004011 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 158189004012 anticodon binding site; other site 158189004013 poly(A) polymerase; Region: pcnB; TIGR01942 158189004014 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 158189004015 active site 158189004016 NTP binding site [chemical binding]; other site 158189004017 metal binding triad [ion binding]; metal-binding site 158189004018 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 158189004019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158189004020 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158189004021 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 158189004022 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 158189004023 SLBB domain; Region: SLBB; pfam10531 158189004024 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 158189004025 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 158189004026 FMN-binding domain; Region: FMN_bind; cl01081 158189004027 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 158189004028 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 158189004029 ferredoxin; Validated; Region: PRK07118 158189004030 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 158189004031 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 158189004032 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 158189004033 peptide chain release factor 2; Validated; Region: prfB; PRK00578 158189004034 RF-1 domain; Region: RF-1; cl02875 158189004035 RF-1 domain; Region: RF-1; cl02875 158189004036 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 158189004037 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 158189004038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189004039 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 158189004040 FtsX-like permease family; Region: FtsX; pfam02687 158189004041 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158189004042 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 158189004043 Walker A/P-loop; other site 158189004044 ATP binding site [chemical binding]; other site 158189004045 Q-loop/lid; other site 158189004046 ABC transporter signature motif; other site 158189004047 Walker B; other site 158189004048 D-loop; other site 158189004049 H-loop/switch region; other site 158189004050 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 158189004051 FtsX-like permease family; Region: FtsX; pfam02687 158189004052 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189004053 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 158189004054 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 158189004055 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 158189004056 Thiamine pyrophosphokinase; Region: TPK; cd07995 158189004057 active site 158189004058 dimerization interface [polypeptide binding]; other site 158189004059 thiamine binding site [chemical binding]; other site 158189004060 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cl10037 158189004061 homotrimer interaction site [polypeptide binding]; other site 158189004062 active site 158189004063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 158189004064 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189004065 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 158189004066 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 158189004067 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 158189004068 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 158189004069 hinge; other site 158189004070 active site 158189004071 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189004072 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189004073 DNA binding site [nucleotide binding] 158189004074 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189004075 dimerization interface [polypeptide binding]; other site 158189004076 ligand binding site [chemical binding]; other site 158189004077 Flagellin N-methylase; Region: FliB; cl00497 158189004078 DNA primase; Validated; Region: dnaG; PRK05667 158189004079 CHC2 zinc finger; Region: zf-CHC2; cl15369 158189004080 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 158189004081 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 158189004082 active site 158189004083 metal binding site [ion binding]; metal-binding site 158189004084 interdomain interaction site; other site 158189004085 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 158189004086 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 158189004087 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 158189004088 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 158189004089 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 158189004090 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 158189004091 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 158189004092 DNA binding residues [nucleotide binding] 158189004093 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 158189004094 Putative zinc ribbon domain; Region: DUF164; pfam02591 158189004095 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 158189004096 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 158189004097 FeS/SAM binding site; other site 158189004098 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 158189004099 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 158189004100 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 158189004101 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189004102 DNA-binding site [nucleotide binding]; DNA binding site 158189004103 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 158189004104 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 158189004105 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 158189004106 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 158189004107 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189004108 DNA-binding site [nucleotide binding]; DNA binding site 158189004109 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 158189004110 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 158189004111 Walker A/P-loop; other site 158189004112 ATP binding site [chemical binding]; other site 158189004113 Q-loop/lid; other site 158189004114 ABC transporter signature motif; other site 158189004115 Walker B; other site 158189004116 D-loop; other site 158189004117 H-loop/switch region; other site 158189004118 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 158189004119 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 158189004120 glutaminase active site [active] 158189004121 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 158189004122 dimer interface [polypeptide binding]; other site 158189004123 active site 158189004124 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 158189004125 dimer interface [polypeptide binding]; other site 158189004126 active site 158189004127 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 158189004128 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 158189004129 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 158189004130 RNA binding site [nucleotide binding]; other site 158189004131 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 158189004132 RNA binding site [nucleotide binding]; other site 158189004133 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 158189004134 RNA binding site [nucleotide binding]; other site 158189004135 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 158189004136 RNA binding site [nucleotide binding]; other site 158189004137 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 158189004138 RNA binding site [nucleotide binding]; other site 158189004139 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 158189004140 RNA binding site [nucleotide binding]; other site 158189004141 cytidylate kinase; Provisional; Region: cmk; PRK00023 158189004142 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 158189004143 CMP-binding site; other site 158189004144 The sites determining sugar specificity; other site 158189004145 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 158189004146 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 158189004147 RNA binding surface [nucleotide binding]; other site 158189004148 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 158189004149 active site 158189004150 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 158189004151 ScpA/B protein; Region: ScpA_ScpB; cl00598 158189004152 recombinase A; Provisional; Region: recA; PRK09354 158189004153 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 158189004154 hexamer interface [polypeptide binding]; other site 158189004155 Walker A motif; other site 158189004156 ATP binding site [chemical binding]; other site 158189004157 Walker B motif; other site 158189004158 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 158189004159 putative active site [active] 158189004160 dimerization interface [polypeptide binding]; other site 158189004161 putative tRNAtyr binding site [nucleotide binding]; other site 158189004162 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 158189004163 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 158189004164 substrate binding site [chemical binding]; other site 158189004165 hexamer interface [polypeptide binding]; other site 158189004166 metal binding site [ion binding]; metal-binding site 158189004167 transcript cleavage factor/unknown domain fusion protein; Provisional; Region: PRK14720 158189004168 domain; Region: GreA_GreB_N; pfam03449 158189004169 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 158189004170 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 158189004171 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 158189004172 domain; Region: Glyco_hydro_2; pfam00703 158189004173 integral membrane protein MviN; Region: mviN; TIGR01695 158189004174 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 158189004175 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 158189004176 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 158189004177 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 158189004178 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 158189004179 trimer interface [polypeptide binding]; other site 158189004180 active site 158189004181 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 158189004182 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 158189004183 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 158189004184 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 158189004185 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 158189004186 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 158189004187 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 158189004188 putative nucleic acid binding region [nucleotide binding]; other site 158189004189 G-X-X-G motif; other site 158189004190 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 158189004191 RNA binding site [nucleotide binding]; other site 158189004192 domain interface; other site 158189004193 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 158189004194 16S/18S rRNA binding site [nucleotide binding]; other site 158189004195 S13e-L30e interaction site [polypeptide binding]; other site 158189004196 25S rRNA binding site [nucleotide binding]; other site 158189004197 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 158189004198 active site 158189004199 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 158189004200 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 158189004201 RNA binding site [nucleotide binding]; other site 158189004202 active site 158189004203 Ribosome-binding factor A; Region: RBFA; cl00542 158189004204 ARC105 or Med15 subunit of Mediator complex non-fungal; Region: Med15; pfam09606 158189004205 translation initiation factor IF-2; Region: IF-2; TIGR00487 158189004206 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 158189004207 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 158189004208 G1 box; other site 158189004209 putative GEF interaction site [polypeptide binding]; other site 158189004210 GTP/Mg2+ binding site [chemical binding]; other site 158189004211 Switch I region; other site 158189004212 G2 box; other site 158189004213 G3 box; other site 158189004214 Switch II region; other site 158189004215 G4 box; other site 158189004216 G5 box; other site 158189004217 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 158189004218 Translation-initiation factor 2; Region: IF-2; pfam11987 158189004219 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 158189004220 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 158189004221 NusA N-terminal domain; Region: NusA_N; pfam08529 158189004222 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 158189004223 RNA binding site [nucleotide binding]; other site 158189004224 homodimer interface [polypeptide binding]; other site 158189004225 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 158189004226 G-X-X-G motif; other site 158189004227 DNA-directed RNA polymerase subunit B'; Validated; Region: PRK07225 158189004228 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 158189004229 Uncharacterised BCR, YhbC family COG0779; Region: DUF150; pfam02576 158189004230 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 158189004231 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 158189004232 MutS domain I; Region: MutS_I; pfam01624 158189004233 MutS domain II; Region: MutS_II; pfam05188 158189004234 MutS family domain IV; Region: MutS_IV; pfam05190 158189004235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189004236 Walker A/P-loop; other site 158189004237 ATP binding site [chemical binding]; other site 158189004238 Q-loop/lid; other site 158189004239 ABC transporter signature motif; other site 158189004240 Walker B; other site 158189004241 D-loop; other site 158189004242 H-loop/switch region; other site 158189004243 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 158189004244 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 158189004245 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 158189004246 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 158189004247 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 158189004248 Surface antigen; Region: Bac_surface_Ag; cl03097 158189004249 Family of unknown function (DUF490); Region: DUF490; pfam04357 158189004250 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 158189004251 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 158189004252 TMP-binding site; other site 158189004253 ATP-binding site [chemical binding]; other site 158189004254 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 158189004255 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 158189004256 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 158189004257 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 158189004258 Walker A motif; other site 158189004259 ATP binding site [chemical binding]; other site 158189004260 Walker B motif; other site 158189004261 arginine finger; other site 158189004262 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 158189004263 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 158189004264 RuvA N terminal domain; Region: RuvA_N; pfam01330 158189004265 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 158189004266 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 158189004267 active site 158189004268 putative DNA-binding cleft [nucleotide binding]; other site 158189004269 dimer interface [polypeptide binding]; other site 158189004270 Domain of unknown function DUF28; Region: DUF28; cl00361 158189004271 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 158189004272 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 158189004273 FeS/SAM binding site; other site 158189004274 HemN C-terminal region; Region: HemN_C; pfam06969 158189004275 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 158189004276 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 158189004277 Catalytic site [active] 158189004278 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 158189004279 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 158189004280 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 158189004281 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 158189004282 SmpB-tmRNA interface; other site 158189004283 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 158189004284 Phage integrase family; Region: Phage_integrase; pfam00589 158189004285 DNA binding site [nucleotide binding] 158189004286 Int/Topo IB signature motif; other site 158189004287 active site 158189004288 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 158189004289 transmembrane helices; other site 158189004290 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 158189004291 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 158189004292 active site 158189004293 metal binding site [ion binding]; metal-binding site 158189004294 homotetramer interface [polypeptide binding]; other site 158189004295 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 158189004296 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 158189004297 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 158189004298 NAD-dependent deacetylase; Provisional; Region: PRK14138 158189004299 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 158189004300 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14335 158189004301 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 158189004302 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 158189004303 FeS/SAM binding site; other site 158189004304 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 158189004305 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 158189004306 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 158189004307 homodimer interface [polypeptide binding]; other site 158189004308 NADP binding site [chemical binding]; other site 158189004309 substrate binding site [chemical binding]; other site 158189004310 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189004311 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 158189004312 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 158189004313 active site 158189004314 catalytic site [active] 158189004315 metal binding site [ion binding]; metal-binding site 158189004316 dimer interface [polypeptide binding]; other site 158189004317 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189004318 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 158189004319 dimer interface [polypeptide binding]; other site 158189004320 conserved gate region; other site 158189004321 putative PBP binding loops; other site 158189004322 ABC-ATPase subunit interface; other site 158189004323 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 158189004324 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189004325 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189004326 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 158189004327 Protein of unknown function, DUF624; Region: DUF624; cl02369 158189004328 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158189004329 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 158189004330 active site 158189004331 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 158189004332 putative RNA binding site [nucleotide binding]; other site 158189004333 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 158189004334 PPIC-type PPIASE domain; Region: Rotamase; cl08278 158189004335 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189004336 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 158189004337 substrate binding site [chemical binding]; other site 158189004338 dimer interface [polypeptide binding]; other site 158189004339 catalytic triad [active] 158189004340 Phosphoglycerate kinase; Region: PGK; pfam00162 158189004341 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 158189004342 substrate binding site [chemical binding]; other site 158189004343 hinge regions; other site 158189004344 ADP binding site [chemical binding]; other site 158189004345 catalytic site [active] 158189004346 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 158189004347 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 158189004348 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 158189004349 FOG: CBS domain [General function prediction only]; Region: COG0517 158189004350 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 158189004351 Transporter associated domain; Region: CorC_HlyC; cl08393 158189004352 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 158189004353 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 158189004354 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 158189004355 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189004356 Zn2+ binding site [ion binding]; other site 158189004357 Mg2+ binding site [ion binding]; other site 158189004358 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 158189004359 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189004360 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 158189004361 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 158189004362 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 158189004363 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 158189004364 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 158189004365 GcpE protein; Region: GcpE; pfam04551 158189004366 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 158189004367 Domain of unknown function (DUF386); Region: DUF386; cl01047 158189004368 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 158189004369 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 158189004370 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 158189004371 DNA binding site [nucleotide binding] 158189004372 active site 158189004373 V-type ATP synthase subunit K; Validated; Region: PRK06649 158189004374 V-type ATP synthase subunit I; Validated; Region: PRK05771 158189004375 ATP synthase subunit D; Region: ATP-synt_D; cl00613 158189004376 V-type ATP synthase subunit B; Provisional; Region: PRK02118 158189004377 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 158189004378 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 158189004379 Walker A motif homologous position; other site 158189004380 Walker B motif; other site 158189004381 V-type ATP synthase subunit A; Provisional; Region: PRK04192 158189004382 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 158189004383 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 158189004384 Walker A motif/ATP binding site; other site 158189004385 Walker B motif; other site 158189004386 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 158189004387 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 158189004388 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 158189004389 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 158189004390 GIY-YIG motif/motif A; other site 158189004391 active site 158189004392 catalytic site [active] 158189004393 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 158189004394 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158189004395 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 158189004396 GIY-YIG motif/motif A; other site 158189004397 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 158189004398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189004399 Walker A/P-loop; other site 158189004400 ATP binding site [chemical binding]; other site 158189004401 Q-loop/lid; other site 158189004402 ABC transporter signature motif; other site 158189004403 Walker B; other site 158189004404 D-loop; other site 158189004405 H-loop/switch region; other site 158189004406 Smr domain; Region: Smr; cl02619 158189004407 GTPase RsgA; Reviewed; Region: PRK00098 158189004408 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 158189004409 GTPase/OB domain interface [polypeptide binding]; other site 158189004410 GTPase/Zn-binding domain interface [polypeptide binding]; other site 158189004411 GTP/Mg2+ binding site [chemical binding]; other site 158189004412 G4 box; other site 158189004413 G5 box; other site 158189004414 G1 box; other site 158189004415 Switch I region; other site 158189004416 G2 box; other site 158189004417 G3 box; other site 158189004418 Switch II region; other site 158189004419 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 158189004420 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189004421 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 158189004422 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 158189004423 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 158189004424 active site 158189004425 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 158189004426 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158189004427 catalytic residue [active] 158189004428 Predicted membrane protein [Function unknown]; Region: COG4905 158189004429 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 158189004430 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 158189004431 putative active site [active] 158189004432 putative diguanylate cyclase; Provisional; Region: PRK09776 158189004433 heme pocket [chemical binding]; other site 158189004434 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189004435 metal binding site [ion binding]; metal-binding site 158189004436 active site 158189004437 I-site; other site 158189004438 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189004439 metal binding site [ion binding]; metal-binding site 158189004440 active site 158189004441 I-site; other site 158189004442 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 158189004443 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 158189004444 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189004445 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH_2; cd04602 158189004446 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 158189004447 active site 158189004448 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 158189004449 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 158189004450 active site 158189004451 homodimer interface [polypeptide binding]; other site 158189004452 catalytic site [active] 158189004453 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189004454 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189004455 DNA binding site [nucleotide binding] 158189004456 domain linker motif; other site 158189004457 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189004458 adenylate kinase; Reviewed; Region: adk; PRK00279 158189004459 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 158189004460 AMP-binding site [chemical binding]; other site 158189004461 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 158189004462 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158189004463 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 158189004464 binding surface 158189004465 TPR motif; other site 158189004466 Chromate transporter; Region: Chromate_transp; pfam02417 158189004467 Chromate transporter; Region: Chromate_transp; pfam02417 158189004468 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 158189004469 RNA/DNA hybrid binding site [nucleotide binding]; other site 158189004470 active site 158189004471 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 158189004472 putative binding site residues; other site 158189004473 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 158189004474 ABC-ATPase subunit interface; other site 158189004475 dimer interface [polypeptide binding]; other site 158189004476 putative PBP binding regions; other site 158189004477 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 158189004478 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 158189004479 Walker A/P-loop; other site 158189004480 ATP binding site [chemical binding]; other site 158189004481 Q-loop/lid; other site 158189004482 ABC transporter signature motif; other site 158189004483 Walker B; other site 158189004484 D-loop; other site 158189004485 H-loop/switch region; other site 158189004486 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 158189004487 putative acyl-acceptor binding pocket; other site 158189004488 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189004489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189004490 Domain of unknown function (DUF336); Region: DUF336; cl01249 158189004491 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 158189004492 putative active site; other site 158189004493 putative metal binding residues [ion binding]; other site 158189004494 signature motif; other site 158189004495 putative triphosphate binding site [ion binding]; other site 158189004496 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; cl12011 158189004497 cofactor binding site; other site 158189004498 DNA binding site [nucleotide binding] 158189004499 substrate interaction site [chemical binding]; other site 158189004500 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; cl12011 158189004501 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; cl12011 158189004502 DNA binding site [nucleotide binding] 158189004503 substrate interaction site [chemical binding]; other site 158189004504 AIPR protein; Region: AIPR; pfam10592 158189004505 Z1 domain; Region: Z1; pfam10593 158189004506 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 158189004507 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 158189004508 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 158189004509 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 158189004510 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 158189004511 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 158189004512 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189004513 Arginase family; Region: Arginase; cl00306 158189004514 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 158189004515 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 158189004516 dimer interface [polypeptide binding]; other site 158189004517 active site 158189004518 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158189004519 catalytic residues [active] 158189004520 substrate binding site [chemical binding]; other site 158189004521 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 158189004522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189004523 arginine decarboxylase; Provisional; Region: PRK05354 158189004524 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 158189004525 dimer interface [polypeptide binding]; other site 158189004526 active site 158189004527 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158189004528 catalytic residues [active] 158189004529 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 158189004530 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 158189004531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 158189004532 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 158189004533 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 158189004534 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158189004535 active site 158189004536 metal binding site [ion binding]; metal-binding site 158189004537 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 158189004538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 158189004539 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 158189004540 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 158189004541 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 158189004542 putative active site [active] 158189004543 metal binding site [ion binding]; metal-binding site 158189004544 Protein of unknown function DUF72; Region: DUF72; cl00777 158189004545 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 158189004546 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189004547 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 158189004548 dimer interface [polypeptide binding]; other site 158189004549 conserved gate region; other site 158189004550 putative PBP binding loops; other site 158189004551 ABC-ATPase subunit interface; other site 158189004552 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 158189004553 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 158189004554 dimer interface [polypeptide binding]; other site 158189004555 conserved gate region; other site 158189004556 putative PBP binding loops; other site 158189004557 ABC-ATPase subunit interface; other site 158189004558 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189004559 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 158189004560 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189004561 metal binding site [ion binding]; metal-binding site 158189004562 active site 158189004563 I-site; other site 158189004564 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189004565 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 158189004566 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189004567 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 158189004568 dimer interface [polypeptide binding]; other site 158189004569 conserved gate region; other site 158189004570 putative PBP binding loops; other site 158189004571 ABC-ATPase subunit interface; other site 158189004572 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 158189004573 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 158189004574 dimer interface [polypeptide binding]; other site 158189004575 conserved gate region; other site 158189004576 putative PBP binding loops; other site 158189004577 ABC-ATPase subunit interface; other site 158189004578 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 158189004579 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 158189004580 substrate binding pocket [chemical binding]; other site 158189004581 membrane-bound complex binding site; other site 158189004582 hinge residues; other site 158189004583 putative diguanylate cyclase; Provisional; Region: PRK09776 158189004584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189004585 metal binding site [ion binding]; metal-binding site 158189004586 active site 158189004587 I-site; other site 158189004588 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189004589 Zn2+ binding site [ion binding]; other site 158189004590 Mg2+ binding site [ion binding]; other site 158189004591 PAS domain S-box; Region: sensory_box; TIGR00229 158189004592 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 158189004593 putative active site [active] 158189004594 heme pocket [chemical binding]; other site 158189004595 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 158189004596 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 158189004597 putative active site [active] 158189004598 heme pocket [chemical binding]; other site 158189004599 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 158189004600 putative active site [active] 158189004601 heme pocket [chemical binding]; other site 158189004602 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 158189004603 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 158189004604 active site 158189004605 motif I; other site 158189004606 motif II; other site 158189004607 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189004608 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 158189004609 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 158189004610 tetramer interface [polypeptide binding]; other site 158189004611 heme binding pocket [chemical binding]; other site 158189004612 NADPH binding site [chemical binding]; other site 158189004613 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189004614 metal binding site [ion binding]; metal-binding site 158189004615 active site 158189004616 I-site; other site 158189004617 Protein of unknown function DUF72; Region: DUF72; cl00777 158189004618 DNA polymerase IV; Validated; Region: PRK01810 158189004619 Y-family of DNA polymerases; Region: PolY; cl12025 158189004620 active site 158189004621 DNA binding site [nucleotide binding] 158189004622 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 158189004623 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 158189004624 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 158189004625 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 158189004626 generic binding surface I; other site 158189004627 generic binding surface II; other site 158189004628 photolyase PhrII; Region: phr2; TIGR00591 158189004629 DNA photolyase; Region: DNA_photolyase; pfam00875 158189004630 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 158189004631 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 158189004632 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 158189004633 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 158189004634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189004635 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 158189004636 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 158189004637 nudix motif; other site 158189004638 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 158189004639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189004640 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 158189004641 Helix-turn-helix domains; Region: HTH; cl00088 158189004642 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 158189004643 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158189004644 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 158189004645 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 158189004646 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 158189004647 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189004648 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 158189004649 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189004650 Walker A/P-loop; other site 158189004651 ATP binding site [chemical binding]; other site 158189004652 Q-loop/lid; other site 158189004653 ABC transporter signature motif; other site 158189004654 Walker B; other site 158189004655 D-loop; other site 158189004656 H-loop/switch region; other site 158189004657 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189004658 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189004659 TM-ABC transporter signature motif; other site 158189004660 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189004661 TM-ABC transporter signature motif; other site 158189004662 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 158189004663 Active site serine [active] 158189004664 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 158189004665 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158189004666 active site 158189004667 metal binding site [ion binding]; metal-binding site 158189004668 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 158189004669 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 158189004670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189004671 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 158189004672 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 158189004673 active site residue [active] 158189004674 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 158189004675 active site residue [active] 158189004676 transposase/IS protein; Provisional; Region: PRK09183 158189004677 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 158189004678 Walker A motif; other site 158189004679 ATP binding site [chemical binding]; other site 158189004680 Walker B motif; other site 158189004681 Integrase core domain; Region: rve; cl01316 158189004682 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 158189004683 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 158189004684 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189004685 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 158189004686 Membrane transport protein; Region: Mem_trans; cl09117 158189004687 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 158189004688 PAS fold; Region: PAS; pfam00989 158189004689 PAS domain S-box; Region: sensory_box; TIGR00229 158189004690 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 158189004691 sensory histidine kinase AtoS; Provisional; Region: PRK11360 158189004692 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 158189004693 PAS domain S-box; Region: sensory_box; TIGR00229 158189004694 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 158189004695 putative active site [active] 158189004696 heme pocket [chemical binding]; other site 158189004697 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189004698 Zn2+ binding site [ion binding]; other site 158189004699 Mg2+ binding site [ion binding]; other site 158189004700 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189004701 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189004702 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 158189004703 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189004704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189004705 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 158189004706 Predicted transcriptional regulators [Transcription]; Region: COG1725 158189004707 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189004708 DNA-binding site [nucleotide binding]; DNA binding site 158189004709 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 158189004710 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 158189004711 Walker A/P-loop; other site 158189004712 ATP binding site [chemical binding]; other site 158189004713 Q-loop/lid; other site 158189004714 ABC transporter signature motif; other site 158189004715 Walker B; other site 158189004716 D-loop; other site 158189004717 H-loop/switch region; other site 158189004718 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 158189004719 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 158189004720 inhibitor-cofactor binding pocket; inhibition site 158189004721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189004722 catalytic residue [active] 158189004723 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 158189004724 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 158189004725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189004726 catalytic residue [active] 158189004727 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 158189004728 Predicted membrane protein [Function unknown]; Region: COG2364 158189004729 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 158189004730 Glycosyl hydrolase family 43; Region: GH43_2; cd08981 158189004731 active site 158189004732 DOMON-like domain of copper-dependent monooxygenases and related proteins; Region: DOMON_DOH; cd09631 158189004733 DOMON domain; Region: DOMON; pfam03351 158189004734 putative ligand binding site [chemical binding]; other site 158189004735 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158189004736 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 158189004737 Protein export membrane protein; Region: SecD_SecF; cl14618 158189004738 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 158189004739 lipoyl-biotinyl attachment site [posttranslational modification]; other site 158189004740 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 158189004741 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 158189004742 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189004743 metal binding site [ion binding]; metal-binding site 158189004744 active site 158189004745 I-site; other site 158189004746 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 158189004747 ligand binding site [chemical binding]; other site 158189004748 flexible hinge region; other site 158189004749 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 158189004750 putative substrate translocation pore; other site 158189004751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189004752 G1 box; other site 158189004753 GTP/Mg2+ binding site [chemical binding]; other site 158189004754 G2 box; other site 158189004755 Switch I region; other site 158189004756 Uncharacterized conserved protein [Function unknown]; Region: COG4717 158189004757 muropeptide transporter; Validated; Region: ampG; PRK11010 158189004758 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158189004759 active site 158189004760 metal binding site [ion binding]; metal-binding site 158189004761 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 158189004762 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 158189004763 putative NAD(P) binding site [chemical binding]; other site 158189004764 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 158189004765 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 158189004766 catalytic loop [active] 158189004767 iron binding site [ion binding]; other site 158189004768 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 158189004769 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 158189004770 4Fe-4S binding domain; Region: Fer4; cl02805 158189004771 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 158189004772 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 158189004773 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 158189004774 dimer interface [polypeptide binding]; other site 158189004775 [2Fe-2S] cluster binding site [ion binding]; other site 158189004776 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 158189004777 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 158189004778 SLBB domain; Region: SLBB; pfam10531 158189004779 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 158189004780 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 158189004781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189004782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189004783 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 158189004784 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 158189004785 putative dimer interface [polypeptide binding]; other site 158189004786 [2Fe-2S] cluster binding site [ion binding]; other site 158189004787 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 158189004788 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 158189004789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189004790 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189004791 Coenzyme A binding pocket [chemical binding]; other site 158189004792 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 158189004793 SUA5 domain; Region: SUA5; pfam03481 158189004794 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189004795 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 158189004796 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 158189004797 dimer interface [polypeptide binding]; other site 158189004798 phosphorylation site [posttranslational modification] 158189004799 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 158189004800 ATP binding site [chemical binding]; other site 158189004801 Mg2+ binding site [ion binding]; other site 158189004802 G-X-G motif; other site 158189004803 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158189004804 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 158189004805 active site 158189004806 phosphorylation site [posttranslational modification] 158189004807 intermolecular recognition site; other site 158189004808 dimerization interface [polypeptide binding]; other site 158189004809 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 158189004810 DNA binding site [nucleotide binding] 158189004811 short chain dehydrogenase; Provisional; Region: PRK06841 158189004812 classical (c) SDRs; Region: SDR_c; cd05233 158189004813 NAD(P) binding site [chemical binding]; other site 158189004814 active site 158189004815 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 158189004816 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189004817 catalytic residue [active] 158189004818 flagellin modification protein A; Provisional; Region: PRK09186 158189004819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189004820 NAD(P) binding site [chemical binding]; other site 158189004821 active site 158189004822 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189004823 DctM-like transporters; Region: DctM; pfam06808 158189004824 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189004825 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189004826 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189004827 Transcriptional regulators [Transcription]; Region: FadR; COG2186 158189004828 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189004829 DNA-binding site [nucleotide binding]; DNA binding site 158189004830 FCD domain; Region: FCD; cl11656 158189004831 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 158189004832 UbiA prenyltransferase family; Region: UbiA; cl00337 158189004833 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 158189004834 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189004835 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 158189004836 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189004837 DctM-like transporters; Region: DctM; pfam06808 158189004838 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189004839 metal binding site [ion binding]; metal-binding site 158189004840 active site 158189004841 I-site; other site 158189004842 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 158189004843 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 158189004844 Cation efflux family; Region: Cation_efflux; cl00316 158189004845 Predicted esterase [General function prediction only]; Region: COG0627 158189004846 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189004847 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158189004848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189004849 Walker A/P-loop; other site 158189004850 ATP binding site [chemical binding]; other site 158189004851 Q-loop/lid; other site 158189004852 ABC transporter signature motif; other site 158189004853 Walker B; other site 158189004854 D-loop; other site 158189004855 H-loop/switch region; other site 158189004856 TOBE domain; Region: TOBE_2; cl01440 158189004857 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 158189004858 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 158189004859 dimer interface [polypeptide binding]; other site 158189004860 conserved gate region; other site 158189004861 putative PBP binding loops; other site 158189004862 ABC-ATPase subunit interface; other site 158189004863 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 158189004864 dimer interface [polypeptide binding]; other site 158189004865 conserved gate region; other site 158189004866 putative PBP binding loops; other site 158189004867 ABC-ATPase subunit interface; other site 158189004868 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 158189004869 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 158189004870 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 158189004871 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 158189004872 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 158189004873 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 158189004874 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 158189004875 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158189004876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189004877 Zn2+ binding site [ion binding]; other site 158189004878 Mg2+ binding site [ion binding]; other site 158189004879 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 158189004880 ribonuclease E; Reviewed; Region: rne; PRK10811 158189004881 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 158189004882 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 158189004883 ATP binding site [chemical binding]; other site 158189004884 Mg2+ binding site [ion binding]; other site 158189004885 G-X-G motif; other site 158189004886 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 158189004887 ATP binding site [chemical binding]; other site 158189004888 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 158189004889 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189004890 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 158189004891 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189004892 phosphate binding site [ion binding]; other site 158189004893 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 158189004894 Helix-turn-helix domains; Region: HTH; cl00088 158189004895 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 158189004896 Aminotransferase class-V; Region: Aminotran_5; pfam00266 158189004897 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189004898 catalytic residue [active] 158189004899 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 158189004900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189004901 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 158189004902 DHH family; Region: DHH; pfam01368 158189004903 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 158189004904 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 158189004905 Recombination protein O N terminal; Region: RecO_N; pfam11967 158189004906 carbamate kinase; Reviewed; Region: PRK12686 158189004907 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 158189004908 putative substrate binding site [chemical binding]; other site 158189004909 nucleotide binding site [chemical binding]; other site 158189004910 nucleotide binding site [chemical binding]; other site 158189004911 homodimer interface [polypeptide binding]; other site 158189004912 Transcriptional regulators [Transcription]; Region: FadR; COG2186 158189004913 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189004914 DNA-binding site [nucleotide binding]; DNA binding site 158189004915 FCD domain; Region: FCD; cl11656 158189004916 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189004917 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189004918 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189004919 DctM-like transporters; Region: DctM; pfam06808 158189004920 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158189004921 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 158189004922 active site 158189004923 catalytic tetrad [active] 158189004924 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 158189004925 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 158189004926 inhibitor site; inhibition site 158189004927 active site 158189004928 dimer interface [polypeptide binding]; other site 158189004929 catalytic residue [active] 158189004930 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 158189004931 classical (c) SDRs; Region: SDR_c; cd05233 158189004932 NAD(P) binding site [chemical binding]; other site 158189004933 active site 158189004934 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 158189004935 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 158189004936 Found in ATP-dependent protease La (LON); Region: LON; smart00464 158189004937 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 158189004938 Walker A motif; other site 158189004939 ATP binding site [chemical binding]; other site 158189004940 Walker B motif; other site 158189004941 arginine finger; other site 158189004942 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 158189004943 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 158189004944 Peptidase family U32; Region: Peptidase_U32; cl03113 158189004945 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 158189004946 DXD motif; other site 158189004947 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 158189004948 FMN binding site [chemical binding]; other site 158189004949 dimer interface [polypeptide binding]; other site 158189004950 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 158189004951 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158189004952 active site 158189004953 HIGH motif; other site 158189004954 nucleotide binding site [chemical binding]; other site 158189004955 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 158189004956 active site 158189004957 KMSKS motif; other site 158189004958 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 158189004959 tRNA binding surface [nucleotide binding]; other site 158189004960 anticodon binding site; other site 158189004961 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 158189004962 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 158189004963 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 158189004964 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 158189004965 DNA binding residues [nucleotide binding] 158189004966 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14536 158189004967 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158189004968 active site 158189004969 HIGH motif; other site 158189004970 nucleotide binding site [chemical binding]; other site 158189004971 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 158189004972 KMSKS motif; other site 158189004973 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 158189004974 tRNA binding surface [nucleotide binding]; other site 158189004975 anticodon binding site; other site 158189004976 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 158189004977 FAD binding domain; Region: FAD_binding_4; pfam01565 158189004978 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 158189004979 Acetokinase family; Region: Acetate_kinase; cl01029 158189004980 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158189004981 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 158189004982 active site 158189004983 phosphorylation site [posttranslational modification] 158189004984 intermolecular recognition site; other site 158189004985 dimerization interface [polypeptide binding]; other site 158189004986 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 158189004987 DNA binding site [nucleotide binding] 158189004988 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 158189004989 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 158189004990 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 158189004991 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 158189004992 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 158189004993 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 158189004994 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189004995 catalytic residue [active] 158189004996 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 158189004997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189004998 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 158189004999 FemAB family; Region: FemAB; cl11444 158189005000 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 158189005001 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 158189005002 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 158189005003 dimer interface [polypeptide binding]; other site 158189005004 phosphorylation site [posttranslational modification] 158189005005 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 158189005006 ATP binding site [chemical binding]; other site 158189005007 Mg2+ binding site [ion binding]; other site 158189005008 G-X-G motif; other site 158189005009 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 158189005010 PhoU domain; Region: PhoU; pfam01895 158189005011 PhoU domain; Region: PhoU; pfam01895 158189005012 phosphate transporter ATP-binding protein; Provisional; Region: PRK14243 158189005013 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 158189005014 Walker A/P-loop; other site 158189005015 ATP binding site [chemical binding]; other site 158189005016 Q-loop/lid; other site 158189005017 ABC transporter signature motif; other site 158189005018 Walker B; other site 158189005019 D-loop; other site 158189005020 H-loop/switch region; other site 158189005021 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 158189005022 dimer interface [polypeptide binding]; other site 158189005023 conserved gate region; other site 158189005024 putative PBP binding loops; other site 158189005025 ABC-ATPase subunit interface; other site 158189005026 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 158189005027 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 158189005028 dimer interface [polypeptide binding]; other site 158189005029 conserved gate region; other site 158189005030 putative PBP binding loops; other site 158189005031 ABC-ATPase subunit interface; other site 158189005032 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 158189005033 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 158189005034 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cl00018 158189005035 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 158189005036 non-heme iron binding site [ion binding]; other site 158189005037 Isochorismatase family; Region: Isochorismatase; pfam00857 158189005038 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 158189005039 catalytic triad [active] 158189005040 conserved cis-peptide bond; other site 158189005041 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 158189005042 active site 158189005043 multimer interface [polypeptide binding]; other site 158189005044 Uncharacterized conserved protein [Function unknown]; Region: COG2461 158189005045 LCCL domain; Region: LCCL; cl02694 158189005046 LCCL domain; Region: LCCL; cl02694 158189005047 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 158189005048 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189005049 metal binding site [ion binding]; metal-binding site 158189005050 active site 158189005051 I-site; other site 158189005052 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 158189005053 Membrane transport protein; Region: Mem_trans; cl09117 158189005054 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 158189005055 4Fe-4S binding domain; Region: Fer4_5; pfam12801 158189005056 4Fe-4S binding domain; Region: Fer4_5; pfam12801 158189005057 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 158189005058 reactive center loop; other site 158189005059 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 158189005060 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 158189005061 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189005062 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 158189005063 putative acyl-acceptor binding pocket; other site 158189005064 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 158189005065 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158189005066 putative substrate translocation pore; other site 158189005067 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 158189005068 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 158189005069 active site 158189005070 catalytic tetrad [active] 158189005071 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158189005072 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 158189005073 active site 158189005074 catalytic tetrad [active] 158189005075 DEAD-like helicases superfamily; Region: DEXDc; smart00487 158189005076 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 158189005077 ATP binding site [chemical binding]; other site 158189005078 putative Mg++ binding site [ion binding]; other site 158189005079 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 158189005080 nucleotide binding region [chemical binding]; other site 158189005081 ATP-binding site [chemical binding]; other site 158189005082 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189005083 DNA binding site [nucleotide binding] 158189005084 domain linker motif; other site 158189005085 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189005086 ligand binding site [chemical binding]; other site 158189005087 dimerization interface [polypeptide binding]; other site 158189005088 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 158189005089 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 158189005090 dimer interface [polypeptide binding]; other site 158189005091 active site 158189005092 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 158189005093 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 158189005094 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 158189005095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158189005096 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158189005097 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 158189005098 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 158189005099 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189005100 catalytic residue [active] 158189005101 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 158189005102 nucleotide binding site [chemical binding]; other site 158189005103 substrate binding site [chemical binding]; other site 158189005104 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 158189005105 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 158189005106 dimer interface [polypeptide binding]; other site 158189005107 putative threonine allosteric regulatory site; other site 158189005108 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 158189005109 putative threonine allosteric regulatory site; other site 158189005110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005111 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 158189005112 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 158189005113 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 158189005114 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 158189005115 minor groove reading motif; other site 158189005116 helix-hairpin-helix signature motif; other site 158189005117 substrate binding pocket [chemical binding]; other site 158189005118 active site 158189005119 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 158189005120 Transcriptional regulator [Transcription]; Region: IclR; COG1414 158189005121 Helix-turn-helix domains; Region: HTH; cl00088 158189005122 Bacterial transcriptional regulator; Region: IclR; pfam01614 158189005123 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 158189005124 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 158189005125 substrate binding site [chemical binding]; other site 158189005126 ATP binding site [chemical binding]; other site 158189005127 Entner-Doudoroff aldolase; Region: eda; TIGR01182 158189005128 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 158189005129 active site 158189005130 intersubunit interface [polypeptide binding]; other site 158189005131 catalytic residue [active] 158189005132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 158189005133 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189005134 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 158189005135 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 158189005136 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 158189005137 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 158189005138 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 158189005139 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 158189005140 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158189005141 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 158189005142 Walker A/P-loop; other site 158189005143 ATP binding site [chemical binding]; other site 158189005144 Q-loop/lid; other site 158189005145 ABC transporter signature motif; other site 158189005146 Walker B; other site 158189005147 D-loop; other site 158189005148 H-loop/switch region; other site 158189005149 TOBE domain; Region: TOBE_2; cl01440 158189005150 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 158189005151 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 158189005152 dimer interface [polypeptide binding]; other site 158189005153 conserved gate region; other site 158189005154 putative PBP binding loops; other site 158189005155 ABC-ATPase subunit interface; other site 158189005156 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 158189005157 dimer interface [polypeptide binding]; other site 158189005158 conserved gate region; other site 158189005159 putative PBP binding loops; other site 158189005160 ABC-ATPase subunit interface; other site 158189005161 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 158189005162 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 158189005163 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 158189005164 Sodium:solute symporter family; Region: SSF; cl00456 158189005165 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 158189005166 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 158189005167 homodimer interface [polypeptide binding]; other site 158189005168 substrate-cofactor binding pocket; other site 158189005169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189005170 catalytic residue [active] 158189005171 Homoserine O-succinyltransferase; Region: HTS; pfam04204 158189005172 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 158189005173 proposed active site lysine [active] 158189005174 conserved cys residue [active] 158189005175 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158189005176 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 158189005177 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 158189005178 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 158189005179 nucleoside/Zn binding site; other site 158189005180 dimer interface [polypeptide binding]; other site 158189005181 catalytic motif [active] 158189005182 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 158189005183 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 158189005184 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189005185 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189005186 DNA-binding site [nucleotide binding]; DNA binding site 158189005187 FCD domain; Region: FCD; cl11656 158189005188 Domain of unknown function (DUF386); Region: DUF386; cl01047 158189005189 cytidylate kinase; Provisional; Region: PRK04182 158189005190 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 158189005191 active site 158189005192 catalytic residues [active] 158189005193 glutamyl-tRNA reductase; Region: hemA; TIGR01035 158189005194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005195 NAD(P) binding pocket [chemical binding]; other site 158189005196 Putative cyclase; Region: Cyclase; cl00814 158189005197 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 158189005198 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 158189005199 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 158189005200 minor groove reading motif; other site 158189005201 helix-hairpin-helix signature motif; other site 158189005202 active site 158189005203 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 158189005204 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 158189005205 dimer interface [polypeptide binding]; other site 158189005206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189005207 catalytic residue [active] 158189005208 Rrf2 family protein; Region: rrf2_super; TIGR00738 158189005209 Helix-turn-helix domains; Region: HTH; cl00088 158189005210 Rrf2 family protein; Region: rrf2_super; TIGR00738 158189005211 Helix-turn-helix domains; Region: HTH; cl00088 158189005212 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 158189005213 Putative ammonia monooxygenase; Region: AmoA; pfam05145 158189005214 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 158189005215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 158189005216 hypothetical protein; Provisional; Region: PRK13663 158189005217 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 158189005218 conserved cys residue [active] 158189005219 NeuB family; Region: NeuB; cl00496 158189005220 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 158189005221 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 158189005222 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189005223 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189005224 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189005225 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 158189005226 ArsC family; Region: ArsC; pfam03960 158189005227 catalytic residue [active] 158189005228 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 158189005229 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189005230 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189005231 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 158189005232 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 158189005233 putative dimer interface [polypeptide binding]; other site 158189005234 putative anticodon binding site; other site 158189005235 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 158189005236 homodimer interface [polypeptide binding]; other site 158189005237 motif 1; other site 158189005238 motif 2; other site 158189005239 active site 158189005240 motif 3; other site 158189005241 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 158189005242 DNA binding residues [nucleotide binding] 158189005243 dimerization interface [polypeptide binding]; other site 158189005244 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 158189005245 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 158189005246 beta-D-glucuronidase; Provisional; Region: PRK10150 158189005247 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 158189005248 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 158189005249 active site 158189005250 ADP/pyrophosphate binding site [chemical binding]; other site 158189005251 dimerization interface [polypeptide binding]; other site 158189005252 allosteric effector site; other site 158189005253 fructose-1,6-bisphosphate binding site; other site 158189005254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189005255 metal binding site [ion binding]; metal-binding site 158189005256 active site 158189005257 I-site; other site 158189005258 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 158189005259 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189005260 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 158189005261 dimer interface [polypeptide binding]; other site 158189005262 conserved gate region; other site 158189005263 putative PBP binding loops; other site 158189005264 ABC-ATPase subunit interface; other site 158189005265 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189005266 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 158189005267 dimer interface [polypeptide binding]; other site 158189005268 conserved gate region; other site 158189005269 putative PBP binding loops; other site 158189005270 ABC-ATPase subunit interface; other site 158189005271 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189005272 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 158189005273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 158189005274 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 158189005275 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189005276 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189005277 DNA binding site [nucleotide binding] 158189005278 domain linker motif; other site 158189005279 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189005280 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189005281 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 158189005282 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189005283 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 158189005284 dimer interface [polypeptide binding]; other site 158189005285 conserved gate region; other site 158189005286 putative PBP binding loops; other site 158189005287 ABC-ATPase subunit interface; other site 158189005288 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189005289 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 158189005290 dimer interface [polypeptide binding]; other site 158189005291 conserved gate region; other site 158189005292 putative PBP binding loops; other site 158189005293 ABC-ATPase subunit interface; other site 158189005294 Helix-turn-helix domains; Region: HTH; cl00088 158189005295 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 158189005296 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158189005297 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 158189005298 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 158189005299 active site 158189005300 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 158189005301 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 158189005302 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189005303 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 158189005304 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 158189005305 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 158189005306 Domain of unknown function (DUF814); Region: DUF814; pfam05670 158189005307 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 158189005308 active site 158189005309 metal binding site [ion binding]; metal-binding site 158189005310 IPP transferase; Region: IPPT; cl00403 158189005311 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 158189005312 cytidylate kinase; Provisional; Region: PRK04182 158189005313 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 158189005314 CMP-binding site; other site 158189005315 The sites determining sugar specificity; other site 158189005316 hypothetical protein; Provisional; Region: PRK11820 158189005317 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 158189005318 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 158189005319 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 158189005320 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158189005321 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 158189005322 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 158189005323 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 158189005324 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158189005325 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 158189005326 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 158189005327 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 158189005328 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158189005329 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 158189005330 active site 158189005331 DNA polymerase IV; Validated; Region: PRK02406 158189005332 DNA binding site [nucleotide binding] 158189005333 Protein of unknown function (DUF454); Region: DUF454; cl01063 158189005334 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 158189005335 putative substrate translocation pore; other site 158189005336 Bacitracin resistance protein BacA; Region: BacA; cl00858 158189005337 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 158189005338 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 158189005339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005340 seryl-tRNA synthetase; Provisional; Region: PRK05431 158189005341 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 158189005342 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 158189005343 dimer interface [polypeptide binding]; other site 158189005344 active site 158189005345 motif 1; other site 158189005346 motif 2; other site 158189005347 motif 3; other site 158189005348 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 158189005349 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 158189005350 active site 158189005351 Uncharacterized conserved protein [Function unknown]; Region: COG4832 158189005352 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158189005353 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158189005354 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 158189005355 active site 158189005356 metal binding site [ion binding]; metal-binding site 158189005357 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 158189005358 gamma-glutamyl kinase; Provisional; Region: PRK05429 158189005359 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 158189005360 nucleotide binding site [chemical binding]; other site 158189005361 homotetrameric interface [polypeptide binding]; other site 158189005362 putative phosphate binding site [ion binding]; other site 158189005363 putative allosteric binding site; other site 158189005364 PUA domain; Region: PUA; cl00607 158189005365 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 158189005366 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 158189005367 putative catalytic cysteine [active] 158189005368 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 158189005369 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 158189005370 intersubunit interface [polypeptide binding]; other site 158189005371 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 158189005372 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 158189005373 ABC-ATPase subunit interface; other site 158189005374 dimer interface [polypeptide binding]; other site 158189005375 putative PBP binding regions; other site 158189005376 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 158189005377 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 158189005378 Walker A/P-loop; other site 158189005379 ATP binding site [chemical binding]; other site 158189005380 Q-loop/lid; other site 158189005381 ABC transporter signature motif; other site 158189005382 Walker B; other site 158189005383 D-loop; other site 158189005384 H-loop/switch region; other site 158189005385 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 158189005386 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 158189005387 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 158189005388 active site 158189005389 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 158189005390 Permease family; Region: Xan_ur_permease; cl00967 158189005391 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 158189005392 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 158189005393 putative NAD(P) binding site [chemical binding]; other site 158189005394 active site 158189005395 putative substrate binding site [chemical binding]; other site 158189005396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005397 flavoprotein, HI0933 family; Region: TIGR00275 158189005398 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158189005399 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 158189005400 active site 158189005401 metal binding site [ion binding]; metal-binding site 158189005402 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 158189005403 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 158189005404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005405 putative hypoxanthine oxidase; Provisional; Region: PRK09800 158189005406 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 158189005407 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 158189005408 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 158189005409 putative oxidoreductase; Provisional; Region: PRK09799 158189005410 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 158189005411 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 158189005412 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 158189005413 active site 158189005414 putative substrate binding pocket [chemical binding]; other site 158189005415 peptidase; Reviewed; Region: PRK13004 158189005416 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 158189005417 putative metal binding site [ion binding]; other site 158189005418 putative dimer interface [polypeptide binding]; other site 158189005419 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 158189005420 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 158189005421 active site 158189005422 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 158189005423 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 158189005424 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 158189005425 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189005426 threonine synthase; Validated; Region: PRK06260 158189005427 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 158189005428 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189005429 catalytic residue [active] 158189005430 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 158189005431 DNA binding site [nucleotide binding] 158189005432 Int/Topo IB signature motif; other site 158189005433 active site 158189005434 Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking; Region: RasGEF; cl02485 158189005435 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 158189005436 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 158189005437 dimer interface [polypeptide binding]; other site 158189005438 ssDNA binding site [nucleotide binding]; other site 158189005439 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158189005440 ERF superfamily; Region: ERF; pfam04404 158189005441 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 158189005442 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 158189005443 non-specific DNA binding site [nucleotide binding]; other site 158189005444 salt bridge; other site 158189005445 sequence-specific DNA binding site [nucleotide binding]; other site 158189005446 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 158189005447 MPN+ (JAMM) motif; other site 158189005448 Zinc-binding site [ion binding]; other site 158189005449 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 158189005450 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 158189005451 Terminase small subunit; Region: Terminase_2; cl01513 158189005452 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 158189005453 Borrelia membrane protein P13; Region: Borrelia_P13; pfam05628 158189005454 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl10251 158189005455 major capsid protein; Region: PHA00665 158189005456 hypothetical protein; Region: PHA00664 158189005457 hypothetical protein; Region: PHA00661 158189005458 hypothetical protein; Region: PHA00661 158189005459 crystallin beta/gamma motif-containing protein; Region: PHA00657 158189005460 Predicted helicase [General function prediction only]; Region: COG4889 158189005461 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 158189005462 ATP binding site [chemical binding]; other site 158189005463 putative Mg++ binding site [ion binding]; other site 158189005464 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189005465 Lipase (class 3). 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_3; cd00519 158189005466 active site flap/lid [active] 158189005467 nucleophilic elbow; other site 158189005468 catalytic triad [active] 158189005469 oxidoreductase; Provisional; Region: PRK06196 158189005470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005471 NAD(P) binding site [chemical binding]; other site 158189005472 active site 158189005473 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 158189005474 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189005475 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189005476 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 158189005477 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 158189005478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005479 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 158189005480 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189005481 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 158189005482 active site 158189005483 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 158189005484 hypothetical protein; Provisional; Region: PRK08185 158189005485 intersubunit interface [polypeptide binding]; other site 158189005486 active site 158189005487 zinc binding site [ion binding]; other site 158189005488 Na+ binding site [ion binding]; other site 158189005489 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 158189005490 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 158189005491 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 158189005492 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 158189005493 ribosomal protein L20; Region: rpl20; CHL00068 158189005494 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 158189005495 23S rRNA binding site [nucleotide binding]; other site 158189005496 L21 binding site [polypeptide binding]; other site 158189005497 L13 binding site [polypeptide binding]; other site 158189005498 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 158189005499 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 158189005500 binding surface 158189005501 TPR motif; other site 158189005502 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 158189005503 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 158189005504 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 158189005505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005507 glycogen synthase; Provisional; Region: glgA; PRK00654 158189005508 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 158189005509 ADP-binding pocket [chemical binding]; other site 158189005510 homodimer interface [polypeptide binding]; other site 158189005511 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 158189005512 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 158189005513 ligand binding site; other site 158189005514 oligomer interface; other site 158189005515 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 158189005516 dimer interface [polypeptide binding]; other site 158189005517 N-terminal domain interface [polypeptide binding]; other site 158189005518 sulfate 1 binding site; other site 158189005519 L-ribulokinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 158189005520 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 158189005521 putative N- and C-terminal domain interface [polypeptide binding]; other site 158189005522 putative active site [active] 158189005523 putative MgATP binding site [chemical binding]; other site 158189005524 catalytic site [active] 158189005525 metal binding site [ion binding]; metal-binding site 158189005526 putative carbohydrate binding site [chemical binding]; other site 158189005527 L-arabinose isomerase; Provisional; Region: PRK02929 158189005528 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 158189005529 hexamer (dimer of trimers) interface [polypeptide binding]; other site 158189005530 trimer interface [polypeptide binding]; other site 158189005531 substrate binding site [chemical binding]; other site 158189005532 Mn binding site [ion binding]; other site 158189005533 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189005534 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189005535 DNA binding site [nucleotide binding] 158189005536 domain linker motif; other site 158189005537 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 158189005538 ligand binding site [chemical binding]; other site 158189005539 Mechanosensitive ion channel; Region: MS_channel; pfam00924 158189005540 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 158189005541 active site 158189005542 8-oxo-dGMP binding site [chemical binding]; other site 158189005543 nudix motif; other site 158189005544 metal binding site [ion binding]; metal-binding site 158189005545 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 158189005546 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 158189005547 putative substrate binding site [chemical binding]; other site 158189005548 putative ATP binding site [chemical binding]; other site 158189005549 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 158189005550 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 158189005551 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 158189005552 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 158189005553 dimer interface [polypeptide binding]; other site 158189005554 conserved gate region; other site 158189005555 putative PBP binding loops; other site 158189005556 ABC-ATPase subunit interface; other site 158189005557 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 158189005558 dimer interface [polypeptide binding]; other site 158189005559 conserved gate region; other site 158189005560 putative PBP binding loops; other site 158189005561 ABC-ATPase subunit interface; other site 158189005562 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189005563 spermidine/putrescine ABC transporter ATP-binding subunit; Region: potA; TIGR01187 158189005564 Walker A/P-loop; other site 158189005565 ATP binding site [chemical binding]; other site 158189005566 Q-loop/lid; other site 158189005567 ABC transporter signature motif; other site 158189005568 Walker B; other site 158189005569 D-loop; other site 158189005570 H-loop/switch region; other site 158189005571 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 158189005572 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 158189005573 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 158189005574 excinuclease ABC subunit B; Provisional; Region: PRK05298 158189005575 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 158189005576 ATP binding site [chemical binding]; other site 158189005577 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 158189005578 nucleotide binding region [chemical binding]; other site 158189005579 ATP-binding site [chemical binding]; other site 158189005580 Ultra-violet resistance protein B; Region: UvrB; pfam12344 158189005581 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 158189005582 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 158189005583 protein binding site [polypeptide binding]; other site 158189005584 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 158189005585 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 158189005586 putative substrate binding site [chemical binding]; other site 158189005587 putative ATP binding site [chemical binding]; other site 158189005588 HD supefamily hydrolase [General function prediction only]; Region: COG3294 158189005589 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 158189005590 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158189005591 active site 158189005592 HIGH motif; other site 158189005593 nucleotide binding site [chemical binding]; other site 158189005594 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 158189005595 KMSKS motif; other site 158189005596 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 158189005597 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 158189005598 Rubrerythrin [Energy production and conversion]; Region: COG1592 158189005599 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 158189005600 binuclear metal center [ion binding]; other site 158189005601 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 158189005602 iron binding site [ion binding]; other site 158189005603 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 158189005604 metal binding site 2 [ion binding]; metal-binding site 158189005605 putative DNA binding helix; other site 158189005606 metal binding site 1 [ion binding]; metal-binding site 158189005607 dimer interface [polypeptide binding]; other site 158189005608 structural Zn2+ binding site [ion binding]; other site 158189005609 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; cl12011 158189005610 transcription termination factor Rho; Provisional; Region: PRK12678 158189005611 Cation transport protein; Region: TrkH; cl10514 158189005612 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 158189005613 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 158189005614 active site 158189005615 substrate binding site [chemical binding]; other site 158189005616 metal binding site [ion binding]; metal-binding site 158189005617 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 158189005618 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 158189005619 NAD binding site [chemical binding]; other site 158189005620 homodimer interface [polypeptide binding]; other site 158189005621 active site 158189005622 substrate binding site [chemical binding]; other site 158189005623 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158189005624 active site 158189005625 metal binding site [ion binding]; metal-binding site 158189005626 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 158189005627 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158189005628 active site 158189005629 metal binding site [ion binding]; metal-binding site 158189005630 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 158189005631 Domain of unknown function DUF37; Region: DUF37; cl00506 158189005632 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 158189005633 Sugar specificity; other site 158189005634 Pyrimidine base specificity; other site 158189005635 ATP-binding site [chemical binding]; other site 158189005636 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 158189005637 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 158189005638 active site 158189005639 catalytic residues [active] 158189005640 GTP-binding protein LepA; Provisional; Region: PRK05433 158189005641 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 158189005642 G1 box; other site 158189005643 putative GEF interaction site [polypeptide binding]; other site 158189005644 GTP/Mg2+ binding site [chemical binding]; other site 158189005645 Switch I region; other site 158189005646 G2 box; other site 158189005647 G3 box; other site 158189005648 Switch II region; other site 158189005649 G4 box; other site 158189005650 G5 box; other site 158189005651 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 158189005652 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 158189005653 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 158189005654 FtsH Extracellular; Region: FtsH_ext; pfam06480 158189005655 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 158189005656 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189005657 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 158189005658 Walker A motif; other site 158189005659 ATP binding site [chemical binding]; other site 158189005660 Walker B motif; other site 158189005661 arginine finger; other site 158189005662 Peptidase family M41; Region: Peptidase_M41; pfam01434 158189005663 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 158189005664 Ligand Binding Site [chemical binding]; other site 158189005665 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 158189005666 putative active site [active] 158189005667 catalytic residue [active] 158189005668 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 158189005669 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 158189005670 5S rRNA interface [nucleotide binding]; other site 158189005671 CTC domain interface [polypeptide binding]; other site 158189005672 L16 interface [polypeptide binding]; other site 158189005673 SpoVG; Region: SpoVG; cl00915 158189005674 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 158189005675 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 158189005676 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 158189005677 ligand binding site [chemical binding]; other site 158189005678 active site 158189005679 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 158189005680 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 158189005681 motif II; other site 158189005682 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 158189005683 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189005684 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158189005685 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 158189005686 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 158189005687 active site 158189005688 putative substrate binding pocket [chemical binding]; other site 158189005689 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 158189005690 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 158189005691 glutamate dehydrogenase; Provisional; Region: PRK09414 158189005692 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 158189005693 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 158189005694 NAD(P) binding site [chemical binding]; other site 158189005695 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 158189005696 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cl00018 158189005697 non-heme iron binding site [ion binding]; other site 158189005698 dimer interface [polypeptide binding]; other site 158189005699 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 158189005700 non-heme iron binding site [ion binding]; other site 158189005701 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 158189005702 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 158189005703 Walker A/P-loop; other site 158189005704 ATP binding site [chemical binding]; other site 158189005705 Q-loop/lid; other site 158189005706 ABC transporter signature motif; other site 158189005707 Walker B; other site 158189005708 D-loop; other site 158189005709 H-loop/switch region; other site 158189005710 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 158189005711 dimer interface [polypeptide binding]; other site 158189005712 conserved gate region; other site 158189005713 putative PBP binding loops; other site 158189005714 ABC-ATPase subunit interface; other site 158189005715 NMT1/THI5 like; Region: NMT1; pfam09084 158189005716 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189005717 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 158189005718 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 158189005719 active site 158189005720 HIGH motif; other site 158189005721 dimer interface [polypeptide binding]; other site 158189005722 KMSKS motif; other site 158189005723 glycyl-tRNA synthetase; Provisional; Region: PRK04173 158189005724 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 158189005725 dimer interface [polypeptide binding]; other site 158189005726 motif 1; other site 158189005727 active site 158189005728 motif 2; other site 158189005729 motif 3; other site 158189005730 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 158189005731 anticodon binding site; other site 158189005732 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 158189005733 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 158189005734 active site 158189005735 HIGH motif; other site 158189005736 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 158189005737 active site 158189005738 KMSKS motif; other site 158189005739 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158189005740 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189005741 Esterase/lipase [General function prediction only]; Region: COG1647 158189005742 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 158189005743 DNA binding residues [nucleotide binding] 158189005744 dimerization interface [polypeptide binding]; other site 158189005745 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189005746 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 158189005747 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 158189005748 homodimer interface [polypeptide binding]; other site 158189005749 Walker A motif; other site 158189005750 ATP binding site [chemical binding]; other site 158189005751 hydroxycobalamin binding site [chemical binding]; other site 158189005752 Walker B motif; other site 158189005753 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 158189005754 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 158189005755 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 158189005756 zinc binding site [ion binding]; other site 158189005757 putative ligand binding site [chemical binding]; other site 158189005758 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 158189005759 zinc binding site [ion binding]; other site 158189005760 putative ligand binding site [chemical binding]; other site 158189005761 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 158189005762 TM-ABC transporter signature motif; other site 158189005763 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 158189005764 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189005765 Walker A/P-loop; other site 158189005766 ATP binding site [chemical binding]; other site 158189005767 Q-loop/lid; other site 158189005768 ABC transporter signature motif; other site 158189005769 Walker B; other site 158189005770 D-loop; other site 158189005771 H-loop/switch region; other site 158189005772 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 158189005773 MatE; Region: MatE; cl10513 158189005774 MatE; Region: MatE; cl10513 158189005775 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 158189005776 putative ligand binding site [chemical binding]; other site 158189005777 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 158189005778 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189005779 Walker A/P-loop; other site 158189005780 ATP binding site [chemical binding]; other site 158189005781 Q-loop/lid; other site 158189005782 ABC transporter signature motif; other site 158189005783 Walker B; other site 158189005784 D-loop; other site 158189005785 H-loop/switch region; other site 158189005786 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189005787 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189005788 TM-ABC transporter signature motif; other site 158189005789 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189005790 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189005791 DNA binding site [nucleotide binding] 158189005792 domain linker motif; other site 158189005793 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 158189005794 ligand binding site [chemical binding]; other site 158189005795 Domain of unknown function DUF143; Region: DUF143; cl00519 158189005796 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158189005797 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 158189005798 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 158189005799 active site 158189005800 (T/H)XGH motif; other site 158189005801 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 158189005802 GTP1/OBG; Region: GTP1_OBG; pfam01018 158189005803 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 158189005804 G1 box; other site 158189005805 GTP/Mg2+ binding site [chemical binding]; other site 158189005806 Switch I region; other site 158189005807 G2 box; other site 158189005808 G3 box; other site 158189005809 Switch II region; other site 158189005810 G4 box; other site 158189005811 G5 box; other site 158189005812 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 158189005813 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 158189005814 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189005815 Helix-turn-helix domains; Region: HTH; cl00088 158189005816 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 158189005817 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 158189005818 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 158189005819 KMSK motif region; other site 158189005820 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 158189005821 tRNA binding surface [nucleotide binding]; other site 158189005822 anticodon binding site; other site 158189005823 Helix-turn-helix domains; Region: HTH; cl00088 158189005824 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 158189005825 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 158189005826 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 158189005827 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 158189005828 serine O-acetyltransferase; Region: cysE; TIGR01172 158189005829 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 158189005830 trimer interface [polypeptide binding]; other site 158189005831 active site 158189005832 substrate binding site [chemical binding]; other site 158189005833 CoA binding site [chemical binding]; other site 158189005834 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189005835 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 158189005836 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 158189005837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005838 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 158189005839 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 158189005840 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 158189005841 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 158189005842 MatE; Region: MatE; cl10513 158189005843 MatE; Region: MatE; cl10513 158189005844 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; cl12011 158189005845 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 158189005846 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 158189005847 active site 158189005848 substrate binding site [chemical binding]; other site 158189005849 metal binding site [ion binding]; metal-binding site 158189005850 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 158189005851 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189005852 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 158189005853 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; cl12011 158189005854 Flagellin N-methylase; Region: FliB; cl00497 158189005855 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 158189005856 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158189005857 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 158189005858 active site 158189005859 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189005860 phosphate binding site [ion binding]; other site 158189005861 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 158189005862 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; cl06868 158189005863 FAD binding pocket [chemical binding]; other site 158189005864 conserved FAD binding motif [chemical binding]; other site 158189005865 phosphate binding motif [ion binding]; other site 158189005866 beta-alpha-beta structure motif; other site 158189005867 NAD binding pocket [chemical binding]; other site 158189005868 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 158189005869 dimer interface [polypeptide binding]; other site 158189005870 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158189005871 bifunctional aspartate carbamoyltransferase catalytic subunit/aspartate carbamoyltransferase regulatory subunit; Provisional; Region: pyrB; PRK13376 158189005872 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 158189005873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189005874 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 158189005875 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 158189005876 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 158189005877 Chain length determinant protein; Region: Wzz; cl01623 158189005878 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 158189005879 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189005880 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 158189005881 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 158189005882 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 158189005883 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 158189005884 putative ligand binding site [chemical binding]; other site 158189005885 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 158189005886 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189005887 Walker A/P-loop; other site 158189005888 ATP binding site [chemical binding]; other site 158189005889 Q-loop/lid; other site 158189005890 ABC transporter signature motif; other site 158189005891 Walker B; other site 158189005892 D-loop; other site 158189005893 H-loop/switch region; other site 158189005894 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189005895 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189005896 TM-ABC transporter signature motif; other site 158189005897 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189005898 TM-ABC transporter signature motif; other site 158189005899 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 158189005900 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 158189005901 putative deacylase active site [active] 158189005902 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 158189005903 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 158189005904 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 158189005905 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 158189005906 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 158189005907 homotrimer interaction site [polypeptide binding]; other site 158189005908 putative active site [active] 158189005909 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189005910 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 158189005911 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 158189005912 motif II; other site 158189005913 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 158189005914 active site 158189005915 dimerization interface [polypeptide binding]; other site 158189005916 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 158189005917 sugar efflux transporter; Region: 2A0120; TIGR00899 158189005918 putative substrate translocation pore; other site 158189005919 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 158189005920 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 158189005921 FeS/SAM binding site; other site 158189005922 EamA-like transporter family; Region: EamA; cl01037 158189005923 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 158189005924 EamA-like transporter family; Region: EamA; cl01037 158189005925 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 158189005926 aspartate aminotransferase; Provisional; Region: PRK07568 158189005927 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 158189005928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189005929 homodimer interface [polypeptide binding]; other site 158189005930 catalytic residue [active] 158189005931 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 158189005932 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158189005933 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 158189005934 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 158189005935 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 158189005936 PhoU domain; Region: PhoU; pfam01895 158189005937 argininosuccinate lyase; Provisional; Region: PRK00855 158189005938 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 158189005939 tetramer interface [polypeptide binding]; other site 158189005940 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 158189005941 catalytic residues [active] 158189005942 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 158189005943 non-specific DNA binding site [nucleotide binding]; other site 158189005944 salt bridge; other site 158189005945 sequence-specific DNA binding site [nucleotide binding]; other site 158189005946 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 158189005947 H+ Antiporter protein; Region: 2A0121; TIGR00900 158189005948 putative substrate translocation pore; other site 158189005949 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 158189005950 dimer interface [polypeptide binding]; other site 158189005951 ssDNA binding site [nucleotide binding]; other site 158189005952 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158189005953 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158189005954 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 158189005955 active site 158189005956 metal binding site [ion binding]; metal-binding site 158189005957 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158189005958 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158189005959 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189005960 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189005961 Helix-turn-helix domains; Region: HTH; cl00088 158189005962 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 158189005963 uncharacterized xylulose kinase-like proteins, subgroup 2; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 158189005964 N- and C-terminal domain interface [polypeptide binding]; other site 158189005965 active site 158189005966 catalytic site [active] 158189005967 metal binding site [ion binding]; metal-binding site 158189005968 xylulose binding site [chemical binding]; other site 158189005969 ATP binding site [chemical binding]; other site 158189005970 putative homodimer interface [polypeptide binding]; other site 158189005971 GtrA-like protein; Region: GtrA; cl00971 158189005972 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 158189005973 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 158189005974 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189005975 catalytic residue [active] 158189005976 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 158189005977 intersubunit interface [polypeptide binding]; other site 158189005978 active site 158189005979 Zn2+ binding site [ion binding]; other site 158189005980 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158189005981 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189005982 GtrA-like protein; Region: GtrA; cl00971 158189005983 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189005984 Helix-turn-helix domains; Region: HTH; cl00088 158189005985 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189005986 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189005987 metal binding site [ion binding]; metal-binding site 158189005988 active site 158189005989 I-site; other site 158189005990 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 158189005991 active site 158189005992 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 158189005993 active site 158189005994 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 158189005995 non-specific DNA binding site [nucleotide binding]; other site 158189005996 salt bridge; other site 158189005997 sequence-specific DNA binding site [nucleotide binding]; other site 158189005998 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189005999 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 158189006000 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189006001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006002 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 158189006003 FMN-binding domain; Region: FMN_bind; cl01081 158189006004 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 158189006005 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 158189006006 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 158189006007 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 158189006008 catalytic loop [active] 158189006009 iron binding site [ion binding]; other site 158189006010 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; cl06868 158189006011 FAD binding pocket [chemical binding]; other site 158189006012 conserved FAD binding motif [chemical binding]; other site 158189006013 phosphate binding motif [ion binding]; other site 158189006014 beta-alpha-beta structure motif; other site 158189006015 NAD binding pocket [chemical binding]; other site 158189006016 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 158189006017 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189006018 metal binding site [ion binding]; metal-binding site 158189006019 active site 158189006020 I-site; other site 158189006021 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158189006022 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 158189006023 dimer interface [polypeptide binding]; other site 158189006024 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 158189006025 dimer interface [polypeptide binding]; other site 158189006026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189006027 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189006028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189006029 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158189006030 AAK_UMPK-PyrH-Pf: UMP kinase (UMPK)-Pf, the mostly archaeal uridine monophosphate kinase (uridylate kinase) enzymes that catalyze UMP phosphorylation and play a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back...; Region: AAK_UMPK-PyrH-Pf; cd04253 158189006031 nucleotide binding site [chemical binding]; other site 158189006032 homodimeric interface [polypeptide binding]; other site 158189006033 uridine monophosphate binding site [chemical binding]; other site 158189006034 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 158189006035 FeS/SAM binding site; other site 158189006036 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 158189006037 active site 158189006038 nucleophile elbow; other site 158189006039 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158189006040 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 158189006041 pyridoxal binding site [chemical binding]; other site 158189006042 dimer interface [polypeptide binding]; other site 158189006043 ATP binding site [chemical binding]; other site 158189006044 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 158189006045 active site 158189006046 substrate binding site [chemical binding]; other site 158189006047 metal binding site [ion binding]; metal-binding site 158189006048 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 158189006049 additional DNA contacts [nucleotide binding]; other site 158189006050 mismatch recognition site; other site 158189006051 active site 158189006052 zinc binding site [ion binding]; other site 158189006053 DNA intercalation site [nucleotide binding]; other site 158189006054 Hexokinase [Carbohydrate transport and metabolism]; Region: COG5026 158189006055 Hexokinase; Region: Hexokinase_1; pfam00349 158189006056 Hexokinase; Region: Hexokinase_2; pfam03727 158189006057 exonuclease I; Provisional; Region: sbcB; PRK11779 158189006058 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 158189006059 active site 158189006060 substrate binding site [chemical binding]; other site 158189006061 catalytic site [active] 158189006062 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 158189006063 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 158189006064 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 158189006065 substrate-cofactor binding pocket; other site 158189006066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189006067 catalytic residue [active] 158189006068 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 158189006069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006070 NAD(P) binding site [chemical binding]; other site 158189006071 active site 158189006072 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 158189006073 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 158189006074 non-specific DNA binding site [nucleotide binding]; other site 158189006075 salt bridge; other site 158189006076 sequence-specific DNA binding site [nucleotide binding]; other site 158189006077 Cupin domain; Region: Cupin_2; cl09118 158189006078 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 158189006079 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 158189006080 peptide chain release factor 1; Validated; Region: prfA; PRK00591 158189006081 RF-1 domain; Region: RF-1; cl02875 158189006082 RF-1 domain; Region: RF-1; cl02875 158189006083 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 158189006084 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 158189006085 S-adenosylmethionine binding site [chemical binding]; other site 158189006086 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 158189006087 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158189006088 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 158189006089 synthetase active site [active] 158189006090 NTP binding site [chemical binding]; other site 158189006091 metal binding site [ion binding]; metal-binding site 158189006092 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 158189006093 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 158189006094 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 158189006095 DRTGG domain; Region: DRTGG; cl12147 158189006096 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 158189006097 DHHA2 domain; Region: DHHA2; pfam02833 158189006098 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 158189006099 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 158189006100 putative active site [active] 158189006101 catalytic site [active] 158189006102 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 158189006103 putative active site [active] 158189006104 catalytic site [active] 158189006105 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 158189006106 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 158189006107 motif II; other site 158189006108 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 158189006109 active site 158189006110 catalytic motif [active] 158189006111 Zn binding site [ion binding]; other site 158189006112 phenylhydantoinase; Validated; Region: PRK08323 158189006113 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 158189006114 active site 158189006115 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 158189006116 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 158189006117 tetramer interface [polypeptide binding]; other site 158189006118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189006119 catalytic residue [active] 158189006120 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 158189006121 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 158189006122 tetramer interface [polypeptide binding]; other site 158189006123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189006124 catalytic residue [active] 158189006125 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 158189006126 lipoyl attachment site [posttranslational modification]; other site 158189006127 serine hydroxymethyltransferase; Provisional; Region: PRK13580 158189006128 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 158189006129 dimer interface [polypeptide binding]; other site 158189006130 glycine-pyridoxal phosphate binding site [chemical binding]; other site 158189006131 active site 158189006132 folate binding site [chemical binding]; other site 158189006133 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 158189006134 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 158189006135 rRNA binding site [nucleotide binding]; other site 158189006136 predicted 30S ribosome binding site; other site 158189006137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 158189006138 Smr domain; Region: Smr; cl02619 158189006139 FOG: CBS domain [General function prediction only]; Region: COG0517 158189006140 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 158189006141 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 158189006142 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 158189006143 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 158189006144 Walker A/P-loop; other site 158189006145 ATP binding site [chemical binding]; other site 158189006146 Q-loop/lid; other site 158189006147 ABC transporter signature motif; other site 158189006148 Walker B; other site 158189006149 D-loop; other site 158189006150 H-loop/switch region; other site 158189006151 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 158189006152 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 158189006153 Walker A/P-loop; other site 158189006154 ATP binding site [chemical binding]; other site 158189006155 Q-loop/lid; other site 158189006156 ABC transporter signature motif; other site 158189006157 Walker B; other site 158189006158 D-loop; other site 158189006159 H-loop/switch region; other site 158189006160 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 158189006161 TM-ABC transporter signature motif; other site 158189006162 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 158189006163 TM-ABC transporter signature motif; other site 158189006164 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 158189006165 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 158189006166 putative ligand binding site [chemical binding]; other site 158189006167 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 158189006168 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 158189006169 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 158189006170 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 158189006171 active site 158189006172 SCP-2 sterol transfer family; Region: SCP2; cl01225 158189006173 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189006174 Helix-turn-helix domains; Region: HTH; cl00088 158189006175 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 158189006176 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 158189006177 active site 158189006178 interdomain interaction site; other site 158189006179 putative metal-binding site [ion binding]; other site 158189006180 nucleotide binding site [chemical binding]; other site 158189006181 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 158189006182 domain I; other site 158189006183 DNA binding groove [nucleotide binding] 158189006184 phosphate binding site [ion binding]; other site 158189006185 domain II; other site 158189006186 domain III; other site 158189006187 nucleotide binding site [chemical binding]; other site 158189006188 catalytic site [active] 158189006189 domain IV; other site 158189006190 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 158189006191 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 158189006192 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 158189006193 GTP-binding protein YchF; Reviewed; Region: PRK09601 158189006194 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 158189006195 G1 box; other site 158189006196 GTP/Mg2+ binding site [chemical binding]; other site 158189006197 Switch I region; other site 158189006198 G2 box; other site 158189006199 Switch II region; other site 158189006200 G3 box; other site 158189006201 G4 box; other site 158189006202 G5 box; other site 158189006203 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 158189006204 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 158189006205 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 158189006206 G1 box; other site 158189006207 GTP/Mg2+ binding site [chemical binding]; other site 158189006208 Switch I region; other site 158189006209 G2 box; other site 158189006210 G3 box; other site 158189006211 Switch II region; other site 158189006212 G4 box; other site 158189006213 G5 box; other site 158189006214 OPT oligopeptide transporter protein; Region: OPT; cl14607 158189006215 OPT oligopeptide transporter protein; Region: OPT; cl14607 158189006216 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 158189006217 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 158189006218 FeS/SAM binding site; other site 158189006219 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 158189006220 H+ Antiporter protein; Region: 2A0121; TIGR00900 158189006221 putative substrate translocation pore; other site 158189006222 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 158189006223 DNA binding residues [nucleotide binding] 158189006224 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 158189006225 DNA binding residues [nucleotide binding] 158189006226 alanyl-tRNA synthetase; Provisional; Region: PRK01584 158189006227 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 158189006228 motif 1; other site 158189006229 active site 158189006230 motif 2; other site 158189006231 motif 3; other site 158189006232 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 158189006233 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 158189006234 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 158189006235 endonuclease III; Region: ENDO3c; smart00478 158189006236 minor groove reading motif; other site 158189006237 helix-hairpin-helix signature motif; other site 158189006238 substrate binding pocket [chemical binding]; other site 158189006239 active site 158189006240 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 158189006241 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189006242 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189006243 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 158189006244 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 158189006245 ligand binding site [chemical binding]; other site 158189006246 flexible hinge region; other site 158189006247 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 158189006248 putative switch regulator; other site 158189006249 non-specific DNA interactions [nucleotide binding]; other site 158189006250 DNA binding site [nucleotide binding] 158189006251 sequence specific DNA binding site [nucleotide binding]; other site 158189006252 putative cAMP binding site [chemical binding]; other site 158189006253 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 158189006254 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 158189006255 putative active site [active] 158189006256 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA; cl01007 158189006257 SxDxEG motif; other site 158189006258 active site 158189006259 metal binding site [ion binding]; metal-binding site 158189006260 homopentamer interface [polypeptide binding]; other site 158189006261 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 158189006262 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 158189006263 putative PBP binding loops; other site 158189006264 dimer interface [polypeptide binding]; other site 158189006265 ABC-ATPase subunit interface; other site 158189006266 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 158189006267 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 158189006268 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 158189006269 dimer interface [polypeptide binding]; other site 158189006270 conserved gate region; other site 158189006271 putative PBP binding loops; other site 158189006272 ABC-ATPase subunit interface; other site 158189006273 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 158189006274 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 158189006275 Walker A/P-loop; other site 158189006276 ATP binding site [chemical binding]; other site 158189006277 Q-loop/lid; other site 158189006278 ABC transporter signature motif; other site 158189006279 Walker B; other site 158189006280 D-loop; other site 158189006281 H-loop/switch region; other site 158189006282 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158189006283 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 158189006284 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 158189006285 Walker A/P-loop; other site 158189006286 ATP binding site [chemical binding]; other site 158189006287 Q-loop/lid; other site 158189006288 ABC transporter signature motif; other site 158189006289 Walker B; other site 158189006290 D-loop; other site 158189006291 H-loop/switch region; other site 158189006292 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158189006293 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 158189006294 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 158189006295 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 158189006296 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 158189006297 oligomer interface [polypeptide binding]; other site 158189006298 active site 158189006299 metal binding site [ion binding]; metal-binding site 158189006300 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 158189006301 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189006302 ABC transporter signature motif; other site 158189006303 Walker B; other site 158189006304 D-loop; other site 158189006305 H-loop/switch region; other site 158189006306 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 158189006307 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189006308 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 158189006309 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 158189006310 Walker A/P-loop; other site 158189006311 ATP binding site [chemical binding]; other site 158189006312 Q-loop/lid; other site 158189006313 ABC transporter signature motif; other site 158189006314 Walker B; other site 158189006315 D-loop; other site 158189006316 H-loop/switch region; other site 158189006317 Cobalt transport protein; Region: CbiQ; cl00463 158189006318 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 158189006319 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 158189006320 active site 158189006321 phosphorylation site [posttranslational modification] 158189006322 putative oxidoreductase; Provisional; Region: PRK12831 158189006323 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 158189006324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006326 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 158189006327 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 158189006328 FAD binding pocket [chemical binding]; other site 158189006329 FAD binding motif [chemical binding]; other site 158189006330 phosphate binding motif [ion binding]; other site 158189006331 beta-alpha-beta structure motif; other site 158189006332 NAD binding pocket [chemical binding]; other site 158189006333 Iron coordination center [ion binding]; other site 158189006334 Cupin domain; Region: Cupin_2; cl09118 158189006335 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 158189006336 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 158189006337 putative dimer interface [polypeptide binding]; other site 158189006338 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 158189006339 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 158189006340 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 158189006341 dimerization interface [polypeptide binding]; other site 158189006342 ATP binding site [chemical binding]; other site 158189006343 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 158189006344 dimerization interface [polypeptide binding]; other site 158189006345 ATP binding site [chemical binding]; other site 158189006346 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 158189006347 conserved cys residue [active] 158189006348 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 158189006349 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 158189006350 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158189006351 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 158189006352 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 158189006353 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 158189006354 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 158189006355 active site 158189006356 substrate binding site [chemical binding]; other site 158189006357 cosubstrate binding site; other site 158189006358 catalytic site [active] 158189006359 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 158189006360 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 158189006361 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 158189006362 dimerization interface [polypeptide binding]; other site 158189006363 putative ATP binding site [chemical binding]; other site 158189006364 amidophosphoribosyltransferase; Provisional; Region: PRK05793 158189006365 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 158189006366 active site 158189006367 tetramer interface [polypeptide binding]; other site 158189006368 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158189006369 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 158189006370 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 158189006371 ATP binding site [chemical binding]; other site 158189006372 active site 158189006373 substrate binding site [chemical binding]; other site 158189006374 AIR carboxylase; Region: AIRC; cl00310 158189006375 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 158189006376 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 158189006377 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189006378 Walker A/P-loop; other site 158189006379 ATP binding site [chemical binding]; other site 158189006380 Q-loop/lid; other site 158189006381 ABC transporter signature motif; other site 158189006382 Walker B; other site 158189006383 D-loop; other site 158189006384 H-loop/switch region; other site 158189006385 ABC transporter; Region: ABC_tran_2; pfam12848 158189006386 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 158189006387 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 158189006388 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 158189006389 FeS/SAM binding site; other site 158189006390 AMMECR1; Region: AMMECR1; cl00911 158189006391 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 158189006392 putative ligand binding pocket/active site [active] 158189006393 putative metal binding site [ion binding]; other site 158189006394 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 158189006395 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 158189006396 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 158189006397 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189006398 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 158189006399 dimer interface [polypeptide binding]; other site 158189006400 conserved gate region; other site 158189006401 putative PBP binding loops; other site 158189006402 ABC-ATPase subunit interface; other site 158189006403 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189006404 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 158189006405 dimer interface [polypeptide binding]; other site 158189006406 conserved gate region; other site 158189006407 putative PBP binding loops; other site 158189006408 ABC-ATPase subunit interface; other site 158189006409 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189006410 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 158189006411 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 158189006412 active site 158189006413 phosphorylation site [posttranslational modification] 158189006414 intermolecular recognition site; other site 158189006415 dimerization interface [polypeptide binding]; other site 158189006416 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 158189006417 DNA binding residues [nucleotide binding] 158189006418 dimerization interface [polypeptide binding]; other site 158189006419 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189006420 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 158189006421 ligand binding site [chemical binding]; other site 158189006422 dimerization interface [polypeptide binding]; other site 158189006423 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 158189006424 Histidine kinase; Region: HisKA_3; pfam07730 158189006425 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 158189006426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006427 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 158189006428 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 158189006429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006430 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 158189006431 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 158189006432 Cation transport protein; Region: TrkH; cl10514 158189006433 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189006434 isoform II; Region: PAF-AH_p_II; pfam03403 158189006435 GntP family permease; Region: GntP_permease; cl15264 158189006436 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 158189006437 Glycerate kinase family; Region: Gly_kinase; cl00841 158189006438 A new structural DNA glycosylase; Region: AlkD_like; cd06561 158189006439 active site 158189006440 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 158189006441 active site 158189006442 dimer interface [polypeptide binding]; other site 158189006443 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 158189006444 catalytic residues [active] 158189006445 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 158189006446 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 158189006447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189006448 catalytic residue [active] 158189006449 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 158189006450 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 158189006451 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; cl00083 158189006452 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 158189006453 classical (c) SDRs; Region: SDR_c; cd05233 158189006454 NAD(P) binding site [chemical binding]; other site 158189006455 active site 158189006456 EamA-like transporter family; Region: EamA; cl01037 158189006457 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 158189006458 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 158189006459 Walker A/P-loop; other site 158189006460 ATP binding site [chemical binding]; other site 158189006461 Q-loop/lid; other site 158189006462 ABC transporter signature motif; other site 158189006463 Walker B; other site 158189006464 D-loop; other site 158189006465 H-loop/switch region; other site 158189006466 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 158189006467 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 158189006468 Walker A/P-loop; other site 158189006469 ATP binding site [chemical binding]; other site 158189006470 Q-loop/lid; other site 158189006471 ABC transporter signature motif; other site 158189006472 Walker B; other site 158189006473 D-loop; other site 158189006474 H-loop/switch region; other site 158189006475 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 158189006476 TM-ABC transporter signature motif; other site 158189006477 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 158189006478 TM-ABC transporter signature motif; other site 158189006479 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 158189006480 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189006481 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 158189006482 inhibitor site; inhibition site 158189006483 active site 158189006484 dimer interface [polypeptide binding]; other site 158189006485 catalytic residue [active] 158189006486 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 158189006487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006488 active site 158189006489 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 158189006490 amidohydrolase; Region: amidohydrolases; TIGR01891 158189006491 metal binding site [ion binding]; metal-binding site 158189006492 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189006493 Helix-turn-helix domains; Region: HTH; cl00088 158189006494 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; cd01610 158189006495 active site 158189006496 RecX family; Region: RecX; cl00936 158189006497 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 158189006498 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 158189006499 23S rRNA interface [nucleotide binding]; other site 158189006500 L3 interface [polypeptide binding]; other site 158189006501 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 158189006502 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 158189006503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189006504 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 158189006505 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 158189006506 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 158189006507 FeS/SAM binding site; other site 158189006508 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 158189006509 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 158189006510 dimer interface [polypeptide binding]; other site 158189006511 conserved gate region; other site 158189006512 putative PBP binding loops; other site 158189006513 ABC-ATPase subunit interface; other site 158189006514 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 158189006515 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 158189006516 dimer interface [polypeptide binding]; other site 158189006517 conserved gate region; other site 158189006518 putative PBP binding loops; other site 158189006519 ABC-ATPase subunit interface; other site 158189006520 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 158189006521 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 158189006522 Walker A/P-loop; other site 158189006523 ATP binding site [chemical binding]; other site 158189006524 Q-loop/lid; other site 158189006525 ABC transporter signature motif; other site 158189006526 Walker B; other site 158189006527 D-loop; other site 158189006528 H-loop/switch region; other site 158189006529 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158189006530 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 158189006531 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 158189006532 Walker A/P-loop; other site 158189006533 ATP binding site [chemical binding]; other site 158189006534 Q-loop/lid; other site 158189006535 ABC transporter signature motif; other site 158189006536 Walker B; other site 158189006537 D-loop; other site 158189006538 H-loop/switch region; other site 158189006539 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158189006540 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 158189006541 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 158189006542 peptide binding site [polypeptide binding]; other site 158189006543 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 158189006544 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 158189006545 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 158189006546 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 158189006547 tetramer interface [polypeptide binding]; other site 158189006548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189006549 catalytic residue [active] 158189006550 ferredoxin; Validated; Region: PRK07118 158189006551 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 158189006552 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 158189006553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189006554 homodimer interface [polypeptide binding]; other site 158189006555 catalytic residue [active] 158189006556 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; cd00229 158189006557 active site 158189006558 catalytic triad [active] 158189006559 oxyanion hole [active] 158189006560 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 158189006561 active site 158189006562 intersubunit interactions; other site 158189006563 catalytic residue [active] 158189006564 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189006565 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189006566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189006567 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158189006568 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 158189006569 active site 158189006570 catalytic tetrad [active] 158189006571 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 158189006572 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 158189006573 putative NAD(P) binding site [chemical binding]; other site 158189006574 catalytic Zn binding site [ion binding]; other site 158189006575 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189006576 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189006577 DNA binding site [nucleotide binding] 158189006578 domain linker motif; other site 158189006579 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189006580 ligand binding site [chemical binding]; other site 158189006581 dimerization interface [polypeptide binding]; other site 158189006582 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189006583 TM-ABC transporter signature motif; other site 158189006584 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 158189006585 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189006586 Walker A/P-loop; other site 158189006587 ATP binding site [chemical binding]; other site 158189006588 Q-loop/lid; other site 158189006589 ABC transporter signature motif; other site 158189006590 Walker B; other site 158189006591 D-loop; other site 158189006592 H-loop/switch region; other site 158189006593 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189006594 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 158189006595 putative ligand binding site [chemical binding]; other site 158189006596 L-rhamnulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 158189006597 N- and C-terminal domain interface [polypeptide binding]; other site 158189006598 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 158189006599 active site 158189006600 catalytic site [active] 158189006601 metal binding site [ion binding]; metal-binding site 158189006602 ATP binding site [chemical binding]; other site 158189006603 carbohydrate binding site [chemical binding]; other site 158189006604 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 158189006605 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 158189006606 putative NAD(P) binding site [chemical binding]; other site 158189006607 catalytic Zn binding site [ion binding]; other site 158189006608 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 158189006609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006610 NAD(P) binding site [chemical binding]; other site 158189006611 active site 158189006612 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 158189006613 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 158189006614 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 158189006615 tetramer interface [polypeptide binding]; other site 158189006616 TPP-binding site [chemical binding]; other site 158189006617 heterodimer interface [polypeptide binding]; other site 158189006618 phosphorylation loop region [posttranslational modification] 158189006619 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 158189006620 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 158189006621 PYR/PP interface [polypeptide binding]; other site 158189006622 dimer interface [polypeptide binding]; other site 158189006623 TPP binding site [chemical binding]; other site 158189006624 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158189006625 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 158189006626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006628 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 158189006629 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 158189006630 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 158189006631 E3 interaction surface; other site 158189006632 lipoyl attachment site [posttranslational modification]; other site 158189006633 e3 binding domain; Region: E3_binding; pfam02817 158189006634 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 158189006635 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 158189006636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189006637 DNA-binding site [nucleotide binding]; DNA binding site 158189006638 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 158189006639 Domain of unknown function (DUF718); Region: DUF718; cl01281 158189006640 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189006641 TM-ABC transporter signature motif; other site 158189006642 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189006643 TM-ABC transporter signature motif; other site 158189006644 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 158189006645 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189006646 Walker A/P-loop; other site 158189006647 ATP binding site [chemical binding]; other site 158189006648 Q-loop/lid; other site 158189006649 ABC transporter signature motif; other site 158189006650 Walker B; other site 158189006651 D-loop; other site 158189006652 H-loop/switch region; other site 158189006653 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189006654 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 158189006655 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 158189006656 ligand binding site [chemical binding]; other site 158189006657 Membrane transport protein; Region: Mem_trans; cl09117 158189006658 Uncharacterized conserved protein [Function unknown]; Region: COG3347 158189006659 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 158189006660 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 158189006661 transcriptional activator RhaS; Provisional; Region: PRK13503 158189006662 Cupin domain; Region: Cupin_2; cl09118 158189006663 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189006664 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 158189006665 L-fucose isomerase; Provisional; Region: fucI; PRK10991 158189006666 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 158189006667 hexamer (dimer of trimers) interface [polypeptide binding]; other site 158189006668 trimer interface [polypeptide binding]; other site 158189006669 substrate binding site [chemical binding]; other site 158189006670 Mn binding site [ion binding]; other site 158189006671 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 158189006672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189006673 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 158189006674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189006675 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 158189006676 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 158189006677 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 158189006678 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 158189006679 putative dimer interface [polypeptide binding]; other site 158189006680 catalytic triad [active] 158189006681 enolase; Provisional; Region: eno; PRK00077 158189006682 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 158189006683 dimer interface [polypeptide binding]; other site 158189006684 metal binding site [ion binding]; metal-binding site 158189006685 substrate binding pocket [chemical binding]; other site 158189006686 Phd_YefM; Region: PhdYeFM; cl09153 158189006687 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 158189006688 Uncharacterised protein family (UPF0158); Region: UPF0158; pfam03682 158189006689 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 158189006690 active site 158189006691 trimer interface [polypeptide binding]; other site 158189006692 allosteric site; other site 158189006693 active site lid [active] 158189006694 hexamer (dimer of trimers) interface [polypeptide binding]; other site 158189006695 mannonate dehydratase; Provisional; Region: PRK03906 158189006696 mannonate dehydratase; Region: uxuA; TIGR00695 158189006697 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189006698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189006699 DNA-binding site [nucleotide binding]; DNA binding site 158189006700 FCD domain; Region: FCD; cl11656 158189006701 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 158189006702 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 158189006703 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 158189006704 Uncharacterized conserved protein [Function unknown]; Region: COG1284 158189006705 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 158189006706 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 158189006707 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 158189006708 LrgB-like family; Region: LrgB; cl00596 158189006709 LrgA family; Region: LrgA; cl00608 158189006710 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 158189006711 putative FMN binding site [chemical binding]; other site 158189006712 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 158189006713 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 158189006714 active site 158189006715 substrate binding site [chemical binding]; other site 158189006716 Mg2+ binding site [ion binding]; other site 158189006717 alpha-glucosidase; Provisional; Region: PRK10426 158189006718 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 158189006719 putative active site [active] 158189006720 putative catalytic site [active] 158189006721 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 158189006722 dimer interface [polypeptide binding]; other site 158189006723 conserved gate region; other site 158189006724 putative PBP binding loops; other site 158189006725 ABC-ATPase subunit interface; other site 158189006726 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 158189006727 dimer interface [polypeptide binding]; other site 158189006728 conserved gate region; other site 158189006729 putative PBP binding loops; other site 158189006730 ABC-ATPase subunit interface; other site 158189006731 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189006732 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 158189006733 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 158189006734 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 158189006735 hexamer (dimer of trimers) interface [polypeptide binding]; other site 158189006736 trimer interface [polypeptide binding]; other site 158189006737 substrate binding site [chemical binding]; other site 158189006738 Mn binding site [ion binding]; other site 158189006739 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 158189006740 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158189006741 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 158189006742 TPP-binding site [chemical binding]; other site 158189006743 dimer interface [polypeptide binding]; other site 158189006744 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 158189006745 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 158189006746 PYR/PP interface [polypeptide binding]; other site 158189006747 dimer interface [polypeptide binding]; other site 158189006748 TPP binding site [chemical binding]; other site 158189006749 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158189006750 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 158189006751 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 158189006752 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 158189006753 putative active site [active] 158189006754 metal binding site [ion binding]; metal-binding site 158189006755 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 158189006756 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 158189006757 elongation factor G; Reviewed; Region: PRK12740 158189006758 G1 box; other site 158189006759 putative GEF interaction site [polypeptide binding]; other site 158189006760 GTP/Mg2+ binding site [chemical binding]; other site 158189006761 Switch I region; other site 158189006762 G2 box; other site 158189006763 G3 box; other site 158189006764 Switch II region; other site 158189006765 G4 box; other site 158189006766 G5 box; other site 158189006767 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 158189006768 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 158189006769 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cl02785 158189006770 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 158189006771 HIT family signature motif; other site 158189006772 catalytic residue [active] 158189006773 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 158189006774 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 158189006775 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 158189006776 motif II; other site 158189006777 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 158189006778 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 158189006779 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 158189006780 Fumarase C-terminus; Region: Fumerase_C; cl00795 158189006781 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 158189006782 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 158189006783 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 158189006784 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 158189006785 active site 158189006786 nucleophile elbow; other site 158189006787 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 158189006788 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 158189006789 putative active site [active] 158189006790 substrate binding site [chemical binding]; other site 158189006791 putative cosubstrate binding site; other site 158189006792 catalytic site [active] 158189006793 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 158189006794 substrate binding site [chemical binding]; other site 158189006795 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 158189006796 active site 158189006797 catalytic residues [active] 158189006798 metal binding site [ion binding]; metal-binding site 158189006799 primosome assembly protein PriA; Validated; Region: PRK05580 158189006800 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 158189006801 ATP binding site [chemical binding]; other site 158189006802 putative Mg++ binding site [ion binding]; other site 158189006803 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 158189006804 ATP-binding site [chemical binding]; other site 158189006805 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 158189006806 Fe-S cluster binding site [ion binding]; other site 158189006807 active site 158189006808 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 158189006809 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 158189006810 dimerization interface 3.5A [polypeptide binding]; other site 158189006811 active site 158189006812 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 158189006813 Uncharacterized conserved protein [Function unknown]; Region: COG1624 158189006814 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 158189006815 glycerol kinase; Provisional; Region: glpK; PRK00047 158189006816 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 158189006817 N- and C-terminal domain interface [polypeptide binding]; other site 158189006818 active site 158189006819 MgATP binding site [chemical binding]; other site 158189006820 catalytic site [active] 158189006821 metal binding site [ion binding]; metal-binding site 158189006822 glycerol binding site [chemical binding]; other site 158189006823 homotetramer interface [polypeptide binding]; other site 158189006824 homodimer interface [polypeptide binding]; other site 158189006825 FBP binding site [chemical binding]; other site 158189006826 protein IIAGlc interface [polypeptide binding]; other site 158189006827 DRTGG domain; Region: DRTGG; cl12147 158189006828 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 158189006829 ferredoxin; Validated; Region: PRK07118 158189006830 4Fe-4S binding domain; Region: Fer4; cl02805 158189006831 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 158189006832 Putative Fe-S cluster; Region: FeS; pfam04060 158189006833 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 158189006834 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 158189006835 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 158189006836 Peptidase M16C associated; Region: M16C_assoc; pfam08367 158189006837 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 158189006838 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 158189006839 endonuclease IV; Provisional; Region: PRK01060 158189006840 AP (apurinic/apyrimidinic) site pocket; other site 158189006841 DNA interaction; other site 158189006842 Metal-binding active site; metal-binding site 158189006843 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 158189006844 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 158189006845 active site 158189006846 catalytic site [active] 158189006847 peptidase T; Region: peptidase-T; TIGR01882 158189006848 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 158189006849 metal binding site [ion binding]; metal-binding site 158189006850 dimer interface [polypeptide binding]; other site 158189006851 Transposase [DNA replication, recombination, and repair]; Region: COG5421 158189006852 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 158189006853 catalytic loop [active] 158189006854 iron binding site [ion binding]; other site 158189006855 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 158189006856 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 158189006857 4Fe-4S binding domain; Region: Fer4; cl02805 158189006858 4Fe-4S binding domain; Region: Fer4; cl02805 158189006859 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 158189006860 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 158189006861 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 158189006862 dimer interface [polypeptide binding]; other site 158189006863 [2Fe-2S] cluster binding site [ion binding]; other site 158189006864 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 158189006865 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 158189006866 SLBB domain; Region: SLBB; pfam10531 158189006867 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 158189006868 4Fe-4S binding domain; Region: Fer4; cl02805 158189006869 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 158189006870 4Fe-4S binding domain; Region: Fer4; cl02805 158189006871 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 158189006872 dimer interface [polypeptide binding]; other site 158189006873 [2Fe-2S] cluster binding site [ion binding]; other site 158189006874 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 158189006875 ATP binding site [chemical binding]; other site 158189006876 Mg2+ binding site [ion binding]; other site 158189006877 G-X-G motif; other site 158189006878 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 158189006879 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 158189006880 putative dimer interface [polypeptide binding]; other site 158189006881 [2Fe-2S] cluster binding site [ion binding]; other site 158189006882 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 158189006883 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 158189006884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006885 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 158189006886 putative catalytic site [active] 158189006887 putative metal binding site [ion binding]; other site 158189006888 putative phosphate binding site [ion binding]; other site 158189006889 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 158189006890 oligomer interface [polypeptide binding]; other site 158189006891 active site residues [active] 158189006892 GTPase Era; Reviewed; Region: era; PRK00089 158189006893 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 158189006894 G1 box; other site 158189006895 GTP/Mg2+ binding site [chemical binding]; other site 158189006896 Switch I region; other site 158189006897 G2 box; other site 158189006898 Switch II region; other site 158189006899 G3 box; other site 158189006900 G4 box; other site 158189006901 G5 box; other site 158189006902 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 158189006903 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189006904 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 158189006905 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158189006906 active site 158189006907 nucleotide binding site [chemical binding]; other site 158189006908 HIGH motif; other site 158189006909 KMSKS motif; other site 158189006910 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 158189006911 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 158189006912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189006913 Surface antigen; Region: Bac_surface_Ag; cl03097 158189006914 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 158189006915 DNA binding site [nucleotide binding] 158189006916 Int/Topo IB signature motif; other site 158189006917 active site 158189006918 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 158189006919 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 158189006920 replicative DNA helicase; Region: DnaB; TIGR00665 158189006921 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 158189006922 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189006923 Walker A motif; other site 158189006924 ATP binding site [chemical binding]; other site 158189006925 Walker B motif; other site 158189006926 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 158189006927 dimer interface [polypeptide binding]; other site 158189006928 ssDNA binding site [nucleotide binding]; other site 158189006929 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158189006930 NinB protein; Region: NinB; cl14671 158189006931 ERF superfamily; Region: ERF; pfam04404 158189006932 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 158189006933 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 158189006934 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 158189006935 non-specific DNA binding site [nucleotide binding]; other site 158189006936 salt bridge; other site 158189006937 sequence-specific DNA binding site [nucleotide binding]; other site 158189006938 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 158189006939 Integrase core domain; Region: rve; cl01316 158189006940 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 158189006941 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 158189006942 Walker A motif; other site 158189006943 ATP binding site [chemical binding]; other site 158189006944 Walker B motif; other site 158189006945 arginine finger; other site 158189006946 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 158189006947 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 158189006948 MPN+ (JAMM) motif; other site 158189006949 Zinc-binding site [ion binding]; other site 158189006950 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 158189006951 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 158189006952 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 158189006953 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; cl12011 158189006954 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; cl12011 158189006955 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189006956 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189006957 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 158189006958 transposase/IS protein; Provisional; Region: PRK09183 158189006959 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 158189006960 Walker A motif; other site 158189006961 ATP binding site [chemical binding]; other site 158189006962 Walker B motif; other site 158189006963 Integrase core domain; Region: rve; cl01316 158189006964 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK06539 158189006965 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189006966 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 158189006967 putative homodimer interface [polypeptide binding]; other site 158189006968 putative active site [active] 158189006969 catalytic site [active] 158189006970 Transposase IS200 like; Region: Y1_Tnp; cl00848 158189006971 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 158189006972 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 158189006973 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189006974 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189006975 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 158189006976 binding surface 158189006977 TPR motif; other site 158189006978 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189006979 ligand binding site [chemical binding]; other site 158189006980 Helix-turn-helix domains; Region: HTH; cl00088 158189006981 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 158189006982 TPR motif; other site 158189006983 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 158189006984 binding surface 158189006985 RNA polymerase sigma factor; Provisional; Region: PRK12516 158189006986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 158189006987 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 158189006988 Histidine kinase; Region: His_kinase; pfam06580 158189006989 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 158189006990 Mg2+ binding site [ion binding]; other site 158189006991 G-X-G motif; other site 158189006992 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 158189006993 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 158189006994 active site 158189006995 phosphorylation site [posttranslational modification] 158189006996 intermolecular recognition site; other site 158189006997 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189006998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189006999 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189007000 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 158189007001 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189007002 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 158189007003 dimer interface [polypeptide binding]; other site 158189007004 conserved gate region; other site 158189007005 putative PBP binding loops; other site 158189007006 ABC-ATPase subunit interface; other site 158189007007 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189007008 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 158189007009 dimer interface [polypeptide binding]; other site 158189007010 conserved gate region; other site 158189007011 putative PBP binding loops; other site 158189007012 ABC-ATPase subunit interface; other site 158189007013 Transposase [DNA replication, recombination, and repair]; Region: COG5421 158189007014 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 158189007015 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 158189007016 DNA interaction; other site 158189007017 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189007018 TM-ABC transporter signature motif; other site 158189007019 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189007020 TM-ABC transporter signature motif; other site 158189007021 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 158189007022 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 158189007023 Walker A/P-loop; other site 158189007024 ATP binding site [chemical binding]; other site 158189007025 Q-loop/lid; other site 158189007026 ABC transporter signature motif; other site 158189007027 Walker B; other site 158189007028 D-loop; other site 158189007029 H-loop/switch region; other site 158189007030 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189007031 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 158189007032 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189007033 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 158189007034 dimer interface [polypeptide binding]; other site 158189007035 substrate binding site [chemical binding]; other site 158189007036 metal binding site [ion binding]; metal-binding site 158189007037 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 158189007038 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 158189007039 tetramer interface [polypeptide binding]; other site 158189007040 active site 158189007041 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 158189007042 substrate binding site [chemical binding]; other site 158189007043 metal binding site [ion binding]; metal-binding site 158189007044 dimer interface [polypeptide binding]; other site 158189007045 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 158189007046 Helix-turn-helix domains; Region: HTH; cl00088 158189007047 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 158189007048 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 158189007049 motif I; other site 158189007050 active site 158189007051 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 158189007052 uncharacterized xylulose kinase-like proteins, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 158189007053 N- and C-terminal domain interface [polypeptide binding]; other site 158189007054 putative active site [active] 158189007055 catalytic site [active] 158189007056 metal binding site [ion binding]; metal-binding site 158189007057 putative xylulose binding site [chemical binding]; other site 158189007058 putative ATP binding site [chemical binding]; other site 158189007059 putative homodimer interface [polypeptide binding]; other site 158189007060 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 158189007061 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189007062 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 158189007063 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 158189007064 active site 158189007065 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189007066 TM-ABC transporter signature motif; other site 158189007067 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189007068 TM-ABC transporter signature motif; other site 158189007069 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 158189007070 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189007071 Walker A/P-loop; other site 158189007072 ATP binding site [chemical binding]; other site 158189007073 Q-loop/lid; other site 158189007074 ABC transporter signature motif; other site 158189007075 Walker B; other site 158189007076 D-loop; other site 158189007077 H-loop/switch region; other site 158189007078 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189007079 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 158189007080 ligand binding site [chemical binding]; other site 158189007081 BtpA family; Region: BtpA; cl00440 158189007082 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 158189007083 Helix-turn-helix domains; Region: HTH; cl00088 158189007084 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 158189007085 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189007086 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 158189007087 Uncharacterized conserved protein (DUF2196); Region: DUF2196; cl02044 158189007088 RelB antitoxin; Region: RelB; cl01171 158189007089 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 158189007090 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189007091 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 158189007092 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189007093 Walker A/P-loop; other site 158189007094 ATP binding site [chemical binding]; other site 158189007095 Q-loop/lid; other site 158189007096 ABC transporter signature motif; other site 158189007097 Walker B; other site 158189007098 D-loop; other site 158189007099 H-loop/switch region; other site 158189007100 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189007101 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189007102 TM-ABC transporter signature motif; other site 158189007103 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189007104 TM-ABC transporter signature motif; other site 158189007105 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 158189007106 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 158189007107 active site 158189007108 phosphorylation site [posttranslational modification] 158189007109 intermolecular recognition site; other site 158189007110 dimerization interface [polypeptide binding]; other site 158189007111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189007112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189007113 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 158189007114 dimerization interface [polypeptide binding]; other site 158189007115 Histidine kinase; Region: His_kinase; pfam06580 158189007116 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 158189007117 ATP binding site [chemical binding]; other site 158189007118 Mg2+ binding site [ion binding]; other site 158189007119 G-X-G motif; other site 158189007120 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 158189007121 putative ligand binding site [chemical binding]; other site 158189007122 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 158189007123 DEAD-like helicases superfamily; Region: DEXDc; smart00487 158189007124 ATP binding site [chemical binding]; other site 158189007125 Mg++ binding site [ion binding]; other site 158189007126 motif III; other site 158189007127 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 158189007128 nucleotide binding region [chemical binding]; other site 158189007129 ATP-binding site [chemical binding]; other site 158189007130 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007131 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007132 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007133 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007134 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007135 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007136 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007137 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007138 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189007140 Helix-turn-helix domains; Region: HTH; cl00088 158189007141 Homeobox associated leucine zipper; Region: HALZ; cl02577 158189007142 putative transposase OrfB; Reviewed; Region: PHA02517 158189007143 Integrase core domain; Region: rve; cl01316 158189007144 sucrose phosphorylase; Provisional; Region: PRK13840 158189007145 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 158189007146 active site 158189007147 homodimer interface [polypeptide binding]; other site 158189007148 catalytic site [active] 158189007149 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189007150 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189007151 DNA binding site [nucleotide binding] 158189007152 domain linker motif; other site 158189007153 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189007154 ligand binding site [chemical binding]; other site 158189007155 dimerization interface [polypeptide binding]; other site 158189007156 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189007157 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 158189007158 dimer interface [polypeptide binding]; other site 158189007159 conserved gate region; other site 158189007160 putative PBP binding loops; other site 158189007161 ABC-ATPase subunit interface; other site 158189007162 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189007163 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 158189007164 dimer interface [polypeptide binding]; other site 158189007165 conserved gate region; other site 158189007166 putative PBP binding loops; other site 158189007167 ABC-ATPase subunit interface; other site 158189007168 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189007169 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 158189007170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189007171 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 158189007172 galactonate dehydratase; Provisional; Region: PRK14017 158189007173 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 158189007174 active site pocket [active] 158189007175 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 158189007176 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189007177 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189007178 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189007179 DctM-like transporters; Region: DctM; pfam06808 158189007180 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189007181 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 158189007182 classical (c) SDRs; Region: SDR_c; cd05233 158189007183 NAD(P) binding site [chemical binding]; other site 158189007184 active site 158189007185 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189007186 D-mannonate dehydratase (UxuA); Region: UxuA; pfam03786 158189007187 mannonate dehydratase; Region: uxuA; TIGR00695 158189007188 Cupin domain; Region: Cupin_2; cl09118 158189007189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189007190 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189007191 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189007192 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 158189007193 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 158189007194 putative active cleft [active] 158189007195 dimerization interface [polypeptide binding]; other site 158189007196 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; cd00229 158189007197 active site 158189007198 catalytic triad [active] 158189007199 oxyanion hole [active] 158189007200 Fic family protein [Function unknown]; Region: COG3177 158189007201 Fic/DOC family; Region: Fic; cl00960 158189007202 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 158189007203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189007204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189007205 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 158189007206 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 158189007207 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 158189007208 E3 interaction surface; other site 158189007209 lipoyl attachment site [posttranslational modification]; other site 158189007210 e3 binding domain; Region: E3_binding; pfam02817 158189007211 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 158189007212 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 158189007213 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 158189007214 dimer interface [polypeptide binding]; other site 158189007215 TPP-binding site [chemical binding]; other site 158189007216 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007217 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 158189007218 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 158189007219 non-specific DNA binding site [nucleotide binding]; other site 158189007220 salt bridge; other site 158189007221 sequence-specific DNA binding site [nucleotide binding]; other site 158189007222 Domain of unknown function (DUF955); Region: DUF955; cl01076 158189007223 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 158189007224 conserved cys residue [active] 158189007225 Predicted transcriptional regulator [Transcription]; Region: COG2378 158189007226 Helix-turn-helix domains; Region: HTH; cl00088 158189007227 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158189007228 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 158189007229 N- and C-terminal domain interface [polypeptide binding]; other site 158189007230 active site 158189007231 MgATP binding site [chemical binding]; other site 158189007232 catalytic site [active] 158189007233 metal binding site [ion binding]; metal-binding site 158189007234 carbohydrate binding site [chemical binding]; other site 158189007235 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 158189007236 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 158189007237 active site 158189007238 phosphorylation site [posttranslational modification] 158189007239 intermolecular recognition site; other site 158189007240 dimerization interface [polypeptide binding]; other site 158189007241 LytTr DNA-binding domain; Region: LytTR; cl04498 158189007242 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 158189007243 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 158189007244 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 158189007245 active site 158189007246 phosphorylation site [posttranslational modification] 158189007247 intermolecular recognition site; other site 158189007248 dimerization interface [polypeptide binding]; other site 158189007249 LytTr DNA-binding domain; Region: LytTR; cl04498 158189007250 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 158189007251 Helix-turn-helix domains; Region: HTH; cl00088 158189007252 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 158189007253 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189007254 Walker A/P-loop; other site 158189007255 ATP binding site [chemical binding]; other site 158189007256 Q-loop/lid; other site 158189007257 ABC transporter signature motif; other site 158189007258 Walker B; other site 158189007259 D-loop; other site 158189007260 H-loop/switch region; other site 158189007261 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189007262 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 158189007263 TM-ABC transporter signature motif; other site 158189007264 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 158189007265 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189007266 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189007267 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189007268 DNA binding site [nucleotide binding] 158189007269 domain linker motif; other site 158189007270 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189007271 dimerization interface [polypeptide binding]; other site 158189007272 ligand binding site [chemical binding]; other site 158189007273 Transposase; Region: HTH_Tnp_IS630; pfam01710 158189007274 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158189007275 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 158189007276 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189007277 Coenzyme A binding pocket [chemical binding]; other site 158189007278 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 158189007279 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189007280 metal binding site [ion binding]; metal-binding site 158189007281 substrate binding pocket [chemical binding]; other site 158189007282 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 158189007283 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 158189007284 Walker A/P-loop; other site 158189007285 ATP binding site [chemical binding]; other site 158189007286 Q-loop/lid; other site 158189007287 ABC transporter signature motif; other site 158189007288 Walker B; other site 158189007289 D-loop; other site 158189007290 H-loop/switch region; other site 158189007291 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158189007292 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 158189007293 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 158189007294 Walker A/P-loop; other site 158189007295 ATP binding site [chemical binding]; other site 158189007296 Q-loop/lid; other site 158189007297 ABC transporter signature motif; other site 158189007298 Walker B; other site 158189007299 D-loop; other site 158189007300 H-loop/switch region; other site 158189007301 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158189007302 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 158189007303 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 158189007304 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 158189007305 dimer interface [polypeptide binding]; other site 158189007306 conserved gate region; other site 158189007307 putative PBP binding loops; other site 158189007308 ABC-ATPase subunit interface; other site 158189007309 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 158189007310 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 158189007311 dimer interface [polypeptide binding]; other site 158189007312 conserved gate region; other site 158189007313 putative PBP binding loops; other site 158189007314 ABC-ATPase subunit interface; other site 158189007315 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 158189007316 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 158189007317 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 158189007318 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 158189007319 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 158189007320 putative active site [active] 158189007321 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 158189007322 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 158189007323 putative active site [active] 158189007324 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 158189007325 putative homodimer interface [polypeptide binding]; other site 158189007326 putative active site [active] 158189007327 catalytic site [active] 158189007328 DEAD-like helicases superfamily; Region: DEXDc; smart00487 158189007329 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 158189007330 ATP binding site [chemical binding]; other site 158189007331 putative Mg++ binding site [ion binding]; other site 158189007332 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 158189007333 nucleotide binding region [chemical binding]; other site 158189007334 ATP-binding site [chemical binding]; other site 158189007335 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 158189007336 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 158189007337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189007338 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 158189007339 DNA-binding site [nucleotide binding]; DNA binding site 158189007340 FCD domain; Region: FCD; cl11656 158189007341 Cupin domain; Region: Cupin_2; cl09118 158189007342 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189007343 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189007344 DctM-like transporters; Region: DctM; pfam06808 158189007345 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189007346 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189007347 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007348 metal binding site [ion binding]; metal-binding site 158189007349 active site 158189007350 I-site; other site 158189007351 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 158189007352 dimerization interface [polypeptide binding]; other site 158189007353 PAS domain S-box; Region: sensory_box; TIGR00229 158189007354 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 158189007355 putative active site [active] 158189007356 heme pocket [chemical binding]; other site 158189007357 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007358 metal binding site [ion binding]; metal-binding site 158189007359 active site 158189007360 I-site; other site 158189007361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189007362 Zn2+ binding site [ion binding]; other site 158189007363 Mg2+ binding site [ion binding]; other site 158189007364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189007365 Helix-turn-helix domains; Region: HTH; cl00088 158189007366 FMN-binding domain; Region: FMN_bind; cl01081 158189007367 TfoX N-terminal domain; Region: TfoX_N; cl01167 158189007368 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189007369 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189007370 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 158189007371 Aspartase; Region: Aspartase; cd01357 158189007372 active sites [active] 158189007373 tetramer interface [polypeptide binding]; other site 158189007374 Helix-turn-helix domains; Region: HTH; cl00088 158189007375 FMN-binding domain; Region: FMN_bind; cl01081 158189007376 ApbE family; Region: ApbE; cl00643 158189007377 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189007378 Helix-turn-helix domains; Region: HTH; cl00088 158189007379 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 158189007380 putative active site pocket [active] 158189007381 dimerization interface [polypeptide binding]; other site 158189007382 putative catalytic residue [active] 158189007383 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 158189007384 putative substrate binding pocket [chemical binding]; other site 158189007385 AC domain interface; other site 158189007386 catalytic triad [active] 158189007387 AB domain interface; other site 158189007388 interchain disulfide; other site 158189007389 Protein of unknown function (DUF979); Region: DUF979; cl01572 158189007390 Protein of unknown function (DUF969); Region: DUF969; cl01573 158189007391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007392 metal binding site [ion binding]; metal-binding site 158189007393 active site 158189007394 I-site; other site 158189007395 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 158189007396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189007397 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 158189007398 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 158189007399 active site 158189007400 phosphorylation site [posttranslational modification] 158189007401 intermolecular recognition site; other site 158189007402 dimerization interface [polypeptide binding]; other site 158189007403 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189007404 Zn2+ binding site [ion binding]; other site 158189007405 Mg2+ binding site [ion binding]; other site 158189007406 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 158189007407 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 158189007408 substrate binding pocket [chemical binding]; other site 158189007409 membrane-bound complex binding site; other site 158189007410 hinge residues; other site 158189007411 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 158189007412 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 158189007413 dimer interface [polypeptide binding]; other site 158189007414 phosphorylation site [posttranslational modification] 158189007415 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 158189007416 ATP binding site [chemical binding]; other site 158189007417 Mg2+ binding site [ion binding]; other site 158189007418 G-X-G motif; other site 158189007419 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 158189007420 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 158189007421 active site 158189007422 phosphorylation site [posttranslational modification] 158189007423 intermolecular recognition site; other site 158189007424 dimerization interface [polypeptide binding]; other site 158189007425 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 158189007426 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 158189007427 LCCL domain; Region: LCCL; cl02694 158189007428 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189007429 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189007430 DNA-binding site [nucleotide binding]; DNA binding site 158189007431 FCD domain; Region: FCD; cl11656 158189007432 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189007433 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189007434 DctM-like transporters; Region: DctM; pfam06808 158189007435 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189007436 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 158189007437 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 158189007438 DNA interaction; other site 158189007439 Metal-binding active site; metal-binding site 158189007440 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 158189007441 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 158189007442 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 158189007443 active site 158189007444 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 158189007445 Permease family; Region: Xan_ur_permease; cl00967 158189007446 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 158189007447 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 158189007448 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 158189007449 active site 158189007450 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 158189007451 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 158189007452 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 158189007453 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 158189007454 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 158189007455 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 158189007456 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 158189007457 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 158189007458 catalytic loop [active] 158189007459 iron binding site [ion binding]; other site 158189007460 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 158189007461 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 158189007462 metal-binding site [ion binding] 158189007463 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 158189007464 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 158189007465 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189007466 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 158189007467 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 158189007468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189007469 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 158189007470 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 158189007471 RNA/DNA binding site [nucleotide binding]; other site 158189007472 RRM dimerization site [polypeptide binding]; other site 158189007473 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 158189007474 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158189007475 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 158189007476 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189007477 Coenzyme A binding pocket [chemical binding]; other site 158189007478 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 158189007479 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158189007480 Coenzyme A binding pocket [chemical binding]; other site 158189007481 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158189007482 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 158189007483 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158189007484 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 158189007485 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 158189007486 FeS/SAM binding site; other site 158189007487 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 158189007488 tocopherol cyclase; Region: PLN02818 158189007489 Mechanosensitive ion channel; Region: MS_channel; pfam00924 158189007490 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 158189007491 OPT oligopeptide transporter protein; Region: OPT; cl14607 158189007492 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 158189007493 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 158189007494 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 158189007495 dimer interface [polypeptide binding]; other site 158189007496 phosphorylation site [posttranslational modification] 158189007497 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 158189007498 ATP binding site [chemical binding]; other site 158189007499 Mg2+ binding site [ion binding]; other site 158189007500 G-X-G motif; other site 158189007501 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189007502 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 158189007503 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 158189007504 active site 158189007505 phosphorylation site [posttranslational modification] 158189007506 intermolecular recognition site; other site 158189007507 dimerization interface [polypeptide binding]; other site 158189007508 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189007509 Zn2+ binding site [ion binding]; other site 158189007510 Mg2+ binding site [ion binding]; other site 158189007511 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 158189007512 S-adenosylmethionine binding site [chemical binding]; other site 158189007513 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 158189007514 TIGR02452 family protein; Region: TIGR02452 158189007515 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 158189007516 putative ADP-ribose binding site [chemical binding]; other site 158189007517 putative active site [active] 158189007518 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 158189007519 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 158189007520 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 158189007521 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 158189007522 Walker A/P-loop; other site 158189007523 ATP binding site [chemical binding]; other site 158189007524 Q-loop/lid; other site 158189007525 ABC transporter signature motif; other site 158189007526 Walker B; other site 158189007527 D-loop; other site 158189007528 H-loop/switch region; other site 158189007529 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 158189007530 dimer interface [polypeptide binding]; other site 158189007531 conserved gate region; other site 158189007532 putative PBP binding loops; other site 158189007533 ABC-ATPase subunit interface; other site 158189007534 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189007535 Predicted transcriptional regulator [Transcription]; Region: COG5340 158189007536 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 158189007537 Cupin domain; Region: Cupin_2; cl09118 158189007538 Permease family; Region: Xan_ur_permease; cl00967 158189007539 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 158189007540 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 158189007541 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 158189007542 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 158189007543 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 158189007544 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 158189007545 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 158189007546 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 158189007547 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189007548 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189007549 DNA-binding site [nucleotide binding]; DNA binding site 158189007550 FCD domain; Region: FCD; cl11656 158189007551 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 158189007552 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 158189007553 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 158189007554 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 158189007555 active site 158189007556 Putative cyclase; Region: Cyclase; cl00814 158189007557 membrane protein FdrA; Validated; Region: PRK06091 158189007558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189007559 CoA-ligase; Region: Ligase_CoA; pfam00549 158189007560 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 158189007561 RES domain; Region: RES; cl02411 158189007562 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 158189007563 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 158189007564 Uncharacterized conserved protein [Function unknown]; Region: COG3410 158189007565 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 158189007566 non-specific DNA binding site [nucleotide binding]; other site 158189007567 salt bridge; other site 158189007568 sequence-specific DNA binding site [nucleotide binding]; other site 158189007569 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 158189007570 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 158189007571 putative active site [active] 158189007572 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 158189007573 putative active site [active] 158189007574 ParB-like partition proteins; Region: parB_part; TIGR00180 158189007575 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 158189007576 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 158189007577 ATP binding site [chemical binding]; other site 158189007578 putative Mg++ binding site [ion binding]; other site 158189007579 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 158189007580 nucleotide binding region [chemical binding]; other site 158189007581 ATP-binding site [chemical binding]; other site 158189007582 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; cl12011 158189007583 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 158189007584 cofactor binding site; other site 158189007585 DNA binding site [nucleotide binding] 158189007586 substrate interaction site [chemical binding]; other site 158189007587 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; cl12011 158189007588 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 158189007589 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; cl00083 158189007590 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 158189007591 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 158189007592 diiron binding motif [ion binding]; other site 158189007593 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189007594 ligand binding site [chemical binding]; other site 158189007595 dimerization interface [polypeptide binding]; other site 158189007596 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189007597 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189007598 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189007599 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189007600 Predicted transcriptional regulator [Transcription]; Region: COG5340 158189007601 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 158189007602 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 158189007603 DNA binding residues [nucleotide binding] 158189007604 dimerization interface [polypeptide binding]; other site 158189007605 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 158189007606 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189007607 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 158189007608 non-specific DNA binding site [nucleotide binding]; other site 158189007609 salt bridge; other site 158189007610 sequence-specific DNA binding site [nucleotide binding]; other site 158189007611 Cupin domain; Region: Cupin_2; cl09118 158189007612 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 158189007613 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 158189007614 NAD(P) binding site [chemical binding]; other site 158189007615 LDH/MDH dimer interface [polypeptide binding]; other site 158189007616 substrate binding site [chemical binding]; other site 158189007617 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 158189007618 Response regulator receiver domain; Region: Response_reg; pfam00072 158189007619 active site 158189007620 phosphorylation site [posttranslational modification] 158189007621 intermolecular recognition site; other site 158189007622 dimerization interface [polypeptide binding]; other site 158189007623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189007624 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189007625 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189007626 Histidine kinase; Region: His_kinase; pfam06580 158189007627 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 158189007628 ATP binding site [chemical binding]; other site 158189007629 Mg2+ binding site [ion binding]; other site 158189007630 G-X-G motif; other site 158189007631 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189007632 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 158189007633 dimer interface [polypeptide binding]; other site 158189007634 conserved gate region; other site 158189007635 putative PBP binding loops; other site 158189007636 ABC-ATPase subunit interface; other site 158189007637 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 158189007638 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 158189007639 dimer interface [polypeptide binding]; other site 158189007640 conserved gate region; other site 158189007641 putative PBP binding loops; other site 158189007642 ABC-ATPase subunit interface; other site 158189007643 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189007644 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 158189007645 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 158189007646 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 158189007647 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 158189007648 Protein of unknown function (DUF523); Region: DUF523; cl00733 158189007649 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 158189007650 YibE/F-like protein; Region: YibE_F; cl02259 158189007651 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl12039 158189007652 dimer interface [polypeptide binding]; other site 158189007653 active site 158189007654 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189007655 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl12039 158189007656 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 158189007657 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 158189007658 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 158189007659 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 158189007660 active site 158189007661 catalytic residues [active] 158189007662 HflK protein; Region: hflK; TIGR01933 158189007663 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 158189007664 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 158189007665 Response regulator receiver domain; Region: Response_reg; pfam00072 158189007666 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 158189007667 active site 158189007668 phosphorylation site [posttranslational modification] 158189007669 intermolecular recognition site; other site 158189007670 dimerization interface [polypeptide binding]; other site 158189007671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189007672 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189007673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189007674 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 158189007675 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 158189007676 dimerization interface [polypeptide binding]; other site 158189007677 Histidine kinase; Region: His_kinase; pfam06580 158189007678 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 158189007679 ATP binding site [chemical binding]; other site 158189007680 Mg2+ binding site [ion binding]; other site 158189007681 G-X-G motif; other site 158189007682 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 158189007683 active site 158189007684 dimerization interface [polypeptide binding]; other site 158189007685 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 158189007686 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 158189007687 dimer interface [polypeptide binding]; other site 158189007688 conserved gate region; other site 158189007689 putative PBP binding loops; other site 158189007690 ABC-ATPase subunit interface; other site 158189007691 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189007692 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 158189007693 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 158189007694 dimer interface [polypeptide binding]; other site 158189007695 conserved gate region; other site 158189007696 putative PBP binding loops; other site 158189007697 ABC-ATPase subunit interface; other site 158189007698 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158189007699 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189007700 Walker A/P-loop; other site 158189007701 ATP binding site [chemical binding]; other site 158189007702 Q-loop/lid; other site 158189007703 ABC transporter signature motif; other site 158189007704 Walker B; other site 158189007705 D-loop; other site 158189007706 H-loop/switch region; other site 158189007707 TOBE domain; Region: TOBE_2; cl01440 158189007708 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 158189007709 hypothetical protein; Provisional; Region: PRK09272 158189007710 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007711 metal binding site [ion binding]; metal-binding site 158189007712 active site 158189007713 I-site; other site 158189007714 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 158189007715 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158189007716 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158189007717 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 158189007718 S-adenosylmethionine binding site [chemical binding]; other site 158189007719 transketolase; Reviewed; Region: PRK12753 158189007720 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 158189007721 TPP-binding site [chemical binding]; other site 158189007722 dimer interface [polypeptide binding]; other site 158189007723 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 158189007724 PYR/PP interface [polypeptide binding]; other site 158189007725 dimer interface [polypeptide binding]; other site 158189007726 TPP binding site [chemical binding]; other site 158189007727 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158189007728 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189007729 DNA-binding site [nucleotide binding]; DNA binding site 158189007730 FCD domain; Region: FCD; cl11656 158189007731 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 158189007732 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158189007733 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 158189007734 tartrate dehydrogenase; Provisional; Region: PRK08194 158189007735 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189007736 DctM-like transporters; Region: DctM; pfam06808 158189007737 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189007738 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189007739 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 158189007740 active site 158189007741 phosphorylation site [posttranslational modification] 158189007742 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 158189007743 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 158189007744 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 158189007745 active site 158189007746 catalytic triad [active] 158189007747 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 158189007748 active site 158189007749 phosphorylation site [posttranslational modification] 158189007750 intermolecular recognition site; other site 158189007751 dimerization interface [polypeptide binding]; other site 158189007752 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 158189007753 DNA binding residues [nucleotide binding] 158189007754 dimerization interface [polypeptide binding]; other site 158189007755 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 158189007756 Histidine kinase; Region: HisKA_3; pfam07730 158189007757 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 158189007758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189007759 Walker A/P-loop; other site 158189007760 ATP binding site [chemical binding]; other site 158189007761 Q-loop/lid; other site 158189007762 ABC transporter signature motif; other site 158189007763 Walker B; other site 158189007764 D-loop; other site 158189007765 H-loop/switch region; other site 158189007766 OsmC-like protein; Region: OsmC; cl00767 158189007767 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189007768 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007769 metal binding site [ion binding]; metal-binding site 158189007770 active site 158189007771 I-site; other site 158189007772 Response regulator receiver domain; Region: Response_reg; pfam00072 158189007773 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 158189007774 active site 158189007775 phosphorylation site [posttranslational modification] 158189007776 intermolecular recognition site; other site 158189007777 dimerization interface [polypeptide binding]; other site 158189007778 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 158189007779 DXD motif; other site 158189007780 Chitin synthase; Region: Chitin_synth_2; pfam03142 158189007781 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 158189007782 active site 158189007783 catalytic residues [active] 158189007784 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 158189007785 putative active site [active] 158189007786 putative metal binding site [ion binding]; other site 158189007787 Protein of unknown function (DUF422); Region: DUF422; cl00991 158189007788 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 158189007789 active site lid residues [active] 158189007790 substrate binding pocket [chemical binding]; other site 158189007791 catalytic residues [active] 158189007792 substrate-Mg2+ binding site; other site 158189007793 aspartate-rich region 1; other site 158189007794 aspartate-rich region 2; other site 158189007795 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 158189007796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189007797 Domain of unknown function (DUF386); Region: DUF386; cl01047 158189007798 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 158189007799 MatE; Region: MatE; cl10513 158189007800 MatE; Region: MatE; cl10513 158189007801 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 158189007802 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158189007803 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 158189007804 active site 158189007805 metal binding site [ion binding]; metal-binding site 158189007806 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 158189007807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189007808 SAF domain; Region: SAF; cl00555 158189007809 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 158189007810 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 158189007811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 158189007812 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189007813 Propionate catabolism activator; Region: PrpR_N; pfam06506 158189007814 sensory histidine kinase DcuS; Provisional; Region: PRK11086 158189007815 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 158189007816 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 158189007817 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 158189007818 Walker A motif; other site 158189007819 ATP binding site [chemical binding]; other site 158189007820 Walker B motif; other site 158189007821 arginine finger; other site 158189007822 Helix-turn-helix domains; Region: HTH; cl00088 158189007823 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 158189007824 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 158189007825 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 158189007826 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158189007827 DctM-like transporters; Region: DctM; pfam06808 158189007828 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 158189007829 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 158189007830 inhibitor site; inhibition site 158189007831 active site 158189007832 dimer interface [polypeptide binding]; other site 158189007833 catalytic residue [active] 158189007834 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 158189007835 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 158189007836 Transcriptional regulators [Transcription]; Region: FadR; COG2186 158189007837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189007838 DNA-binding site [nucleotide binding]; DNA binding site 158189007839 FCD domain; Region: FCD; cl11656 158189007840 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 158189007841 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 158189007842 B12 binding site [chemical binding]; other site 158189007843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007844 metal binding site [ion binding]; metal-binding site 158189007845 active site 158189007846 I-site; other site 158189007847 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 158189007848 DNA binding residues [nucleotide binding] 158189007849 dimer interface [polypeptide binding]; other site 158189007850 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 158189007851 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 158189007852 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 158189007853 Nitrogen regulatory protein P-II; Region: P-II; cl00412 158189007854 Protein of unknown function (DUF419); Region: DUF419; cl15265 158189007855 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158189007856 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 158189007857 active site 158189007858 catalytic tetrad [active] 158189007859 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 158189007860 peptidase T-like protein; Region: PepT-like; TIGR01883 158189007861 metal binding site [ion binding]; metal-binding site 158189007862 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 158189007863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189007864 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 158189007865 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 158189007866 active site 158189007867 catalytic site [active] 158189007868 substrate binding site [chemical binding]; other site 158189007869 HRDC domain; Region: HRDC; cl02578 158189007870 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 158189007871 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 158189007872 putative active site [active] 158189007873 metal binding site [ion binding]; metal-binding site 158189007874 Permease family; Region: Xan_ur_permease; cl00967 158189007875 Predicted transcriptional regulator [Transcription]; Region: COG2378 158189007876 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 158189007877 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 158189007878 active site 158189007879 substrate-binding site [chemical binding]; other site 158189007880 metal-binding site [ion binding] 158189007881 GTP binding site [chemical binding]; other site 158189007882 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 158189007883 ligand binding site [chemical binding]; other site 158189007884 flexible hinge region; other site 158189007885 Peptidase family U32; Region: Peptidase_U32; cl03113 158189007886 Collagenase; Region: DUF3656; pfam12392 158189007887 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 158189007888 nudix motif; other site 158189007889 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 158189007890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189007891 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 158189007892 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 158189007893 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 158189007894 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 158189007895 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 158189007896 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 158189007897 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189007898 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 158189007899 dimer interface [polypeptide binding]; other site 158189007900 conserved gate region; other site 158189007901 putative PBP binding loops; other site 158189007902 ABC-ATPase subunit interface; other site 158189007903 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 158189007904 dimer interface [polypeptide binding]; other site 158189007905 conserved gate region; other site 158189007906 putative PBP binding loops; other site 158189007907 ABC-ATPase subunit interface; other site 158189007908 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 158189007909 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 158189007910 NAD(P) binding site [chemical binding]; other site 158189007911 LDH/MDH dimer interface [polypeptide binding]; other site 158189007912 substrate binding site [chemical binding]; other site 158189007913 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189007914 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189007915 DNA binding site [nucleotide binding] 158189007916 domain linker motif; other site 158189007917 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189007918 dimerization interface [polypeptide binding]; other site 158189007919 ligand binding site [chemical binding]; other site 158189007920 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 158189007921 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 158189007922 substrate binding pocket [chemical binding]; other site 158189007923 membrane-bound complex binding site; other site 158189007924 hinge residues; other site 158189007925 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 158189007926 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 158189007927 dimer interface [polypeptide binding]; other site 158189007928 conserved gate region; other site 158189007929 putative PBP binding loops; other site 158189007930 ABC-ATPase subunit interface; other site 158189007931 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 158189007932 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 158189007933 Walker A/P-loop; other site 158189007934 ATP binding site [chemical binding]; other site 158189007935 Q-loop/lid; other site 158189007936 ABC transporter signature motif; other site 158189007937 Walker B; other site 158189007938 D-loop; other site 158189007939 H-loop/switch region; other site 158189007940 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007941 metal binding site [ion binding]; metal-binding site 158189007942 active site 158189007943 I-site; other site 158189007944 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 158189007945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 158189007946 Helix-turn-helix domains; Region: HTH; cl00088 158189007947 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 158189007948 dimerization interface [polypeptide binding]; other site 158189007949 EamA-like transporter family; Region: EamA; cl01037 158189007950 EamA-like transporter family; Region: EamA; cl01037 158189007951 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 158189007952 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 158189007953 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 158189007954 putative active site [active] 158189007955 heme pocket [chemical binding]; other site 158189007956 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 158189007957 putative active site [active] 158189007958 heme pocket [chemical binding]; other site 158189007959 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007960 metal binding site [ion binding]; metal-binding site 158189007961 active site 158189007962 I-site; other site 158189007963 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 158189007964 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 158189007965 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 158189007966 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189007967 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 158189007968 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 158189007969 MatE; Region: MatE; cl10513 158189007970 MatE; Region: MatE; cl10513 158189007971 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 158189007972 Protein of unknown function (DUF523); Region: DUF523; cl00733 158189007973 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189007974 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158189007975 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 158189007976 homodimer interaction site [polypeptide binding]; other site 158189007977 cofactor binding site; other site 158189007978 Creatinine amidohydrolase; Region: Creatininase; cl00618 158189007979 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007980 metal binding site [ion binding]; metal-binding site 158189007981 active site 158189007982 I-site; other site 158189007983 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 158189007984 active site 158189007985 LabA_like proteins; Region: LabA_like; cd06167 158189007986 putative metal binding site [ion binding]; other site 158189007987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189007988 metal binding site [ion binding]; metal-binding site 158189007989 active site 158189007990 I-site; other site 158189007991 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 158189007992 pyruvate kinase; Provisional; Region: PRK05826 158189007993 domain interfaces; other site 158189007994 active site 158189007995 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 158189007996 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 158189007997 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 158189007998 DNA binding residues [nucleotide binding] 158189007999 dimerization interface [polypeptide binding]; other site 158189008000 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 158189008001 metal binding site 2 [ion binding]; metal-binding site 158189008002 putative DNA binding helix; other site 158189008003 metal binding site 1 [ion binding]; metal-binding site 158189008004 dimer interface [polypeptide binding]; other site 158189008005 structural Zn2+ binding site [ion binding]; other site 158189008006 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 158189008007 ABC-ATPase subunit interface; other site 158189008008 dimer interface [polypeptide binding]; other site 158189008009 putative PBP binding regions; other site 158189008010 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 158189008011 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 158189008012 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 158189008013 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 158189008014 intersubunit interface [polypeptide binding]; other site 158189008015 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 158189008016 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 158189008017 trimer interface [polypeptide binding]; other site 158189008018 putative metal binding site [ion binding]; other site 158189008019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189008020 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 158189008021 Cation transport protein; Region: TrkH; cl10514 158189008022 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 158189008023 Ferritin-like domain; Region: Ferritin; pfam00210 158189008024 ferroxidase diiron center [ion binding]; other site 158189008025 Pirin-related protein [General function prediction only]; Region: COG1741 158189008026 Cupin domain; Region: Cupin_2; cl09118 158189008027 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 158189008028 Predicted transcriptional regulators [Transcription]; Region: COG1725 158189008029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189008030 DNA-binding site [nucleotide binding]; DNA binding site 158189008031 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 158189008032 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158189008033 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 158189008034 Walker A/P-loop; other site 158189008035 ATP binding site [chemical binding]; other site 158189008036 Q-loop/lid; other site 158189008037 ABC transporter signature motif; other site 158189008038 Walker B; other site 158189008039 D-loop; other site 158189008040 H-loop/switch region; other site 158189008041 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 158189008042 FtsX-like permease family; Region: FtsX; pfam02687 158189008043 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 158189008044 FtsX-like permease family; Region: FtsX; pfam02687 158189008045 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 158189008046 4Fe-4S binding domain; Region: Fer4; cl02805 158189008047 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 158189008048 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 158189008049 ligand binding site [chemical binding]; other site 158189008050 flexible hinge region; other site 158189008051 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 158189008052 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 158189008053 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 158189008054 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 158189008055 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 158189008056 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 158189008057 active site 158189008058 metal binding site [ion binding]; metal-binding site 158189008059 homotetramer interface [polypeptide binding]; other site 158189008060 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 158189008061 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 158189008062 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 158189008063 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 158189008064 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 158189008065 active site 158189008066 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 158189008067 trimerization site [polypeptide binding]; other site 158189008068 active site 158189008069 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 158189008070 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 158189008071 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 158189008072 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158189008073 catalytic residue [active] 158189008074 Flagellin N-methylase; Region: FliB; cl00497 158189008075 Survival protein SurE; Region: SurE; cl00448 158189008076 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 158189008077 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 158189008078 transcription termination factor Rho; Provisional; Region: rho; PRK09376 158189008079 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 158189008080 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 158189008081 RNA binding site [nucleotide binding]; other site 158189008082 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 158189008083 multimer interface [polypeptide binding]; other site 158189008084 Walker A motif; other site 158189008085 ATP binding site [chemical binding]; other site 158189008086 Walker B motif; other site 158189008087 competence damage-inducible protein A; Provisional; Region: PRK00549 158189008088 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 158189008089 putative MPT binding site; other site 158189008090 Competence-damaged protein; Region: CinA; cl00666 158189008091 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 158189008092 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 158189008093 putative active site [active] 158189008094 catalytic triad [active] 158189008095 putative dimer interface [polypeptide binding]; other site 158189008096 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 158189008097 IHF - DNA interface [nucleotide binding]; other site 158189008098 IHF dimer interface [polypeptide binding]; other site 158189008099 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 158189008100 PSP1 C-terminal conserved region; Region: PSP1; cl00770 158189008101 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 158189008102 active site 158189008103 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 158189008104 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 158189008105 FMN binding site [chemical binding]; other site 158189008106 active site 158189008107 catalytic residues [active] 158189008108 substrate binding site [chemical binding]; other site 158189008109 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 158189008110 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 158189008111 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158189008112 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 158189008113 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189008114 metal binding site [ion binding]; metal-binding site 158189008115 active site 158189008116 I-site; other site 158189008117 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 158189008118 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 158189008119 TM-ABC transporter signature motif; other site 158189008120 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 158189008121 TM-ABC transporter signature motif; other site 158189008122 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 158189008123 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189008124 Walker A/P-loop; other site 158189008125 ATP binding site [chemical binding]; other site 158189008126 Q-loop/lid; other site 158189008127 ABC transporter signature motif; other site 158189008128 Walker B; other site 158189008129 D-loop; other site 158189008130 H-loop/switch region; other site 158189008131 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189008132 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158189008133 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 158189008134 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 158189008135 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 158189008136 chaperone protein DnaJ; Provisional; Region: PRK10767 158189008137 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 158189008138 HSP70 interaction site [polypeptide binding]; other site 158189008139 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 158189008140 substrate binding site [polypeptide binding]; other site 158189008141 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 158189008142 Zn binding sites [ion binding]; other site 158189008143 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 158189008144 dimer interface [polypeptide binding]; other site 158189008145 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 158189008146 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 158189008147 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 158189008148 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 158189008149 dimer interface [polypeptide binding]; other site 158189008150 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 158189008151 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 158189008152 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 158189008153 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 158189008154 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 158189008155 motif II; other site 158189008156 GTP-binding protein Der; Reviewed; Region: PRK00093 158189008157 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 158189008158 G1 box; other site 158189008159 GTP/Mg2+ binding site [chemical binding]; other site 158189008160 Switch I region; other site 158189008161 G2 box; other site 158189008162 Switch II region; other site 158189008163 G3 box; other site 158189008164 G4 box; other site 158189008165 G5 box; other site 158189008166 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 158189008167 G1 box; other site 158189008168 GTP/Mg2+ binding site [chemical binding]; other site 158189008169 Switch I region; other site 158189008170 G2 box; other site 158189008171 G3 box; other site 158189008172 Switch II region; other site 158189008173 G4 box; other site 158189008174 G5 box; other site 158189008175 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 158189008176 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 158189008177 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 158189008178 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 158189008179 Sporulation and spore germination; Region: Germane; cl11253 158189008180 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 158189008181 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; cl12011 158189008182 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 158189008183 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 158189008184 putative active site [active] 158189008185 metal binding site [ion binding]; metal-binding site 158189008186 homodimer binding site [polypeptide binding]; other site 158189008187 phosphodiesterase; Provisional; Region: PRK12704 158189008188 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158189008189 Zn2+ binding site [ion binding]; other site 158189008190 Mg2+ binding site [ion binding]; other site 158189008191 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 158189008192 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 158189008193 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 158189008194 alphaNTD - beta interaction site [polypeptide binding]; other site 158189008195 alphaNTD homodimer interface [polypeptide binding]; other site 158189008196 alphaNTD - beta' interaction site [polypeptide binding]; other site 158189008197 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 158189008198 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 158189008199 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 158189008200 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 158189008201 RNA binding surface [nucleotide binding]; other site 158189008202 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 158189008203 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 158189008204 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 158189008205 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 158189008206 SecY translocase; Region: SecY; pfam00344 158189008207 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 158189008208 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 158189008209 23S rRNA binding site [nucleotide binding]; other site 158189008210 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 158189008211 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 158189008212 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 158189008213 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 158189008214 23S rRNA interface [nucleotide binding]; other site 158189008215 L21e interface [polypeptide binding]; other site 158189008216 5S rRNA interface [nucleotide binding]; other site 158189008217 L27 interface [polypeptide binding]; other site 158189008218 L5 interface [polypeptide binding]; other site 158189008219 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 158189008220 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 158189008221 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 158189008222 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 158189008223 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 158189008224 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 158189008225 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 158189008226 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 158189008227 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 158189008228 KOW motif; Region: KOW; cl00354 158189008229 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 158189008230 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 158189008231 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 158189008232 putative translocon interaction site; other site 158189008233 signal recognition particle (SRP54) interaction site; other site 158189008234 L23 interface [polypeptide binding]; other site 158189008235 trigger factor interaction site; other site 158189008236 23S rRNA interface [nucleotide binding]; other site 158189008237 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 158189008238 23S rRNA interface [nucleotide binding]; other site 158189008239 5S rRNA interface [nucleotide binding]; other site 158189008240 putative antibiotic binding site [chemical binding]; other site 158189008241 L25 interface [polypeptide binding]; other site 158189008242 L27 interface [polypeptide binding]; other site 158189008243 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 158189008244 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 158189008245 G-X-X-G motif; other site 158189008246 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 158189008247 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 158189008248 putative translocon binding site; other site 158189008249 protein-rRNA interface [nucleotide binding]; other site 158189008250 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 158189008251 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 158189008252 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 158189008253 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 158189008254 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 158189008255 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 158189008256 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 158189008257 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 158189008258 elongation factor Tu; Reviewed; Region: PRK00049 158189008259 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 158189008260 G1 box; other site 158189008261 GEF interaction site [polypeptide binding]; other site 158189008262 GTP/Mg2+ binding site [chemical binding]; other site 158189008263 Switch I region; other site 158189008264 G2 box; other site 158189008265 G3 box; other site 158189008266 Switch II region; other site 158189008267 G4 box; other site 158189008268 G5 box; other site 158189008269 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 158189008270 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 158189008271 Antibiotic Binding Site [chemical binding]; other site 158189008272 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 158189008273 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 158189008274 S17 interaction site [polypeptide binding]; other site 158189008275 S8 interaction site; other site 158189008276 16S rRNA interaction site [nucleotide binding]; other site 158189008277 streptomycin interaction site [chemical binding]; other site 158189008278 23S rRNA interaction site [nucleotide binding]; other site 158189008279 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 158189008280 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 158189008281 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 158189008282 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 158189008283 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 158189008284 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 158189008285 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 158189008286 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 158189008287 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 158189008288 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 158189008289 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 158189008290 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 158189008291 DNA binding site [nucleotide binding] 158189008292 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 158189008293 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 158189008294 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 158189008295 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 158189008296 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 158189008297 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 158189008298 RPB1 interaction site [polypeptide binding]; other site 158189008299 RPB10 interaction site [polypeptide binding]; other site 158189008300 RPB11 interaction site [polypeptide binding]; other site 158189008301 RPB3 interaction site [polypeptide binding]; other site 158189008302 RPB12 interaction site [polypeptide binding]; other site 158189008303 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 158189008304 core dimer interface [polypeptide binding]; other site 158189008305 peripheral dimer interface [polypeptide binding]; other site 158189008306 L10 interface [polypeptide binding]; other site 158189008307 L11 interface [polypeptide binding]; other site 158189008308 putative EF-Tu interaction site [polypeptide binding]; other site 158189008309 putative EF-G interaction site [polypeptide binding]; other site 158189008310 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 158189008311 23S rRNA interface [nucleotide binding]; other site 158189008312 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 158189008313 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 158189008314 mRNA/rRNA interface [nucleotide binding]; other site 158189008315 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 158189008316 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 158189008317 23S rRNA interface [nucleotide binding]; other site 158189008318 L7/L12 interface [polypeptide binding]; other site 158189008319 putative thiostrepton binding site; other site 158189008320 L25 interface [polypeptide binding]; other site 158189008321 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 158189008322 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 158189008323 putative homodimer interface [polypeptide binding]; other site 158189008324 KOW motif; Region: KOW; cl00354 158189008325 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 158189008326 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 158189008327 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 158189008328 homodimer interface [polypeptide binding]; other site 158189008329 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 158189008330 active site pocket [active] 158189008331 Helix-turn-helix domains; Region: HTH; cl00088 158189008332 Protein of unknown function (DUF554); Region: DUF554; cl00784 158189008333 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 158189008334 Ligand binding site; other site 158189008335 metal-binding site 158189008336 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 158189008337 Clp amino terminal domain; Region: Clp_N; pfam02861 158189008338 Clp amino terminal domain; Region: Clp_N; pfam02861 158189008339 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 158189008340 Walker A motif; other site 158189008341 ATP binding site [chemical binding]; other site 158189008342 Walker B motif; other site 158189008343 arginine finger; other site 158189008344 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 158189008345 Walker A motif; other site 158189008346 ATP binding site [chemical binding]; other site 158189008347 Walker B motif; other site 158189008348 arginine finger; other site 158189008349 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 158189008350 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158189008351 Helix-turn-helix domains; Region: HTH; cl00088 158189008352 hypothetical protein; Provisional; Region: PRK08262 158189008353 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 158189008354 metal binding site [ion binding]; metal-binding site 158189008355 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 158189008356 putative dimer interface [polypeptide binding]; other site 158189008357 ornithine carbamoyltransferase; Validated; Region: PRK02102 158189008358 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 158189008359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189008360 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 158189008361 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 158189008362 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189008363 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 158189008364 ABC-ATPase subunit interface; other site 158189008365 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 158189008366 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 158189008367 Walker A/P-loop; other site 158189008368 ATP binding site [chemical binding]; other site 158189008369 Q-loop/lid; other site 158189008370 ABC transporter signature motif; other site 158189008371 Walker B; other site 158189008372 D-loop; other site 158189008373 H-loop/switch region; other site 158189008374 NIL domain; Region: NIL; cl09633 158189008375 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 158189008376 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 158189008377 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 158189008378 putative substrate translocation pore; other site 158189008379 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 158189008380 intersubunit interface [polypeptide binding]; other site 158189008381 active site 158189008382 catalytic residue [active] 158189008383 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 158189008384 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189008385 active site 158189008386 motif I; other site 158189008387 motif II; other site 158189008388 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 158189008389 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 158189008390 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 158189008391 Zn binding site [ion binding]; other site 158189008392 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 158189008393 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 158189008394 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 158189008395 active site 158189008396 dimer interface [polypeptide binding]; other site 158189008397 motif 1; other site 158189008398 motif 2; other site 158189008399 motif 3; other site 158189008400 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 158189008401 anticodon binding site; other site 158189008402 GAF domain; Region: GAF; cl00853 158189008403 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 158189008404 4Fe-4S binding domain; Region: Fer4; cl02805 158189008405 4Fe-4S binding domain; Region: Fer4; cl02805 158189008406 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 158189008407 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 158189008408 putative dimer interface [polypeptide binding]; other site 158189008409 [2Fe-2S] cluster binding site [ion binding]; other site 158189008410 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 158189008411 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 158189008412 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 158189008413 4Fe-4S binding domain; Region: Fer4; cl02805 158189008414 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 158189008415 Putative Fe-S cluster; Region: FeS; pfam04060 158189008416 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 158189008417 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 158189008418 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 158189008419 dimer interface [polypeptide binding]; other site 158189008420 [2Fe-2S] cluster binding site [ion binding]; other site 158189008421 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 158189008422 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 158189008423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189008424 LytB protein; Region: LYTB; cl00507 158189008425 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 158189008426 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 158189008427 Protein export membrane protein; Region: SecD_SecF; cl14618 158189008428 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 158189008429 Protein export membrane protein; Region: SecD_SecF; cl14618 158189008430 Preprotein translocase subunit; Region: YajC; cl00806 158189008431 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 158189008432 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 158189008433 ring oligomerisation interface [polypeptide binding]; other site 158189008434 ATP/Mg binding site [chemical binding]; other site 158189008435 stacking interactions; other site 158189008436 hinge regions; other site 158189008437 Integral membrane protein DUF92; Region: DUF92; cl00793 158189008438 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 158189008439 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 158189008440 RNA/DNA binding site [nucleotide binding]; other site 158189008441 RRM dimerization site [polypeptide binding]; other site 158189008442 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 158189008443 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 158189008444 Phosphatidylinositol N-acetylglucosaminyltransferase; Region: GPI2; pfam06432 158189008445 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 158189008446 LemA family; Region: LemA; cl00742 158189008447 Arginine repressor [Transcription]; Region: ArgR; COG1438 158189008448 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 158189008449 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 158189008450 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 158189008451 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 158189008452 active site 158189008453 dimer interface [polypeptide binding]; other site 158189008454 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 158189008455 dimer interface [polypeptide binding]; other site 158189008456 active site 158189008457 Transcriptional regulators [Transcription]; Region: MarR; COG1846 158189008458 Helix-turn-helix domains; Region: HTH; cl00088 158189008459 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 158189008460 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 158189008461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189008462 Walker A/P-loop; other site 158189008463 ATP binding site [chemical binding]; other site 158189008464 Q-loop/lid; other site 158189008465 ABC transporter signature motif; other site 158189008466 Walker B; other site 158189008467 D-loop; other site 158189008468 H-loop/switch region; other site 158189008469 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 158189008470 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 158189008471 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 158189008472 Walker A/P-loop; other site 158189008473 ATP binding site [chemical binding]; other site 158189008474 Q-loop/lid; other site 158189008475 ABC transporter signature motif; other site 158189008476 Walker B; other site 158189008477 D-loop; other site 158189008478 H-loop/switch region; other site 158189008479 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 158189008480 EamA-like transporter family; Region: EamA; cl01037 158189008481 EamA-like transporter family; Region: EamA; cl01037 158189008482 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 158189008483 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158189008484 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 158189008485 6-phosphofructokinase; Provisional; Region: PRK03202 158189008486 active site 158189008487 ADP/pyrophosphate binding site [chemical binding]; other site 158189008488 dimerization interface [polypeptide binding]; other site 158189008489 allosteric effector site; other site 158189008490 fructose-1,6-bisphosphate binding site; other site 158189008491 Helix-turn-helix domains; Region: HTH; cl00088 158189008492 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 158189008493 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 158189008494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158189008495 homodimer interface [polypeptide binding]; other site 158189008496 catalytic residue [active] 158189008497 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 158189008498 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 158189008499 nucleotide binding pocket [chemical binding]; other site 158189008500 K-X-D-G motif; other site 158189008501 catalytic site [active] 158189008502 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 158189008503 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 158189008504 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 158189008505 Dimer interface [polypeptide binding]; other site 158189008506 BRCT sequence motif; other site 158189008507 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 158189008508 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 158189008509 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 158189008510 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 158189008511 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 158189008512 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 158189008513 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 158189008514 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 158189008515 generic binding surface I; other site 158189008516 generic binding surface II; other site 158189008517 YGGT family; Region: YGGT; cl00508 158189008518 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 158189008519 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 158189008520 ssDNA binding site; other site 158189008521 generic binding surface II; other site 158189008522 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 158189008523 ATP binding site [chemical binding]; other site 158189008524 putative Mg++ binding site [ion binding]; other site 158189008525 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 158189008526 nucleotide binding region [chemical binding]; other site 158189008527 ATP-binding site [chemical binding]; other site 158189008528 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 158189008529 S-adenosylmethionine binding site [chemical binding]; other site 158189008530 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 158189008531 active site 158189008532 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 158189008533 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 158189008534 lipoprotein signal peptidase; Provisional; Region: PRK14787 158189008535 Uncharacterized conserved protein [Function unknown]; Region: COG0327 158189008536 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 158189008537 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 158189008538 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 158189008539 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 158189008540 MatE; Region: MatE; cl10513 158189008541 MatE; Region: MatE; cl10513 158189008542 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 158189008543 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 158189008544 phage shock protein A; Region: phageshock_pspA; TIGR02977 158189008545 phage shock protein C; Region: phageshock_pspC; TIGR02978 158189008546 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 158189008547 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 158189008548 Walker A motif; other site 158189008549 ATP binding site [chemical binding]; other site 158189008550 Walker B motif; other site 158189008551 arginine finger; other site 158189008552 Helix-turn-helix domains; Region: HTH; cl00088 158189008553 phage shock protein A; Region: phageshock_pspA; TIGR02977 158189008554 PspC domain; Region: PspC; cl00864 158189008555 phage shock protein C; Region: phageshock_pspC; TIGR02978 158189008556 Uncharacterized conserved protein [Function unknown]; Region: COG3595 158189008557 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 158189008558 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 158189008559 adaptive-response sensory kinase; Validated; Region: PRK09303 158189008560 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 158189008561 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 158189008562 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158189008563 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 158189008564 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158189008565 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 158189008566 IMP binding site; other site 158189008567 dimer interface [polypeptide binding]; other site 158189008568 interdomain contacts; other site 158189008569 partial ornithine binding site; other site 158189008570 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 158189008571 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 158189008572 dimer interface [polypeptide binding]; other site 158189008573 anticodon binding site; other site 158189008574 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 158189008575 homodimer interface [polypeptide binding]; other site 158189008576 motif 1; other site 158189008577 active site 158189008578 motif 2; other site 158189008579 GAD domain; Region: GAD; pfam02938 158189008580 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 158189008581 motif 3; other site 158189008582 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 158189008583 Cation efflux family; Region: Cation_efflux; cl00316 158189008584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189008585 metal binding site [ion binding]; metal-binding site 158189008586 active site 158189008587 I-site; other site 158189008588 OsmC-like protein; Region: OsmC; cl00767 158189008589 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 158189008590 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 158189008591 intersubunit interface [polypeptide binding]; other site 158189008592 active site 158189008593 Zn2+ binding site [ion binding]; other site 158189008594 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158189008595 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158189008596 DNA binding site [nucleotide binding] 158189008597 domain linker motif; other site 158189008598 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189008599 dimerization interface [polypeptide binding]; other site 158189008600 ligand binding site [chemical binding]; other site 158189008601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 158189008602 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189008603 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 158189008604 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189008605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189008606 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189008607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189008608 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158189008609 prolyl-tRNA synthetase; Provisional; Region: PRK09194 158189008610 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 158189008611 dimer interface [polypeptide binding]; other site 158189008612 motif 1; other site 158189008613 active site 158189008614 motif 2; other site 158189008615 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 158189008616 putative deacylase active site [active] 158189008617 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 158189008618 active site 158189008619 motif 3; other site 158189008620 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 158189008621 anticodon binding site; other site 158189008622 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 158189008623 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 158189008624 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 158189008625 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 158189008626 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 158189008627 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 158189008628 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 158189008629 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 158189008630 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 158189008631 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 158189008632 active site 158189008633 purine riboside binding site [chemical binding]; other site 158189008634 Rhomboid family; Region: Rhomboid; cl11446 158189008635 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 158189008636 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; cl12011 158189008637 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 158189008638 Domain of unknown function (DUF1893); Region: DUF1893; pfam08973 158189008639 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 158189008640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189008641 Walker A/P-loop; other site 158189008642 ATP binding site [chemical binding]; other site 158189008643 Q-loop/lid; other site 158189008644 ABC transporter signature motif; other site 158189008645 Walker B; other site 158189008646 D-loop; other site 158189008647 H-loop/switch region; other site 158189008648 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 158189008649 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 158189008650 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 158189008651 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 158189008652 DNA interaction; other site 158189008653 Metal-binding active site; metal-binding site 158189008654 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 158189008655 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 158189008656 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 158189008657 active site 158189008658 NAD binding site [chemical binding]; other site 158189008659 metal binding site [ion binding]; metal-binding site 158189008660 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 158189008661 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 158189008662 PYR/PP interface [polypeptide binding]; other site 158189008663 dimer interface [polypeptide binding]; other site 158189008664 TPP binding site [chemical binding]; other site 158189008665 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158189008666 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 158189008667 TPP-binding site [chemical binding]; other site 158189008668 dimer interface [polypeptide binding]; other site 158189008669 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 158189008670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189008671 DNA-binding site [nucleotide binding]; DNA binding site 158189008672 FCD domain; Region: FCD; cl11656 158189008673 Uncharacterized conserved protein [Function unknown]; Region: COG2006 158189008674 Domain of unknown function (DUF362); Region: DUF362; pfam04015 158189008675 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158189008676 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 158189008677 active site 158189008678 catalytic tetrad [active] 158189008679 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 158189008680 Metal-binding active site; metal-binding site 158189008681 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 158189008682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 158189008683 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158189008684 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 158189008685 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 158189008686 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 158189008687 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 158189008688 Propionate catabolism activator; Region: PrpR_N; pfam06506 158189008689 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 158189008690 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 158189008691 Walker B motif; other site 158189008692 arginine finger; other site 158189008693 Mechanosensitive ion channel; Region: MS_channel; pfam00924 158189008694 heat shock protein 90; Provisional; Region: PRK05218 158189008695 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 158189008696 ATP binding site [chemical binding]; other site 158189008697 Mg2+ binding site [ion binding]; other site 158189008698 G-X-G motif; other site 158189008699 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 158189008700 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158189008701 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158189008702 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189008703 DNA-binding site [nucleotide binding]; DNA binding site 158189008704 FCD domain; Region: FCD; cl11656 158189008705 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158189008706 DNA-binding site [nucleotide binding]; DNA binding site 158189008707 FCD domain; Region: FCD; cl11656 158189008708 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 158189008709 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189008710 Walker A/P-loop; other site 158189008711 ATP binding site [chemical binding]; other site 158189008712 Q-loop/lid; other site 158189008713 ABC transporter signature motif; other site 158189008714 Walker B; other site 158189008715 D-loop; other site 158189008716 H-loop/switch region; other site 158189008717 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189008718 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 158189008719 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 158189008720 putative active site [active] 158189008721 putative metal binding site [ion binding]; other site 158189008722 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 158189008723 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 158189008724 classical (c) SDRs; Region: SDR_c; cd05233 158189008725 NAD(P) binding site [chemical binding]; other site 158189008726 active site 158189008727 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 158189008728 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158189008729 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189008730 TM-ABC transporter signature motif; other site 158189008731 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 158189008732 TM-ABC transporter signature motif; other site 158189008733 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 158189008734 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 158189008735 Walker A/P-loop; other site 158189008736 ATP binding site [chemical binding]; other site 158189008737 Q-loop/lid; other site 158189008738 ABC transporter signature motif; other site 158189008739 Walker B; other site 158189008740 D-loop; other site 158189008741 H-loop/switch region; other site 158189008742 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 158189008743 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 158189008744 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 158189008745 ligand binding site [chemical binding]; other site 158189008746 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 158189008747 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 158189008748 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 158189008749 dimer interface [polypeptide binding]; other site 158189008750 conserved gate region; other site 158189008751 putative PBP binding loops; other site 158189008752 ABC-ATPase subunit interface; other site 158189008753 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 158189008754 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 158189008755 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 158189008756 Helix-turn-helix domains; Region: HTH; cl00088 158189008757 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 158189008758 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158189008759 ligand binding site [chemical binding]; other site 158189008760 dimerization interface [polypeptide binding]; other site 158189008761 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158189008762 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158189008763 Membrane transport protein; Region: Mem_trans; cl09117 158189008764 bile acid transporter; Region: bass; TIGR00841 158189008765 altronate oxidoreductase; Provisional; Region: PRK03643 158189008766 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 158189008767 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 158189008768 SAF domain; Region: SAF; cl00555 158189008769 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 158189008770 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 158189008771 Glucuronate isomerase; Region: UxaC; cl00829 158189008772 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 158189008773 Helix-turn-helix domains; Region: HTH; cl00088 158189008774 Bacterial transcriptional regulator; Region: IclR; pfam01614 158189008775 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158189008776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158189008777 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158189008778 Cupin domain; Region: Cupin_2; cl09118 158189008779 Membrane transport protein; Region: Mem_trans; cl09117 158189008780 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 158189008781 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 158189008782 putative acyl-acceptor binding pocket; other site 158189008783 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 158189008784 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 158189008785 diiron binding motif [ion binding]; other site 158189008786 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 158189008787 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 158189008788 substrate binding site [chemical binding]; other site 158189008789 ATP binding site [chemical binding]; other site 158189008790 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 158189008791 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 158189008792 active site 158189008793 intersubunit interface [polypeptide binding]; other site 158189008794 catalytic residue [active] 158189008795 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189008796 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158189008797 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 158189008798 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 158189008799 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 158189008800 dimer interface [polypeptide binding]; other site 158189008801 conserved gate region; other site 158189008802 putative PBP binding loops; other site 158189008803 ABC-ATPase subunit interface; other site 158189008804 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 158189008805 dimer interface [polypeptide binding]; other site 158189008806 conserved gate region; other site 158189008807 putative PBP binding loops; other site 158189008808 ABC-ATPase subunit interface; other site 158189008809 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158189008810 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189008811 Walker A/P-loop; other site 158189008812 ATP binding site [chemical binding]; other site 158189008813 Q-loop/lid; other site 158189008814 ABC transporter signature motif; other site 158189008815 Walker B; other site 158189008816 D-loop; other site 158189008817 H-loop/switch region; other site 158189008818 TOBE domain; Region: TOBE_2; cl01440 158189008819 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 158189008820 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 158189008821 Metal-binding active site; metal-binding site 158189008822 Thymidine kinase; Region: TK; cl00631 158189008823 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 158189008824 intersubunit interface [polypeptide binding]; other site 158189008825 active site 158189008826 catalytic residue [active] 158189008827 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 158189008828 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 158189008829 Zn binding site [ion binding]; other site 158189008830 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 158189008831 putative active site [active] 158189008832 nucleotide binding site [chemical binding]; other site 158189008833 nudix motif; other site 158189008834 putative metal binding site [ion binding]; other site 158189008835 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 158189008836 active site 158189008837 catalytic tetrad [active] 158189008838 Uncharacterized conserved protein [Function unknown]; Region: COG1739 158189008839 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 158189008840 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 158189008841 metal binding site [ion binding]; metal-binding site 158189008842 PAS fold; Region: PAS; pfam00989 158189008843 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 158189008844 putative active site [active] 158189008845 heme pocket [chemical binding]; other site 158189008846 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158189008847 metal binding site [ion binding]; metal-binding site 158189008848 active site 158189008849 I-site; other site 158189008850 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 158189008851 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 158189008852 Walker A motif; other site 158189008853 ATP binding site [chemical binding]; other site 158189008854 Walker B motif; other site 158189008855 arginine finger; other site 158189008856 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 158189008857 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 158189008858 recombination protein RecR; Reviewed; Region: recR; PRK00076 158189008859 RecR protein; Region: RecR; pfam02132 158189008860 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 158189008861 putative active site [active] 158189008862 putative metal-binding site [ion binding]; other site 158189008863 tetramer interface [polypeptide binding]; other site 158189008864 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 158189008865 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 158189008866 putative metal binding site [ion binding]; other site 158189008867 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 158189008868 HSP70 interaction site [polypeptide binding]; other site 158189008869 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 158189008870 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 158189008871 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 158189008872 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 158189008873 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 158189008874 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 158189008875 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 158189008876 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 158189008877 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 158189008878 active site 158189008879 dimer interface [polypeptide binding]; other site 158189008880 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 158189008881 metal binding site [ion binding]; metal-binding site 158189008882 dimer interface [polypeptide binding]; other site 158189008883 Peptidase C26; Region: Peptidase_C26; pfam07722 158189008884 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 158189008885 catalytic triad [active] 158189008886 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 158189008887 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158189008888 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158189008889 Protein of unknown function DUF45; Region: DUF45; cl00636 158189008890 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 158189008891 TraB family; Region: TraB; cl12050 158189008892 DNA repair protein RadA; Provisional; Region: PRK11823 158189008893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158189008894 Walker A motif; other site 158189008895 ATP binding site [chemical binding]; other site 158189008896 Walker B motif; other site 158189008897 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 158189008898 active site 158189008899 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 158189008900 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 158189008901 ParB-like nuclease domain; Region: ParBc; cl02129 158189008902 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 158189008903 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 158189008904 P-loop; other site 158189008905 Magnesium ion binding site [ion binding]; other site 158189008906 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 158189008907 Magnesium ion binding site [ion binding]; other site 158189008908 NifU-like domain; Region: NifU; cl00484 158189008909 DNA gyrase subunit A; Validated; Region: PRK05560 158189008910 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 158189008911 CAP-like domain; other site 158189008912 active site 158189008913 primary dimer interface [polypeptide binding]; other site 158189008914 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158189008915 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158189008916 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158189008917 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158189008918 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158189008919 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158189008920 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 158189008921 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 158189008922 ATP binding site [chemical binding]; other site 158189008923 Mg2+ binding site [ion binding]; other site 158189008924 G-X-G motif; other site 158189008925 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 158189008926 anchoring element; other site 158189008927 dimer interface [polypeptide binding]; other site 158189008928 ATP binding site [chemical binding]; other site 158189008929 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 158189008930 active site 158189008931 putative metal-binding site [ion binding]; other site 158189008932 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986