-- dump date 20120504_132333 -- class Genbank::misc_feature -- table misc_feature_note -- id note 861208000001 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 861208000002 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 861208000003 active site 861208000004 dimer interface [polypeptide binding]; other site 861208000005 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 861208000006 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 861208000007 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 861208000008 shikimate binding site; other site 861208000009 NAD(P) binding site [chemical binding]; other site 861208000010 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 861208000011 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 861208000012 CoA-binding site [chemical binding]; other site 861208000013 ATP-binding [chemical binding]; other site 861208000014 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 861208000015 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 861208000016 active site 861208000017 catalytic site [active] 861208000018 substrate binding site [chemical binding]; other site 861208000019 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 861208000020 SecA binding site; other site 861208000021 Preprotein binding site; other site 861208000022 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 861208000023 Tim44-like domain; Region: Tim44; cl09208 861208000024 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 861208000025 MltA specific insert domain; Region: MltA; cl08398 861208000026 3D domain; Region: 3D; cl01439 861208000027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 861208000028 Smr domain; Region: Smr; cl02619 861208000029 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 861208000030 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 861208000031 non-specific DNA binding site [nucleotide binding]; other site 861208000032 salt bridge; other site 861208000033 sequence-specific DNA binding site [nucleotide binding]; other site 861208000034 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 861208000035 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 861208000036 Mg2+ binding site [ion binding]; other site 861208000037 G-X-G motif; other site 861208000038 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 861208000039 anchoring element; other site 861208000040 dimer interface [polypeptide binding]; other site 861208000041 ATP binding site [chemical binding]; other site 861208000042 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 861208000043 active site 861208000044 putative metal-binding site [ion binding]; other site 861208000045 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 861208000046 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 861208000047 putative FMN binding site [chemical binding]; other site 861208000048 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 861208000049 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 861208000050 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 861208000051 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 861208000052 Protein of unknown function DUF45; Region: DUF45; cl00636 861208000053 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 861208000054 active site 861208000055 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 861208000056 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 861208000057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208000058 catalytic residue [active] 861208000059 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 861208000060 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 861208000061 substrate binding site [chemical binding]; other site 861208000062 active site 861208000063 catalytic residues [active] 861208000064 heterodimer interface [polypeptide binding]; other site 861208000065 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 861208000066 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 861208000067 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 861208000068 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 861208000069 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 861208000070 catalytic residues [active] 861208000071 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 861208000072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208000073 Family description; Region: UvrD_C_2; cl15862 861208000074 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 861208000075 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 861208000076 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 861208000077 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 861208000078 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 861208000079 Substrate binding site; other site 861208000080 metal-binding site 861208000081 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 861208000082 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 861208000083 Phosphotransferase enzyme family; Region: APH; pfam01636 861208000084 PAS fold; Region: PAS_7; pfam12860 861208000085 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 861208000086 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 861208000087 dimer interface [polypeptide binding]; other site 861208000088 phosphorylation site [posttranslational modification] 861208000089 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 861208000090 ATP binding site [chemical binding]; other site 861208000091 Mg2+ binding site [ion binding]; other site 861208000092 G-X-G motif; other site 861208000093 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 861208000094 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 861208000095 oligomerization interface [polypeptide binding]; other site 861208000096 active site 861208000097 NAD+ binding site [chemical binding]; other site 861208000098 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 861208000099 regulatory protein interface [polypeptide binding]; other site 861208000100 active site 861208000101 regulatory phosphorylation site [posttranslational modification]; other site 861208000102 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 861208000103 active pocket/dimerization site; other site 861208000104 active site 861208000105 phosphorylation site [posttranslational modification] 861208000106 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 861208000107 Hpr binding site; other site 861208000108 active site 861208000109 homohexamer subunit interaction site [polypeptide binding]; other site 861208000110 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 861208000111 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 861208000112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 861208000113 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 861208000114 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 861208000115 dimer interface [polypeptide binding]; other site 861208000116 phosphorylation site [posttranslational modification] 861208000117 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 861208000118 ATP binding site [chemical binding]; other site 861208000119 Mg2+ binding site [ion binding]; other site 861208000120 G-X-G motif; other site 861208000121 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208000122 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 861208000123 active site 861208000124 phosphorylation site [posttranslational modification] 861208000125 intermolecular recognition site; other site 861208000126 dimerization interface [polypeptide binding]; other site 861208000127 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 861208000128 DNA binding site [nucleotide binding] 861208000129 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 861208000130 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 861208000131 active site 861208000132 substrate-binding site [chemical binding]; other site 861208000133 metal-binding site [ion binding] 861208000134 ATP binding site [chemical binding]; other site 861208000135 RF-1 domain; Region: RF-1; cl02875 861208000136 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 861208000137 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 861208000138 pantothenate kinase; Provisional; Region: PRK05439 861208000139 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 861208000140 ATP-binding site [chemical binding]; other site 861208000141 CoA-binding site [chemical binding]; other site 861208000142 Mg2+-binding site [ion binding]; other site 861208000143 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 861208000144 metal binding site [ion binding]; metal-binding site 861208000145 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 861208000146 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 861208000147 substrate binding site [chemical binding]; other site 861208000148 glutamase interaction surface [polypeptide binding]; other site 861208000149 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 861208000150 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 861208000151 catalytic residues [active] 861208000152 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 861208000153 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 861208000154 putative active site [active] 861208000155 oxyanion strand; other site 861208000156 catalytic triad [active] 861208000157 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 861208000158 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 861208000159 putative active site pocket [active] 861208000160 4-fold oligomerization interface [polypeptide binding]; other site 861208000161 metal binding residues [ion binding]; metal-binding site 861208000162 3-fold/trimer interface [polypeptide binding]; other site 861208000163 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 861208000164 active site 861208000165 HslU subunit interaction site [polypeptide binding]; other site 861208000166 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 861208000167 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 861208000168 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_HprK; cl00270 861208000169 Walker A motif; other site 861208000170 ATP binding site [chemical binding]; other site 861208000171 active site 861208000172 nucleotide-binding site [chemical binding]; other site 861208000173 metal-binding site [ion binding] 861208000174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208000175 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 861208000176 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 861208000177 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 861208000178 active site 861208000179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 861208000180 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208000181 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 861208000182 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 861208000183 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 861208000184 active site 861208000185 phosphorylation site [posttranslational modification] 861208000186 intermolecular recognition site; other site 861208000187 dimerization interface [polypeptide binding]; other site 861208000188 Helix-turn-helix domains; Region: HTH; cl00088 861208000189 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 861208000190 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 861208000191 dimer interface [polypeptide binding]; other site 861208000192 phosphorylation site [posttranslational modification] 861208000193 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 861208000194 ATP binding site [chemical binding]; other site 861208000195 Mg2+ binding site [ion binding]; other site 861208000196 G-X-G motif; other site 861208000197 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 861208000198 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 861208000199 ATP binding site [chemical binding]; other site 861208000200 putative Mg++ binding site [ion binding]; other site 861208000201 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 861208000202 nucleotide binding region [chemical binding]; other site 861208000203 ATP-binding site [chemical binding]; other site 861208000204 Helicase associated domain (HA2); Region: HA2; cl04503 861208000205 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 861208000206 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 861208000207 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 861208000208 ATP binding site [chemical binding]; other site 861208000209 putative Mg++ binding site [ion binding]; other site 861208000210 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 861208000211 nucleotide binding region [chemical binding]; other site 861208000212 ATP-binding site [chemical binding]; other site 861208000213 RQC domain; Region: RQC; cl09632 861208000214 HRDC domain; Region: HRDC; cl02578 861208000215 Helix-turn-helix domains; Region: HTH; cl00088 861208000216 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 861208000217 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208000218 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 861208000219 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208000220 ligand binding site [chemical binding]; other site 861208000221 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 861208000222 TM-ABC transporter signature motif; other site 861208000223 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 861208000224 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 861208000225 Walker A/P-loop; other site 861208000226 ATP binding site [chemical binding]; other site 861208000227 Q-loop/lid; other site 861208000228 ABC transporter signature motif; other site 861208000229 Walker B; other site 861208000230 D-loop; other site 861208000231 H-loop/switch region; other site 861208000232 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 861208000233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208000234 active site 861208000235 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 861208000236 catalytic residues [active] 861208000237 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 861208000238 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 861208000239 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 861208000240 Class I ribonucleotide reductase; Region: RNR_I; cd01679 861208000241 active site 861208000242 dimer interface [polypeptide binding]; other site 861208000243 catalytic residues [active] 861208000244 effector binding site; other site 861208000245 R2 peptide binding site; other site 861208000246 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 861208000247 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 861208000248 dimer interface [polypeptide binding]; other site 861208000249 putative radical transfer pathway; other site 861208000250 diiron center [ion binding]; other site 861208000251 tyrosyl radical; other site 861208000252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 861208000253 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 861208000254 recombination protein F; Reviewed; Region: recF; PRK00064 861208000255 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208000256 Walker A/P-loop; other site 861208000257 ATP binding site [chemical binding]; other site 861208000258 Q-loop/lid; other site 861208000259 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208000260 ABC transporter signature motif; other site 861208000261 Walker B; other site 861208000262 D-loop; other site 861208000263 H-loop/switch region; other site 861208000264 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 861208000265 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 861208000266 ATP binding site [chemical binding]; other site 861208000267 substrate interface [chemical binding]; other site 861208000268 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208000269 Coenzyme A binding pocket [chemical binding]; other site 861208000270 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 861208000271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208000272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 861208000273 Bacterial SH3 domain; Region: SH3_3; cl02551 861208000274 Bacterial SH3 domain; Region: SH3_3; cl02551 861208000275 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 861208000276 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208000277 substrate binding site [chemical binding]; other site 861208000278 ATP binding site [chemical binding]; other site 861208000279 Membrane transport protein; Region: Mem_trans; cl09117 861208000280 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 861208000281 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 861208000282 S-adenosylmethionine binding site [chemical binding]; other site 861208000283 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 861208000284 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 861208000285 RNase E interface [polypeptide binding]; other site 861208000286 trimer interface [polypeptide binding]; other site 861208000287 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 861208000288 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 861208000289 RNase E interface [polypeptide binding]; other site 861208000290 trimer interface [polypeptide binding]; other site 861208000291 active site 861208000292 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 861208000293 putative nucleic acid binding region [nucleotide binding]; other site 861208000294 G-X-X-G motif; other site 861208000295 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 861208000296 RNA binding site [nucleotide binding]; other site 861208000297 domain interface; other site 861208000298 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 861208000299 16S/18S rRNA binding site [nucleotide binding]; other site 861208000300 S13e-L30e interaction site [polypeptide binding]; other site 861208000301 25S rRNA binding site [nucleotide binding]; other site 861208000302 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 861208000303 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 861208000304 RNA binding site [nucleotide binding]; other site 861208000305 active site 861208000306 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 861208000307 Ribosome-binding factor A; Region: RBFA; cl00542 861208000308 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 861208000309 translation initiation factor IF-2; Region: IF-2; TIGR00487 861208000310 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 861208000311 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 861208000312 G1 box; other site 861208000313 putative GEF interaction site [polypeptide binding]; other site 861208000314 GTP/Mg2+ binding site [chemical binding]; other site 861208000315 Switch I region; other site 861208000316 G2 box; other site 861208000317 G3 box; other site 861208000318 Switch II region; other site 861208000319 G4 box; other site 861208000320 G5 box; other site 861208000321 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 861208000322 Translation-initiation factor 2; Region: IF-2; pfam11987 861208000323 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 861208000324 hypothetical protein; Provisional; Region: PRK09190 861208000325 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 861208000326 putative RNA binding cleft [nucleotide binding]; other site 861208000327 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 861208000328 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 861208000329 NusA N-terminal domain; Region: NusA_N; pfam08529 861208000330 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 861208000331 RNA binding site [nucleotide binding]; other site 861208000332 homodimer interface [polypeptide binding]; other site 861208000333 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 861208000334 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 861208000335 G-X-X-G motif; other site 861208000336 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 861208000337 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 861208000338 ribosome maturation protein RimP; Reviewed; Region: PRK00092 861208000339 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 861208000340 Sm1 motif; other site 861208000341 D1 - D2 interaction site; other site 861208000342 D3 - B interaction site; other site 861208000343 Hfq - Hfq interaction site; other site 861208000344 RNA binding pocket [nucleotide binding]; other site 861208000345 Sm2 motif; other site 861208000346 Transmembrane secretion effector; Region: MFS_3; pfam05977 861208000347 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 861208000348 putative substrate translocation pore; other site 861208000349 Transglycosylase SLT domain; Region: SLT_2; pfam13406 861208000350 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 861208000351 N-acetyl-D-glucosamine binding site [chemical binding]; other site 861208000352 catalytic residue [active] 861208000353 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208000354 recombination protein RecR; Reviewed; Region: recR; PRK00076 861208000355 RecR protein; Region: RecR; pfam02132 861208000356 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 861208000357 putative active site [active] 861208000358 putative metal-binding site [ion binding]; other site 861208000359 tetramer interface [polypeptide binding]; other site 861208000360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 861208000361 MOSC domain; Region: MOSC; pfam03473 861208000362 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 861208000363 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 861208000364 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 861208000365 Walker A motif; other site 861208000366 ATP binding site [chemical binding]; other site 861208000367 Walker B motif; other site 861208000368 arginine finger; other site 861208000369 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 861208000370 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 861208000371 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 861208000372 nucleotide binding site/active site [active] 861208000373 HIT family signature motif; other site 861208000374 catalytic residue [active] 861208000375 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 861208000376 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 861208000377 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 861208000378 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 861208000379 putative NADH binding site [chemical binding]; other site 861208000380 putative active site [active] 861208000381 nudix motif; other site 861208000382 putative metal binding site [ion binding]; other site 861208000383 prephenate dehydratase; Provisional; Region: PRK11899 861208000384 Prephenate dehydratase; Region: PDT; pfam00800 861208000385 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 861208000386 putative L-Phe binding site [chemical binding]; other site 861208000387 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 861208000388 Ligand binding site; other site 861208000389 oligomer interface; other site 861208000390 Cytochrome c; Region: Cytochrom_C; cl11414 861208000391 Bacterial sugar transferase; Region: Bac_transf; cl00939 861208000392 Transglycosylase; Region: Transgly; cl07896 861208000393 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 861208000394 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208000395 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 861208000396 putative deacylase active site [active] 861208000397 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 861208000398 DNA-binding site [nucleotide binding]; DNA binding site 861208000399 RNA-binding motif; other site 861208000400 hypothetical protein; Validated; Region: PRK09104 861208000401 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 861208000402 metal binding site [ion binding]; metal-binding site 861208000403 putative dimer interface [polypeptide binding]; other site 861208000404 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208000405 Helix-turn-helix domains; Region: HTH; cl00088 861208000406 DNA polymerase I; Region: pola; TIGR00593 861208000407 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 861208000408 active site 861208000409 metal binding site 1 [ion binding]; metal-binding site 861208000410 putative 5' ssDNA interaction site; other site 861208000411 metal binding site 3; metal-binding site 861208000412 metal binding site 2 [ion binding]; metal-binding site 861208000413 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 861208000414 putative DNA binding site [nucleotide binding]; other site 861208000415 putative metal binding site [ion binding]; other site 861208000416 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 861208000417 active site 861208000418 catalytic site [active] 861208000419 substrate binding site [chemical binding]; other site 861208000420 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 861208000421 active site 861208000422 DNA binding site [nucleotide binding] 861208000423 catalytic site [active] 861208000424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 861208000425 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 861208000426 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 861208000427 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 861208000428 Heme NO binding associated; Region: HNOBA; pfam07701 861208000429 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 861208000430 dimer interface [polypeptide binding]; other site 861208000431 phosphorylation site [posttranslational modification] 861208000432 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 861208000433 ATP binding site [chemical binding]; other site 861208000434 Mg2+ binding site [ion binding]; other site 861208000435 G-X-G motif; other site 861208000436 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 861208000437 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 861208000438 active site 861208000439 phosphorylation site [posttranslational modification] 861208000440 intermolecular recognition site; other site 861208000441 dimerization interface [polypeptide binding]; other site 861208000442 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 861208000443 Walker A motif; other site 861208000444 ATP binding site [chemical binding]; other site 861208000445 Walker B motif; other site 861208000446 arginine finger; other site 861208000447 Helix-turn-helix domains; Region: HTH; cl00088 861208000448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 861208000449 NMT1-like family; Region: NMT1_2; cl15260 861208000450 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 861208000451 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 861208000452 SlyX; Region: SlyX; cl01090 861208000453 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 861208000454 chaperone protein DnaJ; Provisional; Region: PRK10767 861208000455 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 861208000456 HSP70 interaction site [polypeptide binding]; other site 861208000457 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 861208000458 substrate binding site [polypeptide binding]; other site 861208000459 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 861208000460 Zn binding sites [ion binding]; other site 861208000461 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 861208000462 dimer interface [polypeptide binding]; other site 861208000463 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 861208000464 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 861208000465 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 861208000466 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 861208000467 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 861208000468 ligand binding site [chemical binding]; other site 861208000469 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 861208000470 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208000471 Walker A/P-loop; other site 861208000472 ATP binding site [chemical binding]; other site 861208000473 Q-loop/lid; other site 861208000474 ABC transporter signature motif; other site 861208000475 Walker B; other site 861208000476 D-loop; other site 861208000477 H-loop/switch region; other site 861208000478 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 861208000479 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 861208000480 TM-ABC transporter signature motif; other site 861208000481 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 861208000482 TM-ABC transporter signature motif; other site 861208000483 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 861208000484 active site 861208000485 catalytic motif [active] 861208000486 Zn binding site [ion binding]; other site 861208000487 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 861208000488 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 861208000489 intersubunit interface [polypeptide binding]; other site 861208000490 active site 861208000491 catalytic residue [active] 861208000492 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 861208000493 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 861208000494 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 861208000495 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 861208000496 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 861208000497 catalytic motif [active] 861208000498 Catalytic residue [active] 861208000499 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 861208000500 active site 861208000501 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 861208000502 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 861208000503 active site 861208000504 purine riboside binding site [chemical binding]; other site 861208000505 Sulfatase; Region: Sulfatase; cl10460 861208000506 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 861208000507 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 861208000508 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 861208000509 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 861208000510 Subunit I/III interface [polypeptide binding]; other site 861208000511 Subunit III/IV interface [polypeptide binding]; other site 861208000512 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 861208000513 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 861208000514 D-pathway; other site 861208000515 Putative ubiquinol binding site [chemical binding]; other site 861208000516 Low-spin heme (heme b) binding site [chemical binding]; other site 861208000517 Putative water exit pathway; other site 861208000518 Binuclear center (heme o3/CuB) [ion binding]; other site 861208000519 K-pathway; other site 861208000520 Putative proton exit pathway; other site 861208000521 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 861208000522 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 861208000523 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 861208000524 metabolite-proton symporter; Region: 2A0106; TIGR00883 861208000525 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 861208000526 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 861208000527 active site 861208000528 dimer interface [polypeptide binding]; other site 861208000529 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 861208000530 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 861208000531 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 861208000532 active site 861208000533 FMN binding site [chemical binding]; other site 861208000534 substrate binding site [chemical binding]; other site 861208000535 3Fe-4S cluster binding site [ion binding]; other site 861208000536 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 861208000537 domain interface; other site 861208000538 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 861208000539 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 861208000540 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 861208000541 FAD binding pocket [chemical binding]; other site 861208000542 FAD binding motif [chemical binding]; other site 861208000543 catalytic residues [active] 861208000544 NAD binding pocket [chemical binding]; other site 861208000545 phosphate binding motif [ion binding]; other site 861208000546 beta-alpha-beta structure motif; other site 861208000547 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 861208000548 TadE-like protein; Region: TadE; cl10688 861208000549 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 861208000550 TadE-like protein; Region: TadE; cl10688 861208000551 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 861208000552 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 861208000553 NAD binding site [chemical binding]; other site 861208000554 homotetramer interface [polypeptide binding]; other site 861208000555 homodimer interface [polypeptide binding]; other site 861208000556 substrate binding site [chemical binding]; other site 861208000557 active site 861208000558 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 861208000559 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 861208000560 dimer interface [polypeptide binding]; other site 861208000561 active site 861208000562 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 861208000563 active site 1 [active] 861208000564 dimer interface [polypeptide binding]; other site 861208000565 active site 2 [active] 861208000566 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 861208000567 metal binding site 2 [ion binding]; metal-binding site 861208000568 putative DNA binding helix; other site 861208000569 metal binding site 1 [ion binding]; metal-binding site 861208000570 dimer interface [polypeptide binding]; other site 861208000571 Predicted membrane protein [Function unknown]; Region: COG2860 861208000572 UPF0126 domain; Region: UPF0126; pfam03458 861208000573 UPF0126 domain; Region: UPF0126; pfam03458 861208000574 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 861208000575 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 861208000576 NMT1-like family; Region: NMT1_2; cl15260 861208000577 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 861208000578 dimer interface [polypeptide binding]; other site 861208000579 conserved gate region; other site 861208000580 putative PBP binding loops; other site 861208000581 ABC-ATPase subunit interface; other site 861208000582 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 861208000583 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 861208000584 Walker A/P-loop; other site 861208000585 ATP binding site [chemical binding]; other site 861208000586 Q-loop/lid; other site 861208000587 ABC transporter signature motif; other site 861208000588 Walker B; other site 861208000589 D-loop; other site 861208000590 H-loop/switch region; other site 861208000591 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 861208000592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208000593 DNA-binding site [nucleotide binding]; DNA binding site 861208000594 UTRA domain; Region: UTRA; cl01230 861208000595 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 861208000596 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 861208000597 Gram-negative bacterial tonB protein; Region: TonB; cl10048 861208000598 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 861208000599 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 861208000600 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 861208000601 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 861208000602 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208000603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208000604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208000605 AAA domain; Region: AAA_18; pfam13238 861208000606 active site 861208000607 Walker A/P-loop; other site 861208000608 ATP binding site [chemical binding]; other site 861208000609 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 861208000610 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 861208000611 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 861208000612 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 861208000613 active site 861208000614 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 861208000615 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 861208000616 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 861208000617 dimer interface [polypeptide binding]; other site 861208000618 conserved gate region; other site 861208000619 ABC-ATPase subunit interface; other site 861208000620 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 861208000621 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 861208000622 dimer interface [polypeptide binding]; other site 861208000623 conserved gate region; other site 861208000624 ABC-ATPase subunit interface; other site 861208000625 NMT1-like family; Region: NMT1_2; cl15260 861208000626 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 861208000627 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 861208000628 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 861208000629 Walker A/P-loop; other site 861208000630 ATP binding site [chemical binding]; other site 861208000631 Q-loop/lid; other site 861208000632 ABC transporter signature motif; other site 861208000633 Walker B; other site 861208000634 D-loop; other site 861208000635 H-loop/switch region; other site 861208000636 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 861208000637 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 861208000638 trimer interface [polypeptide binding]; other site 861208000639 active site 861208000640 substrate binding site [chemical binding]; other site 861208000641 CoA binding site [chemical binding]; other site 861208000642 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 861208000643 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208000644 Walker A/P-loop; other site 861208000645 ATP binding site [chemical binding]; other site 861208000646 Q-loop/lid; other site 861208000647 ABC transporter signature motif; other site 861208000648 Walker B; other site 861208000649 D-loop; other site 861208000650 H-loop/switch region; other site 861208000651 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 861208000652 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 861208000653 Walker A/P-loop; other site 861208000654 ATP binding site [chemical binding]; other site 861208000655 Q-loop/lid; other site 861208000656 ABC transporter signature motif; other site 861208000657 Walker B; other site 861208000658 D-loop; other site 861208000659 H-loop/switch region; other site 861208000660 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208000661 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 861208000662 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 861208000663 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 861208000664 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 861208000665 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 861208000666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208000667 DNA-binding site [nucleotide binding]; DNA binding site 861208000668 UTRA domain; Region: UTRA; cl01230 861208000669 dihydrodipicolinate reductase; Provisional; Region: PRK00048 861208000670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208000671 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 861208000672 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208000673 glucokinase, proteobacterial type; Region: glk; TIGR00749 861208000674 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 861208000675 active site 861208000676 dimer interfaces [polypeptide binding]; other site 861208000677 catalytic residues [active] 861208000678 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 861208000679 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 861208000680 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 861208000681 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 861208000682 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 861208000683 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 861208000684 dimer interface [polypeptide binding]; other site 861208000685 conserved gate region; other site 861208000686 putative PBP binding loops; other site 861208000687 ABC-ATPase subunit interface; other site 861208000688 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 861208000689 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 861208000690 dimer interface [polypeptide binding]; other site 861208000691 conserved gate region; other site 861208000692 putative PBP binding loops; other site 861208000693 ABC-ATPase subunit interface; other site 861208000694 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 861208000695 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 861208000696 Walker A/P-loop; other site 861208000697 ATP binding site [chemical binding]; other site 861208000698 Q-loop/lid; other site 861208000699 ABC transporter signature motif; other site 861208000700 Walker B; other site 861208000701 D-loop; other site 861208000702 H-loop/switch region; other site 861208000703 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208000704 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 861208000705 Walker A/P-loop; other site 861208000706 ATP binding site [chemical binding]; other site 861208000707 Q-loop/lid; other site 861208000708 ABC transporter signature motif; other site 861208000709 Walker B; other site 861208000710 D-loop; other site 861208000711 H-loop/switch region; other site 861208000712 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208000713 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208000714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208000715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208000716 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 861208000717 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 861208000718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208000719 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208000720 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 861208000721 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 861208000722 ATP-binding site [chemical binding]; other site 861208000723 Gluconate-6-phosphate binding site [chemical binding]; other site 861208000724 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 861208000725 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 861208000726 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 861208000727 Walker A/P-loop; other site 861208000728 ATP binding site [chemical binding]; other site 861208000729 Q-loop/lid; other site 861208000730 ABC transporter signature motif; other site 861208000731 Walker B; other site 861208000732 D-loop; other site 861208000733 H-loop/switch region; other site 861208000734 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 861208000735 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 861208000736 dimer interface [polypeptide binding]; other site 861208000737 conserved gate region; other site 861208000738 ABC-ATPase subunit interface; other site 861208000739 NMT1-like family; Region: NMT1_2; cl15260 861208000740 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 861208000741 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 861208000742 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 861208000743 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 861208000744 Helix-turn-helix domains; Region: HTH; cl00088 861208000745 Rrf2 family protein; Region: rrf2_super; TIGR00738 861208000746 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 861208000747 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 861208000748 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 861208000749 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208000750 tetrameric interface [polypeptide binding]; other site 861208000751 NAD binding site [chemical binding]; other site 861208000752 catalytic residues [active] 861208000753 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 861208000754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208000755 Helix-turn-helix domains; Region: HTH; cl00088 861208000756 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 861208000757 dimerization interface [polypeptide binding]; other site 861208000758 EamA-like transporter family; Region: EamA; cl01037 861208000759 Integral membrane protein TerC family; Region: TerC; cl10468 861208000760 Helix-turn-helix domains; Region: HTH; cl00088 861208000761 NlpC/P60 family; Region: NLPC_P60; cl11438 861208000762 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 861208000763 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 861208000764 active site 861208000765 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 861208000766 interface (dimer of trimers) [polypeptide binding]; other site 861208000767 Substrate-binding/catalytic site; other site 861208000768 Zn-binding sites [ion binding]; other site 861208000769 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 861208000770 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 861208000771 binding surface 861208000772 TPR motif; other site 861208000773 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 861208000774 binding surface 861208000775 TPR motif; other site 861208000776 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 861208000777 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 861208000778 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 861208000779 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 861208000780 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 861208000781 ATP binding site [chemical binding]; other site 861208000782 Walker A motif; other site 861208000783 hexamer interface [polypeptide binding]; other site 861208000784 Walker B motif; other site 861208000785 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 861208000786 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 861208000787 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 861208000788 Type IV pili component [Cell motility and secretion]; Region: COG5461; cl02279 861208000789 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 861208000790 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 861208000791 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 861208000792 BON domain; Region: BON; cl02771 861208000793 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 861208000794 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 861208000795 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 861208000796 Flp/Fap pilin component; Region: Flp_Fap; cl01585 861208000797 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 861208000798 Rdx family; Region: Rdx; cl01407 861208000799 DoxX; Region: DoxX; cl00976 861208000800 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 861208000801 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 861208000802 catalytic triad [active] 861208000803 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 861208000804 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 861208000805 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 861208000806 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 861208000807 active site 861208000808 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 861208000809 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208000810 DNA-binding site [nucleotide binding]; DNA binding site 861208000811 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 861208000812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208000813 homodimer interface [polypeptide binding]; other site 861208000814 catalytic residue [active] 861208000815 Predicted transcriptional regulator [Transcription]; Region: COG1959 861208000816 Helix-turn-helix domains; Region: HTH; cl00088 861208000817 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 861208000818 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 861208000819 Cupin domain; Region: Cupin_2; cl09118 861208000820 Helix-turn-helix domain; Region: HTH_18; pfam12833 861208000821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208000822 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 861208000823 GTP-binding protein LepA; Provisional; Region: PRK05433 861208000824 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 861208000825 G1 box; other site 861208000826 putative GEF interaction site [polypeptide binding]; other site 861208000827 GTP/Mg2+ binding site [chemical binding]; other site 861208000828 Switch I region; other site 861208000829 G2 box; other site 861208000830 G3 box; other site 861208000831 Switch II region; other site 861208000832 G4 box; other site 861208000833 G5 box; other site 861208000834 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 861208000835 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 861208000836 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 861208000837 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 861208000838 putative active site [active] 861208000839 catalytic triad [active] 861208000840 putative dimer interface [polypeptide binding]; other site 861208000841 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 861208000842 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 861208000843 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 861208000844 non-specific DNA binding site [nucleotide binding]; other site 861208000845 salt bridge; other site 861208000846 sequence-specific DNA binding site [nucleotide binding]; other site 861208000847 Cupin domain; Region: Cupin_2; cl09118 861208000848 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 861208000849 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208000850 Coenzyme A binding pocket [chemical binding]; other site 861208000851 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 861208000852 Helix-turn-helix domain; Region: HTH_18; pfam12833 861208000853 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208000854 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 861208000855 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 861208000856 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 861208000857 apolar tunnel; other site 861208000858 heme binding site [chemical binding]; other site 861208000859 dimerization interface [polypeptide binding]; other site 861208000860 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 861208000861 diiron binding motif [ion binding]; other site 861208000862 Uncharacterized conserved protein [Function unknown]; Region: COG1633 861208000863 CCC1-related protein family; Region: CCC1_like_1; cd02437 861208000864 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208000865 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 861208000866 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208000867 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 861208000868 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 861208000869 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 861208000870 ribosomal protein L20; Region: rpl20; CHL00068 861208000871 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 861208000872 23S rRNA binding site [nucleotide binding]; other site 861208000873 L21 binding site [polypeptide binding]; other site 861208000874 L13 binding site [polypeptide binding]; other site 861208000875 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 861208000876 active site 861208000877 ATP binding site [chemical binding]; other site 861208000878 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 861208000879 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 861208000880 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 861208000881 dimer interface [polypeptide binding]; other site 861208000882 motif 1; other site 861208000883 active site 861208000884 motif 2; other site 861208000885 motif 3; other site 861208000886 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 861208000887 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 861208000888 putative tRNA-binding site [nucleotide binding]; other site 861208000889 B3/4 domain; Region: B3_4; cl11458 861208000890 tRNA synthetase B5 domain; Region: B5; cl08394 861208000891 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 861208000892 dimer interface [polypeptide binding]; other site 861208000893 motif 1; other site 861208000894 motif 3; other site 861208000895 motif 2; other site 861208000896 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 861208000897 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 861208000898 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 861208000899 active site 861208000900 catalytic tetrad [active] 861208000901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208000902 Helix-turn-helix domains; Region: HTH; cl00088 861208000903 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 861208000904 putative effector binding pocket; other site 861208000905 putative dimerization interface [polypeptide binding]; other site 861208000906 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 861208000907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208000908 Coenzyme A binding pocket [chemical binding]; other site 861208000909 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 861208000910 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 861208000911 active site 861208000912 catalytic tetrad [active] 861208000913 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 861208000914 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 861208000915 conserved cys residue [active] 861208000916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208000917 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; cl00220 861208000918 catalytic triad [active] 861208000919 conserved cis-peptide bond; other site 861208000920 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208000921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208000922 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208000923 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 861208000924 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 861208000925 generic binding surface II; other site 861208000926 generic binding surface I; other site 861208000927 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 861208000928 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 861208000929 active site pocket [active] 861208000930 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208000931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208000932 DNA-binding site [nucleotide binding]; DNA binding site 861208000933 FCD domain; Region: FCD; cl11656 861208000934 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208000935 Helix-turn-helix domains; Region: HTH; cl00088 861208000936 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 861208000937 EamA-like transporter family; Region: EamA; cl01037 861208000938 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 861208000939 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 861208000940 putative deacylase active site [active] 861208000941 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 861208000942 ArsC family; Region: ArsC; pfam03960 861208000943 putative catalytic residues [active] 861208000944 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 861208000945 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 861208000946 GMP synthase; Reviewed; Region: guaA; PRK00074 861208000947 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 861208000948 AMP/PPi binding site [chemical binding]; other site 861208000949 candidate oxyanion hole; other site 861208000950 catalytic triad [active] 861208000951 potential glutamine specificity residues [chemical binding]; other site 861208000952 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 861208000953 ATP Binding subdomain [chemical binding]; other site 861208000954 Ligand Binding sites [chemical binding]; other site 861208000955 Dimerization subdomain; other site 861208000956 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 861208000957 nucleosidase; Provisional; Region: PRK05634 861208000958 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 861208000959 CoenzymeA binding site [chemical binding]; other site 861208000960 subunit interaction site [polypeptide binding]; other site 861208000961 PHB binding site; other site 861208000962 TspO/MBR family; Region: TspO_MBR; cl01379 861208000963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 861208000964 Imelysin; Region: Peptidase_M75; cl09159 861208000965 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 861208000966 Imelysin; Region: Peptidase_M75; cl09159 861208000967 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 861208000968 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; cl16911 861208000969 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 861208000970 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 861208000971 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 861208000972 putative NAD(P) binding site [chemical binding]; other site 861208000973 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 861208000974 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 861208000975 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 861208000976 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 861208000977 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 861208000978 N-terminal domain interface [polypeptide binding]; other site 861208000979 dimer interface [polypeptide binding]; other site 861208000980 substrate binding pocket (H-site) [chemical binding]; other site 861208000981 Bacitracin resistance protein BacA; Region: BacA; cl00858 861208000982 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 861208000983 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 861208000984 putative NAD(P) binding site [chemical binding]; other site 861208000985 active site 861208000986 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 861208000987 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 861208000988 active site 861208000989 dimer interface [polypeptide binding]; other site 861208000990 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 861208000991 catalytic core [active] 861208000992 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 861208000993 S-adenosylmethionine binding site [chemical binding]; other site 861208000994 DNA polymerase III subunit beta; Validated; Region: PRK05643 861208000995 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 861208000996 putative DNA binding surface [nucleotide binding]; other site 861208000997 dimer interface [polypeptide binding]; other site 861208000998 beta-clamp/clamp loader binding surface; other site 861208000999 beta-clamp/translesion DNA polymerase binding surface; other site 861208001000 Predicted methyltransferases [General function prediction only]; Region: COG0313 861208001001 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 861208001002 Restriction endonuclease; Region: Mrr_cat; cl00516 861208001003 maltose O-acetyltransferase; Provisional; Region: PRK10092 861208001004 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 861208001005 active site 861208001006 substrate binding site [chemical binding]; other site 861208001007 trimer interface [polypeptide binding]; other site 861208001008 CoA binding site [chemical binding]; other site 861208001009 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 861208001010 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208001011 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 861208001012 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 861208001013 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208001014 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 861208001015 dimer interface [polypeptide binding]; other site 861208001016 conserved gate region; other site 861208001017 putative PBP binding loops; other site 861208001018 ABC-ATPase subunit interface; other site 861208001019 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208001020 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 861208001021 Walker A/P-loop; other site 861208001022 ATP binding site [chemical binding]; other site 861208001023 Q-loop/lid; other site 861208001024 ABC transporter signature motif; other site 861208001025 Walker B; other site 861208001026 D-loop; other site 861208001027 H-loop/switch region; other site 861208001028 Cupin domain; Region: Cupin_2; cl09118 861208001029 glutathione synthetase; Provisional; Region: PRK05246 861208001030 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 861208001031 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208001032 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 861208001033 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 861208001034 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 861208001035 Walker A motif; other site 861208001036 ATP binding site [chemical binding]; other site 861208001037 Walker B motif; other site 861208001038 arginine finger; other site 861208001039 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 861208001040 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 861208001041 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 861208001042 dimer interface [polypeptide binding]; other site 861208001043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208001044 catalytic residue [active] 861208001045 LysE type translocator; Region: LysE; cl00565 861208001046 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 861208001047 trimer interface [polypeptide binding]; other site 861208001048 active site 861208001049 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 861208001050 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 861208001051 G1 box; other site 861208001052 putative GEF interaction site [polypeptide binding]; other site 861208001053 GTP/Mg2+ binding site [chemical binding]; other site 861208001054 Switch I region; other site 861208001055 G2 box; other site 861208001056 G3 box; other site 861208001057 Switch II region; other site 861208001058 G4 box; other site 861208001059 G5 box; other site 861208001060 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 861208001061 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 861208001062 Flavoprotein; Region: Flavoprotein; cl08021 861208001063 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 861208001064 Protein of unknown function (DUF419); Region: DUF419; cl15265 861208001065 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 861208001066 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 861208001067 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 861208001068 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 861208001069 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 861208001070 ATP binding site [chemical binding]; other site 861208001071 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 861208001072 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 861208001073 S-adenosylmethionine binding site [chemical binding]; other site 861208001074 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 861208001075 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 861208001076 DNA binding site [nucleotide binding] 861208001077 catalytic residue [active] 861208001078 H2TH interface [polypeptide binding]; other site 861208001079 putative catalytic residues [active] 861208001080 turnover-facilitating residue; other site 861208001081 intercalation triad [nucleotide binding]; other site 861208001082 8OG recognition residue [nucleotide binding]; other site 861208001083 putative reading head residues; other site 861208001084 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 861208001085 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 861208001086 enoyl-CoA hydratase; Provisional; Region: PRK05862 861208001087 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 861208001088 substrate binding site [chemical binding]; other site 861208001089 oxyanion hole (OAH) forming residues; other site 861208001090 trimer interface [polypeptide binding]; other site 861208001091 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 861208001092 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 861208001093 DnaA N-terminal domain; Region: DnaA_N; pfam11638 861208001094 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 861208001095 Walker A motif; other site 861208001096 ATP binding site [chemical binding]; other site 861208001097 Walker B motif; other site 861208001098 arginine finger; other site 861208001099 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 861208001100 DnaA box-binding interface [nucleotide binding]; other site 861208001101 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 861208001102 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 861208001103 FeS/SAM binding site; other site 861208001104 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 861208001105 active site 861208001106 dimerization interface [polypeptide binding]; other site 861208001107 ribonuclease PH; Reviewed; Region: rph; PRK00173 861208001108 Ribonuclease PH; Region: RNase_PH_bact; cd11362 861208001109 hexamer interface [polypeptide binding]; other site 861208001110 active site 861208001111 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 861208001112 heat shock protein GrpE; Provisional; Region: PRK14141 861208001113 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 861208001114 dimer interface [polypeptide binding]; other site 861208001115 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 861208001116 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 861208001117 active site 861208001118 phosphorylation site [posttranslational modification] 861208001119 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 861208001120 30S subunit binding site; other site 861208001121 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 861208001122 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 861208001123 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 861208001124 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 861208001125 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 861208001126 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 861208001127 Walker A/P-loop; other site 861208001128 ATP binding site [chemical binding]; other site 861208001129 Q-loop/lid; other site 861208001130 ABC transporter signature motif; other site 861208001131 Walker B; other site 861208001132 D-loop; other site 861208001133 H-loop/switch region; other site 861208001134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 861208001135 OstA-like protein; Region: OstA; cl00844 861208001136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 861208001137 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 861208001138 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 861208001139 tandem repeat interface [polypeptide binding]; other site 861208001140 oligomer interface [polypeptide binding]; other site 861208001141 active site residues [active] 861208001142 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 861208001143 IHF dimer interface [polypeptide binding]; other site 861208001144 IHF - DNA interface [nucleotide binding]; other site 861208001145 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 861208001146 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; cl16911 861208001147 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 861208001148 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 861208001149 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 861208001150 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 861208001151 lipoprotein signal peptidase; Provisional; Region: PRK14787 861208001152 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 861208001153 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 861208001154 dimer interface [polypeptide binding]; other site 861208001155 phosphorylation site [posttranslational modification] 861208001156 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 861208001157 ATP binding site [chemical binding]; other site 861208001158 Mg2+ binding site [ion binding]; other site 861208001159 G-X-G motif; other site 861208001160 Response regulator receiver domain; Region: Response_reg; pfam00072 861208001161 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 861208001162 active site 861208001163 phosphorylation site [posttranslational modification] 861208001164 intermolecular recognition site; other site 861208001165 dimerization interface [polypeptide binding]; other site 861208001166 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208001167 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 861208001168 MutS domain I; Region: MutS_I; pfam01624 861208001169 MutS domain II; Region: MutS_II; pfam05188 861208001170 MutS family domain IV; Region: MutS_IV; pfam05190 861208001171 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 861208001172 Walker A/P-loop; other site 861208001173 ATP binding site [chemical binding]; other site 861208001174 Q-loop/lid; other site 861208001175 ABC transporter signature motif; other site 861208001176 Walker B; other site 861208001177 D-loop; other site 861208001178 H-loop/switch region; other site 861208001179 PII uridylyl-transferase; Provisional; Region: PRK05092 861208001180 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 861208001181 metal binding triad; other site 861208001182 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 861208001183 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 861208001184 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 861208001185 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 861208001186 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 861208001187 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208001188 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 861208001189 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 861208001190 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 861208001191 active site 861208001192 HIGH motif; other site 861208001193 dimer interface [polypeptide binding]; other site 861208001194 KMSKS motif; other site 861208001195 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 861208001196 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 861208001197 NifU-like domain; Region: NifU; cl00484 861208001198 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 861208001199 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 861208001200 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208001201 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 861208001202 metal binding site 2 [ion binding]; metal-binding site 861208001203 putative DNA binding helix; other site 861208001204 metal binding site 1 [ion binding]; metal-binding site 861208001205 dimer interface [polypeptide binding]; other site 861208001206 structural Zn2+ binding site [ion binding]; other site 861208001207 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 861208001208 putative acyl-acceptor binding pocket; other site 861208001209 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 861208001210 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 861208001211 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 861208001212 FeS/SAM binding site; other site 861208001213 TRAM domain; Region: TRAM; cl01282 861208001214 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 861208001215 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208001216 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 861208001217 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 861208001218 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 861208001219 Transporter associated domain; Region: CorC_HlyC; cl08393 861208001220 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 861208001221 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 861208001222 putative active site [active] 861208001223 catalytic triad [active] 861208001224 putative dimer interface [polypeptide binding]; other site 861208001225 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 861208001226 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 861208001227 non-specific DNA binding site [nucleotide binding]; other site 861208001228 salt bridge; other site 861208001229 sequence-specific DNA binding site [nucleotide binding]; other site 861208001230 S-adenosylmethionine synthetase; Validated; Region: PRK05250 861208001231 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 861208001232 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 861208001233 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 861208001234 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; cl16911 861208001235 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208001236 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 861208001237 substrate binding site [chemical binding]; other site 861208001238 dimer interface [polypeptide binding]; other site 861208001239 ATP binding site [chemical binding]; other site 861208001240 RmuC family; Region: RmuC; pfam02646 861208001241 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 861208001242 active site 861208001243 catalytic residues [active] 861208001244 metal binding site [ion binding]; metal-binding site 861208001245 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 861208001246 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 861208001247 putative active site [active] 861208001248 substrate binding site [chemical binding]; other site 861208001249 putative cosubstrate binding site; other site 861208001250 catalytic site [active] 861208001251 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 861208001252 substrate binding site [chemical binding]; other site 861208001253 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 861208001254 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 861208001255 dimerization interface 3.5A [polypeptide binding]; other site 861208001256 active site 861208001257 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 861208001258 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 861208001259 metal binding site [ion binding]; metal-binding site 861208001260 dimer interface [polypeptide binding]; other site 861208001261 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 861208001262 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 861208001263 trimer interface [polypeptide binding]; other site 861208001264 active site 861208001265 substrate binding site [chemical binding]; other site 861208001266 CoA binding site [chemical binding]; other site 861208001267 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 861208001268 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 861208001269 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208001270 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208001271 dimer interface [polypeptide binding]; other site 861208001272 putative CheW interface [polypeptide binding]; other site 861208001273 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 861208001274 active site 861208001275 tetramer interface [polypeptide binding]; other site 861208001276 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 861208001277 putative dimer interface [polypeptide binding]; other site 861208001278 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 861208001279 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 861208001280 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 861208001281 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208001282 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 861208001283 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 861208001284 feedback inhibition sensing region; other site 861208001285 homohexameric interface [polypeptide binding]; other site 861208001286 carbamate kinase; Reviewed; Region: PRK12686 861208001287 nucleotide binding site [chemical binding]; other site 861208001288 N-acetyl-L-glutamate binding site [chemical binding]; other site 861208001289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 861208001290 Predicted GTPase [General function prediction only]; Region: COG0218 861208001291 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 861208001292 G1 box; other site 861208001293 GTP/Mg2+ binding site [chemical binding]; other site 861208001294 Switch I region; other site 861208001295 G2 box; other site 861208001296 G3 box; other site 861208001297 Switch II region; other site 861208001298 G4 box; other site 861208001299 G5 box; other site 861208001300 membrane protein insertase; Provisional; Region: PRK01318 861208001301 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 861208001302 Ribonuclease P; Region: Ribonuclease_P; cl00457 861208001303 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 861208001304 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 861208001305 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 861208001306 dimerization interface [polypeptide binding]; other site 861208001307 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208001308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208001309 dimer interface [polypeptide binding]; other site 861208001310 putative CheW interface [polypeptide binding]; other site 861208001311 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 861208001312 sensory histidine kinase AtoS; Provisional; Region: PRK11360 861208001313 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 861208001314 ATP binding site [chemical binding]; other site 861208001315 Mg2+ binding site [ion binding]; other site 861208001316 G-X-G motif; other site 861208001317 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 861208001318 S-adenosylmethionine binding site [chemical binding]; other site 861208001319 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; cl16911 861208001320 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208001321 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208001322 Walker A/P-loop; other site 861208001323 ATP binding site [chemical binding]; other site 861208001324 Q-loop/lid; other site 861208001325 ABC transporter signature motif; other site 861208001326 Walker B; other site 861208001327 D-loop; other site 861208001328 H-loop/switch region; other site 861208001329 TOBE domain; Region: TOBE_2; cl01440 861208001330 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208001331 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 861208001332 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208001333 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 861208001334 dimer interface [polypeptide binding]; other site 861208001335 conserved gate region; other site 861208001336 putative PBP binding loops; other site 861208001337 ABC-ATPase subunit interface; other site 861208001338 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208001339 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 861208001340 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 861208001341 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 861208001342 active site 861208001343 metal binding site [ion binding]; metal-binding site 861208001344 hexamer interface [polypeptide binding]; other site 861208001345 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 861208001346 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 861208001347 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 861208001348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 861208001349 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 861208001350 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 861208001351 Proline racemase; Region: Pro_racemase; pfam05544 861208001352 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 861208001353 active site 861208001354 substrate binding pocket [chemical binding]; other site 861208001355 dimer interface [polypeptide binding]; other site 861208001356 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 861208001357 active site 861208001358 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 861208001359 putative substrate binding site [chemical binding]; other site 861208001360 putative ATP binding site [chemical binding]; other site 861208001361 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 861208001362 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 861208001363 Ornithine carbamoyltransferase [Amino acid transport and metabolism]; Region: ArgF; COG0078 861208001364 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 861208001365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208001366 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 861208001367 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 861208001368 active site 861208001369 dimer interface [polypeptide binding]; other site 861208001370 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 861208001371 dimer interface [polypeptide binding]; other site 861208001372 active site 861208001373 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 861208001374 AMP-binding enzyme; Region: AMP-binding; cl15778 861208001375 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 861208001376 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208001377 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 861208001378 Walker A/P-loop; other site 861208001379 ATP binding site [chemical binding]; other site 861208001380 Q-loop/lid; other site 861208001381 ABC transporter signature motif; other site 861208001382 Walker B; other site 861208001383 D-loop; other site 861208001384 H-loop/switch region; other site 861208001385 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 861208001386 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 861208001387 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 861208001388 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 861208001389 dimer interface [polypeptide binding]; other site 861208001390 conserved gate region; other site 861208001391 putative PBP binding loops; other site 861208001392 ABC-ATPase subunit interface; other site 861208001393 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 861208001394 dimer interface [polypeptide binding]; other site 861208001395 conserved gate region; other site 861208001396 ABC-ATPase subunit interface; other site 861208001397 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 861208001398 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 861208001399 N-terminal plug; other site 861208001400 ligand-binding site [chemical binding]; other site 861208001401 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208001402 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208001403 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208001404 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 861208001405 Protein of unknown function (DUF982); Region: DUF982; pfam06169 861208001406 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 861208001407 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 861208001408 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 861208001409 FMN binding site [chemical binding]; other site 861208001410 substrate binding site [chemical binding]; other site 861208001411 putative catalytic residue [active] 861208001412 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 861208001413 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 861208001414 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 861208001415 dimer interface [polypeptide binding]; other site 861208001416 phosphorylation site [posttranslational modification] 861208001417 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 861208001418 ATP binding site [chemical binding]; other site 861208001419 Mg2+ binding site [ion binding]; other site 861208001420 G-X-G motif; other site 861208001421 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 861208001422 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 861208001423 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 861208001424 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 861208001425 dimer interface [polypeptide binding]; other site 861208001426 conserved gate region; other site 861208001427 putative PBP binding loops; other site 861208001428 ABC-ATPase subunit interface; other site 861208001429 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 861208001430 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 861208001431 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 861208001432 dimer interface [polypeptide binding]; other site 861208001433 conserved gate region; other site 861208001434 putative PBP binding loops; other site 861208001435 ABC-ATPase subunit interface; other site 861208001436 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 861208001437 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 861208001438 Walker A/P-loop; other site 861208001439 ATP binding site [chemical binding]; other site 861208001440 Q-loop/lid; other site 861208001441 ABC transporter signature motif; other site 861208001442 Walker B; other site 861208001443 D-loop; other site 861208001444 H-loop/switch region; other site 861208001445 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 861208001446 PhoU domain; Region: PhoU; pfam01895 861208001447 PhoU domain; Region: PhoU; pfam01895 861208001448 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 861208001449 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 861208001450 active site 861208001451 phosphorylation site [posttranslational modification] 861208001452 intermolecular recognition site; other site 861208001453 dimerization interface [polypeptide binding]; other site 861208001454 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 861208001455 DNA binding site [nucleotide binding] 861208001456 GcrA cell cycle regulator; Region: GcrA; cl11564 861208001457 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 861208001458 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 861208001459 inhibitor-cofactor binding pocket; inhibition site 861208001460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208001461 catalytic residue [active] 861208001462 ornithine carbamoyltransferase; Provisional; Region: PRK00779 861208001463 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 861208001464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208001465 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 861208001466 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 861208001467 dimerization interface [polypeptide binding]; other site 861208001468 domain crossover interface; other site 861208001469 redox-dependent activation switch; other site 861208001470 Protein of unknown function (DUF525); Region: DUF525; cl01119 861208001471 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 861208001472 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 861208001473 homodimer interface [polypeptide binding]; other site 861208001474 substrate-cofactor binding pocket; other site 861208001475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208001476 catalytic residue [active] 861208001477 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 861208001478 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 861208001479 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 861208001480 trimer interface [polypeptide binding]; other site 861208001481 active site 861208001482 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 861208001483 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 861208001484 amphipathic channel; other site 861208001485 Asn-Pro-Ala signature motifs; other site 861208001486 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 861208001487 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 861208001488 DXD motif; other site 861208001489 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208001490 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 861208001491 substrate binding pocket [chemical binding]; other site 861208001492 membrane-bound complex binding site; other site 861208001493 hinge residues; other site 861208001494 MatE; Region: MatE; cl10513 861208001495 O-Antigen ligase; Region: Wzy_C; cl04850 861208001496 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 861208001497 putative active site [active] 861208001498 putative metal binding site [ion binding]; other site 861208001499 Predicted transcriptional regulator [Transcription]; Region: COG2932 861208001500 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 861208001501 Catalytic site [active] 861208001502 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 861208001503 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 861208001504 active site 861208001505 phosphorylation site [posttranslational modification] 861208001506 intermolecular recognition site; other site 861208001507 dimerization interface [polypeptide binding]; other site 861208001508 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 861208001509 DNA binding residues [nucleotide binding] 861208001510 dimerization interface [polypeptide binding]; other site 861208001511 Protein of unknown function (DUF952); Region: DUF952; cl01393 861208001512 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 861208001513 quinone interaction residues [chemical binding]; other site 861208001514 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 861208001515 active site 861208001516 catalytic residues [active] 861208001517 FMN binding site [chemical binding]; other site 861208001518 substrate binding site [chemical binding]; other site 861208001519 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 861208001520 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 861208001521 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; cl16911 861208001522 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 861208001523 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 861208001524 Uncharacterized conserved protein [Function unknown]; Region: COG1284 861208001525 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 861208001526 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208001527 Predicted transcriptional regulator [Transcription]; Region: COG1959 861208001528 Helix-turn-helix domains; Region: HTH; cl00088 861208001529 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 861208001530 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 861208001531 ATP binding site [chemical binding]; other site 861208001532 putative Mg++ binding site [ion binding]; other site 861208001533 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 861208001534 nucleotide binding region [chemical binding]; other site 861208001535 ATP-binding site [chemical binding]; other site 861208001536 DEAD/H associated; Region: DEAD_assoc; pfam08494 861208001537 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 861208001538 putative active site [active] 861208001539 putative metal binding site [ion binding]; other site 861208001540 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 861208001541 Ligand Binding Site [chemical binding]; other site 861208001542 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 861208001543 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 861208001544 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 861208001545 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 861208001546 Sel1 repeat; Region: Sel1; cl02723 861208001547 Sel1 repeat; Region: Sel1; cl02723 861208001548 Sel1 repeat; Region: Sel1; cl02723 861208001549 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208001550 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 861208001551 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 861208001552 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 861208001553 FAD binding site [chemical binding]; other site 861208001554 substrate binding site [chemical binding]; other site 861208001555 catalytic residues [active] 861208001556 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 861208001557 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 861208001558 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 861208001559 dimer interface [polypeptide binding]; other site 861208001560 active site 861208001561 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 861208001562 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 861208001563 substrate binding site [chemical binding]; other site 861208001564 oxyanion hole (OAH) forming residues; other site 861208001565 trimer interface [polypeptide binding]; other site 861208001566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208001567 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 861208001568 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 861208001569 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 861208001570 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 861208001571 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 861208001572 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 861208001573 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 861208001574 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 861208001575 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 861208001576 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 861208001577 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 861208001578 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 861208001579 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 861208001580 heme-binding site [chemical binding]; other site 861208001581 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208001582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208001583 dimer interface [polypeptide binding]; other site 861208001584 putative CheW interface [polypeptide binding]; other site 861208001585 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 861208001586 Response regulator receiver domain; Region: Response_reg; pfam00072 861208001587 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 861208001588 active site 861208001589 phosphorylation site [posttranslational modification] 861208001590 intermolecular recognition site; other site 861208001591 dimerization interface [polypeptide binding]; other site 861208001592 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 861208001593 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 861208001594 putative binding surface; other site 861208001595 active site 861208001596 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 861208001597 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 861208001598 ATP binding site [chemical binding]; other site 861208001599 Mg2+ binding site [ion binding]; other site 861208001600 G-X-G motif; other site 861208001601 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 861208001602 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 861208001603 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 861208001604 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; cl16911 861208001605 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 861208001606 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 861208001607 active site 861208001608 phosphorylation site [posttranslational modification] 861208001609 intermolecular recognition site; other site 861208001610 dimerization interface [polypeptide binding]; other site 861208001611 CheB methylesterase; Region: CheB_methylest; pfam01339 861208001612 Response regulator receiver domain; Region: Response_reg; pfam00072 861208001613 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 861208001614 active site 861208001615 phosphorylation site [posttranslational modification] 861208001616 intermolecular recognition site; other site 861208001617 dimerization interface [polypeptide binding]; other site 861208001618 CheD chemotactic sensory transduction; Region: CheD; cl00810 861208001619 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 861208001620 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 861208001621 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 861208001622 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 861208001623 DNA binding residues [nucleotide binding] 861208001624 dimerization interface [polypeptide binding]; other site 861208001625 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 861208001626 DNA binding residues [nucleotide binding] 861208001627 dimerization interface [polypeptide binding]; other site 861208001628 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 861208001629 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208001630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208001631 dimer interface [polypeptide binding]; other site 861208001632 putative CheW interface [polypeptide binding]; other site 861208001633 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 861208001634 Na binding site [ion binding]; other site 861208001635 PAS fold; Region: PAS_7; pfam12860 861208001636 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 861208001637 dimer interface [polypeptide binding]; other site 861208001638 phosphorylation site [posttranslational modification] 861208001639 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 861208001640 ATP binding site [chemical binding]; other site 861208001641 Mg2+ binding site [ion binding]; other site 861208001642 G-X-G motif; other site 861208001643 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 861208001644 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 861208001645 active site 861208001646 phosphorylation site [posttranslational modification] 861208001647 intermolecular recognition site; other site 861208001648 dimerization interface [polypeptide binding]; other site 861208001649 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 861208001650 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 861208001651 aspartate aminotransferase; Provisional; Region: PRK06108 861208001652 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 861208001653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208001654 homodimer interface [polypeptide binding]; other site 861208001655 catalytic residue [active] 861208001656 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 861208001657 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 861208001658 NAD binding site [chemical binding]; other site 861208001659 homodimer interface [polypeptide binding]; other site 861208001660 active site 861208001661 substrate binding site [chemical binding]; other site 861208001662 Domain of unknown function (DUF329); Region: DUF329; cl01144 861208001663 Maf-like protein; Region: Maf; pfam02545 861208001664 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 861208001665 active site 861208001666 dimer interface [polypeptide binding]; other site 861208001667 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 861208001668 rRNA binding site [nucleotide binding]; other site 861208001669 predicted 30S ribosome binding site; other site 861208001670 Low molecular weight phosphatase family; Region: LMWPc; cd00115 861208001671 active site 861208001672 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 861208001673 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 861208001674 histidinol dehydrogenase; Region: hisD; TIGR00069 861208001675 NAD binding site [chemical binding]; other site 861208001676 dimerization interface [polypeptide binding]; other site 861208001677 product binding site; other site 861208001678 substrate binding site [chemical binding]; other site 861208001679 zinc binding site [ion binding]; other site 861208001680 catalytic residues [active] 861208001681 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 861208001682 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 861208001683 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 861208001684 hinge; other site 861208001685 active site 861208001686 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 861208001687 flagellin; Reviewed; Region: PRK12687 861208001688 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 861208001689 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 861208001690 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 861208001691 FliP family; Region: FliP; cl00593 861208001692 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 861208001693 Flagellar L-ring protein; Region: FlgH; cl00905 861208001694 MgtE intracellular N domain; Region: MgtE_N; cl15244 861208001695 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 861208001696 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 861208001697 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 861208001698 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 861208001699 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 861208001700 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 861208001701 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 861208001702 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 861208001703 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 861208001704 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 861208001705 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 861208001706 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 861208001707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208001708 Walker A motif; other site 861208001709 ATP binding site [chemical binding]; other site 861208001710 Walker B motif; other site 861208001711 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 861208001712 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 861208001713 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 861208001714 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208001715 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208001716 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 861208001717 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 861208001718 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 861208001719 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 861208001720 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 861208001721 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 861208001722 MgtE intracellular N domain; Region: MgtE_N; cl15244 861208001723 FliG C-terminal domain; Region: FliG_C; pfam01706 861208001724 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 861208001725 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 861208001726 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 861208001727 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 861208001728 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 861208001729 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 861208001730 flagellar motor protein MotB; Validated; Region: motB; PRK05996 861208001731 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 861208001732 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 861208001733 ligand binding site [chemical binding]; other site 861208001734 chemotaxis protein; Reviewed; Region: PRK12798 861208001735 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 861208001736 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 861208001737 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 861208001738 N-acetyl-D-glucosamine binding site [chemical binding]; other site 861208001739 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208001740 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 861208001741 DNA binding site [nucleotide binding] 861208001742 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 861208001743 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 861208001744 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 861208001745 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 861208001746 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 861208001747 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 861208001748 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 861208001749 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 861208001750 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 861208001751 Flagellar protein FlaF; Region: FlaF; cl11454 861208001752 Flagellar protein FlbT; Region: FlbT; cl11455 861208001753 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 861208001754 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 861208001755 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 861208001756 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 861208001757 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 861208001758 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 861208001759 Rod binding protein; Region: Rod-binding; cl01626 861208001760 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cl04270 861208001761 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 861208001762 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 861208001763 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 861208001764 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 861208001765 homodimer interface [polypeptide binding]; other site 861208001766 NADP binding site [chemical binding]; other site 861208001767 substrate binding site [chemical binding]; other site 861208001768 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208001769 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208001770 DNA binding site [nucleotide binding] 861208001771 domain linker motif; other site 861208001772 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 861208001773 ligand binding site [chemical binding]; other site 861208001774 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208001775 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208001776 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 861208001777 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 861208001778 putative PBP binding loops; other site 861208001779 dimer interface [polypeptide binding]; other site 861208001780 ABC-ATPase subunit interface; other site 861208001781 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 861208001782 dimer interface [polypeptide binding]; other site 861208001783 conserved gate region; other site 861208001784 putative PBP binding loops; other site 861208001785 ABC-ATPase subunit interface; other site 861208001786 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 861208001787 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 861208001788 active site 861208001789 catalytic site [active] 861208001790 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 861208001791 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208001792 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 861208001793 Walker A/P-loop; other site 861208001794 ATP binding site [chemical binding]; other site 861208001795 Q-loop/lid; other site 861208001796 ABC transporter signature motif; other site 861208001797 Walker B; other site 861208001798 D-loop; other site 861208001799 H-loop/switch region; other site 861208001800 TOBE domain; Region: TOBE_2; cl01440 861208001801 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 861208001802 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 861208001803 active site 861208001804 metal binding site [ion binding]; metal-binding site 861208001805 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 861208001806 6-phosphogluconate dehydratase; Region: edd; TIGR01196 861208001807 Dehydratase family; Region: ILVD_EDD; cl00340 861208001808 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 861208001809 putative active site [active] 861208001810 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 861208001811 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 861208001812 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 861208001813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208001814 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208001815 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 861208001816 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 861208001817 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 861208001818 HI0933-like protein; Region: HI0933_like; pfam03486 861208001819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208001820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208001821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208001822 Helix-turn-helix domains; Region: HTH; cl00088 861208001823 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 861208001824 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 861208001825 tetramer interface [polypeptide binding]; other site 861208001826 active site 861208001827 Mg2+/Mn2+ binding site [ion binding]; other site 861208001828 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 861208001829 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 861208001830 non-specific DNA binding site [nucleotide binding]; other site 861208001831 salt bridge; other site 861208001832 sequence-specific DNA binding site [nucleotide binding]; other site 861208001833 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 861208001834 Domain of unknown function (DUF955); Region: DUF955; cl01076 861208001835 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 861208001836 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 861208001837 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 861208001838 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 861208001839 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 861208001840 Walker A/P-loop; other site 861208001841 ATP binding site [chemical binding]; other site 861208001842 Q-loop/lid; other site 861208001843 ABC transporter signature motif; other site 861208001844 Walker B; other site 861208001845 D-loop; other site 861208001846 H-loop/switch region; other site 861208001847 TOBE domain; Region: TOBE_2; cl01440 861208001848 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 861208001849 dimer interface [polypeptide binding]; other site 861208001850 conserved gate region; other site 861208001851 putative PBP binding loops; other site 861208001852 ABC-ATPase subunit interface; other site 861208001853 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 861208001854 dimer interface [polypeptide binding]; other site 861208001855 conserved gate region; other site 861208001856 putative PBP binding loops; other site 861208001857 ABC-ATPase subunit interface; other site 861208001858 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 861208001859 dimer interface [polypeptide binding]; other site 861208001860 conserved gate region; other site 861208001861 putative PBP binding loops; other site 861208001862 ABC-ATPase subunit interface; other site 861208001863 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 861208001864 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 861208001865 dimer interface [polypeptide binding]; other site 861208001866 conserved gate region; other site 861208001867 putative PBP binding loops; other site 861208001868 ABC-ATPase subunit interface; other site 861208001869 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 861208001870 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 861208001871 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 861208001872 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 861208001873 dimer interface [polypeptide binding]; other site 861208001874 phosphorylation site [posttranslational modification] 861208001875 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 861208001876 ATP binding site [chemical binding]; other site 861208001877 Mg2+ binding site [ion binding]; other site 861208001878 G-X-G motif; other site 861208001879 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 861208001880 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 861208001881 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; cl16911 861208001882 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 861208001883 putative transporter; Provisional; Region: PRK10504 861208001884 putative substrate translocation pore; other site 861208001885 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208001886 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 861208001887 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 861208001888 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 861208001889 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 861208001890 active site 861208001891 MAPEG family; Region: MAPEG; cl09190 861208001892 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 861208001893 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 861208001894 NAD binding site [chemical binding]; other site 861208001895 substrate binding site [chemical binding]; other site 861208001896 catalytic Zn binding site [ion binding]; other site 861208001897 tetramer interface [polypeptide binding]; other site 861208001898 structural Zn binding site [ion binding]; other site 861208001899 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 861208001900 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 861208001901 MPT binding site; other site 861208001902 trimer interface [polypeptide binding]; other site 861208001903 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 861208001904 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 861208001905 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 861208001906 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 861208001907 binding surface 861208001908 TPR motif; other site 861208001909 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 861208001910 binding surface 861208001911 TPR motif; other site 861208001912 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 861208001913 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 861208001914 substrate binding pocket [chemical binding]; other site 861208001915 chain length determination region; other site 861208001916 substrate-Mg2+ binding site; other site 861208001917 catalytic residues [active] 861208001918 aspartate-rich region 1; other site 861208001919 active site lid residues [active] 861208001920 aspartate-rich region 2; other site 861208001921 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 861208001922 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 861208001923 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; cl16911 861208001924 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 861208001925 tandem repeat interface [polypeptide binding]; other site 861208001926 oligomer interface [polypeptide binding]; other site 861208001927 active site residues [active] 861208001928 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 861208001929 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 861208001930 dimer interface [polypeptide binding]; other site 861208001931 motif 1; other site 861208001932 active site 861208001933 motif 2; other site 861208001934 motif 3; other site 861208001935 LemA family; Region: LemA; cl00742 861208001936 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 861208001937 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 861208001938 hinge; other site 861208001939 active site 861208001940 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 861208001941 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 861208001942 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 861208001943 Protein of unknown function (DUF523); Region: DUF523; cl00733 861208001944 Cache domain; Region: Cache_2; cl07034 861208001945 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208001946 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208001947 dimer interface [polypeptide binding]; other site 861208001948 putative CheW interface [polypeptide binding]; other site 861208001949 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 861208001950 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 861208001951 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208001952 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 861208001953 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 861208001954 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 861208001955 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 861208001956 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 861208001957 RNA binding site [nucleotide binding]; other site 861208001958 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 861208001959 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 861208001960 S-adenosylmethionine binding site [chemical binding]; other site 861208001961 MltA-interacting protein MipA; Region: MipA; cl01504 861208001962 UbiA prenyltransferase family; Region: UbiA; cl00337 861208001963 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208001964 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208001965 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208001966 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208001967 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208001968 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 861208001969 Helix-turn-helix domains; Region: HTH; cl00088 861208001970 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 861208001971 dimerization interface [polypeptide binding]; other site 861208001972 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 861208001973 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 861208001974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 861208001975 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 861208001976 Phosphate transporter family; Region: PHO4; cl00396 861208001977 Phosphate transporter family; Region: PHO4; cl00396 861208001978 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 861208001979 nudix motif; other site 861208001980 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 861208001981 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 861208001982 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 861208001983 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 861208001984 putative ADP-binding pocket [chemical binding]; other site 861208001985 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208001986 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208001987 DNA-binding site [nucleotide binding]; DNA binding site 861208001988 FCD domain; Region: FCD; cl11656 861208001989 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 861208001990 Helix-turn-helix domains; Region: HTH; cl00088 861208001991 transcriptional activator TtdR; Provisional; Region: PRK09801 861208001992 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208001993 putative effector binding pocket; other site 861208001994 dimerization interface [polypeptide binding]; other site 861208001995 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 861208001996 FAD binding domain; Region: FAD_binding_4; pfam01565 861208001997 FAD binding domain; Region: FAD_binding_4; pfam01565 861208001998 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 861208001999 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 861208002000 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 861208002001 Cysteine-rich domain; Region: CCG; pfam02754 861208002002 Cysteine-rich domain; Region: CCG; pfam02754 861208002003 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; cl01155 861208002004 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208002005 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 861208002006 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 861208002007 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 861208002008 Helix-turn-helix domains; Region: HTH; cl00088 861208002009 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 861208002010 putative dimerization interface [polypeptide binding]; other site 861208002011 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 861208002012 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 861208002013 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 861208002014 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 861208002015 dimer interface [polypeptide binding]; other site 861208002016 motif 1; other site 861208002017 active site 861208002018 motif 2; other site 861208002019 motif 3; other site 861208002020 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 861208002021 anticodon binding site; other site 861208002022 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 861208002023 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208002024 dimer interface [polypeptide binding]; other site 861208002025 putative metal binding site [ion binding]; other site 861208002026 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 861208002027 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 861208002028 motif 1; other site 861208002029 dimer interface [polypeptide binding]; other site 861208002030 active site 861208002031 motif 2; other site 861208002032 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 861208002033 motif 3; other site 861208002034 ATP phosphoribosyltransferase; Region: HisG; cl15266 861208002035 DoxX; Region: DoxX; cl00976 861208002036 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 861208002037 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 861208002038 ring oligomerisation interface [polypeptide binding]; other site 861208002039 ATP/Mg binding site [chemical binding]; other site 861208002040 stacking interactions; other site 861208002041 hinge regions; other site 861208002042 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 861208002043 oligomerisation interface [polypeptide binding]; other site 861208002044 mobile loop; other site 861208002045 roof hairpin; other site 861208002046 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 861208002047 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 861208002048 active site 861208002049 motif I; other site 861208002050 motif II; other site 861208002051 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208002052 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 861208002053 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 861208002054 active site 861208002055 Riboflavin kinase; Region: Flavokinase; cl03312 861208002056 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 861208002057 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 861208002058 active site 861208002059 HIGH motif; other site 861208002060 nucleotide binding site [chemical binding]; other site 861208002061 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 861208002062 active site 861208002063 KMSKS motif; other site 861208002064 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 861208002065 tRNA binding surface [nucleotide binding]; other site 861208002066 anticodon binding site; other site 861208002067 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 861208002068 nucleoside/Zn binding site; other site 861208002069 dimer interface [polypeptide binding]; other site 861208002070 catalytic motif [active] 861208002071 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 861208002072 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 861208002073 RNA binding surface [nucleotide binding]; other site 861208002074 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 861208002075 active site 861208002076 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; cl16911 861208002077 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 861208002078 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 861208002079 nucleophile elbow; other site 861208002080 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 861208002081 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 861208002082 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 861208002083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208002084 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 861208002085 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 861208002086 active site 861208002087 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 861208002088 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 861208002089 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 861208002090 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 861208002091 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 861208002092 motif II; other site 861208002093 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 861208002094 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 861208002095 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 861208002096 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 861208002097 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 861208002098 ATP binding site [chemical binding]; other site 861208002099 Mg2+ binding site [ion binding]; other site 861208002100 G-X-G motif; other site 861208002101 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 861208002102 ATP binding site [chemical binding]; other site 861208002103 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 861208002104 PAS fold; Region: PAS_7; pfam12860 861208002105 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 861208002106 PAS fold; Region: PAS_4; pfam08448 861208002107 Response regulator receiver domain; Region: Response_reg; pfam00072 861208002108 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 861208002109 active site 861208002110 phosphorylation site [posttranslational modification] 861208002111 intermolecular recognition site; other site 861208002112 dimerization interface [polypeptide binding]; other site 861208002113 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208002114 metal binding site [ion binding]; metal-binding site 861208002115 active site 861208002116 I-site; other site 861208002117 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 861208002118 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 861208002119 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 861208002120 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 861208002121 active site 861208002122 intersubunit interface [polypeptide binding]; other site 861208002123 catalytic residue [active] 861208002124 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 861208002125 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 861208002126 classical (c) SDRs; Region: SDR_c; cd05233 861208002127 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208002128 NAD(P) binding site [chemical binding]; other site 861208002129 active site 861208002130 Transcriptional regulator [Transcription]; Region: IclR; COG1414 861208002131 Helix-turn-helix domains; Region: HTH; cl00088 861208002132 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208002133 Autoinducer binding domain; Region: Autoind_bind; pfam03472 861208002134 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 861208002135 DNA binding residues [nucleotide binding] 861208002136 dimerization interface [polypeptide binding]; other site 861208002137 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 861208002138 NMT1-like family; Region: NMT1_2; cl15260 861208002139 Domain of unknown function DUF59; Region: DUF59; cl00941 861208002140 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 861208002141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208002142 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 861208002143 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 861208002144 K+ potassium transporter; Region: K_trans; cl15781 861208002145 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 861208002146 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 861208002147 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 861208002148 ATP synthase A chain; Region: ATP-synt_A; cl00413 861208002149 ATP synthase subunit C; Region: ATP-synt_C; cl00466 861208002150 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 861208002151 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 861208002152 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 861208002153 RNA/DNA hybrid binding site [nucleotide binding]; other site 861208002154 active site 861208002155 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 861208002156 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 861208002157 FeS/SAM binding site; other site 861208002158 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 861208002159 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 861208002160 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 861208002161 FAD binding domain; Region: FAD_binding_4; pfam01565 861208002162 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 861208002163 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 861208002164 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 861208002165 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 861208002166 [2Fe-2S] cluster binding site [ion binding]; other site 861208002167 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 861208002168 putative alpha subunit interface [polypeptide binding]; other site 861208002169 putative active site [active] 861208002170 putative substrate binding site [chemical binding]; other site 861208002171 Fe binding site [ion binding]; other site 861208002172 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 861208002173 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 861208002174 FAD binding pocket [chemical binding]; other site 861208002175 FAD binding motif [chemical binding]; other site 861208002176 phosphate binding motif [ion binding]; other site 861208002177 beta-alpha-beta structure motif; other site 861208002178 NAD binding pocket [chemical binding]; other site 861208002179 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 861208002180 catalytic loop [active] 861208002181 iron binding site [ion binding]; other site 861208002182 BA14K-like protein; Region: BA14K; pfam07886 861208002183 BA14K-like protein; Region: BA14K; pfam07886 861208002184 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 861208002185 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 861208002186 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 861208002187 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 861208002188 active site 861208002189 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 861208002190 enoyl-CoA hydratase; Provisional; Region: PRK06688 861208002191 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 861208002192 substrate binding site [chemical binding]; other site 861208002193 oxyanion hole (OAH) forming residues; other site 861208002194 trimer interface [polypeptide binding]; other site 861208002195 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 861208002196 TRAM domain; Region: TRAM; cl01282 861208002197 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 861208002198 S-adenosylmethionine binding site [chemical binding]; other site 861208002199 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 861208002200 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 861208002201 RNA binding surface [nucleotide binding]; other site 861208002202 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 861208002203 S-adenosylmethionine binding site [chemical binding]; other site 861208002204 CHASE3 domain; Region: CHASE3; cl05000 861208002205 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 861208002206 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208002207 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208002208 dimer interface [polypeptide binding]; other site 861208002209 putative CheW interface [polypeptide binding]; other site 861208002210 Uncharacterized conserved protein [Function unknown]; Region: COG3603 861208002211 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 861208002212 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 861208002213 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 861208002214 non-specific DNA binding site [nucleotide binding]; other site 861208002215 salt bridge; other site 861208002216 sequence-specific DNA binding site [nucleotide binding]; other site 861208002217 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 861208002218 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 861208002219 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 861208002220 TPP-binding site; other site 861208002221 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 861208002222 PYR/PP interface [polypeptide binding]; other site 861208002223 dimer interface [polypeptide binding]; other site 861208002224 TPP binding site [chemical binding]; other site 861208002225 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 861208002226 Pirin-related protein [General function prediction only]; Region: COG1741 861208002227 Cupin domain; Region: Cupin_2; cl09118 861208002228 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 861208002229 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 861208002230 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 861208002231 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 861208002232 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 861208002233 Cobalt transport protein; Region: CbiQ; cl00463 861208002234 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 861208002235 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 861208002236 Walker A/P-loop; other site 861208002237 ATP binding site [chemical binding]; other site 861208002238 Q-loop/lid; other site 861208002239 ABC transporter signature motif; other site 861208002240 Walker B; other site 861208002241 D-loop; other site 861208002242 H-loop/switch region; other site 861208002243 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 861208002244 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 861208002245 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 861208002246 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 861208002247 dimerization interface [polypeptide binding]; other site 861208002248 active site 861208002249 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 861208002250 Tetramer interface [polypeptide binding]; other site 861208002251 active site 861208002252 FMN-binding site [chemical binding]; other site 861208002253 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 861208002254 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 861208002255 catalytic core [active] 861208002256 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 861208002257 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 861208002258 NAD binding site [chemical binding]; other site 861208002259 homotetramer interface [polypeptide binding]; other site 861208002260 homodimer interface [polypeptide binding]; other site 861208002261 substrate binding site [chemical binding]; other site 861208002262 active site 861208002263 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 861208002264 HSP70 interaction site [polypeptide binding]; other site 861208002265 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 861208002266 substrate binding site [polypeptide binding]; other site 861208002267 dimer interface [polypeptide binding]; other site 861208002268 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 861208002269 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 861208002270 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 861208002271 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 861208002272 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria; Region: NTP-PPase_u1; cd11538 861208002273 metal binding site [ion binding]; metal-binding site 861208002274 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 861208002275 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 861208002276 motif II; other site 861208002277 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 861208002278 dimer interface [polypeptide binding]; other site 861208002279 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208002280 ligand binding site [chemical binding]; other site 861208002281 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 861208002282 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 861208002283 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 861208002284 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 861208002285 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 861208002286 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 861208002287 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 861208002288 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 861208002289 Subunit I/III interface [polypeptide binding]; other site 861208002290 D-pathway; other site 861208002291 Subunit I/VIIc interface [polypeptide binding]; other site 861208002292 Subunit I/IV interface [polypeptide binding]; other site 861208002293 Subunit I/II interface [polypeptide binding]; other site 861208002294 Low-spin heme (heme a) binding site [chemical binding]; other site 861208002295 Subunit I/VIIa interface [polypeptide binding]; other site 861208002296 Subunit I/VIa interface [polypeptide binding]; other site 861208002297 Dimer interface; other site 861208002298 Putative water exit pathway; other site 861208002299 Binuclear center (heme a3/CuB) [ion binding]; other site 861208002300 K-pathway; other site 861208002301 Subunit I/Vb interface [polypeptide binding]; other site 861208002302 Putative proton exit pathway; other site 861208002303 Subunit I/VIb interface; other site 861208002304 Subunit I/VIc interface [polypeptide binding]; other site 861208002305 Electron transfer pathway; other site 861208002306 Subunit I/VIIIb interface [polypeptide binding]; other site 861208002307 Subunit I/VIIb interface [polypeptide binding]; other site 861208002308 UbiA prenyltransferase family; Region: UbiA; cl00337 861208002309 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 861208002310 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 861208002311 Subunit III/VIIa interface [polypeptide binding]; other site 861208002312 Phospholipid binding site [chemical binding]; other site 861208002313 Subunit I/III interface [polypeptide binding]; other site 861208002314 Subunit III/VIb interface [polypeptide binding]; other site 861208002315 Subunit III/VIa interface; other site 861208002316 Subunit III/Vb interface [polypeptide binding]; other site 861208002317 Protein of unknown function (DUF983); Region: DUF983; cl02211 861208002318 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 861208002319 LytB protein; Region: LYTB; cl00507 861208002320 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 861208002321 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 861208002322 Phosphotransferase enzyme family; Region: APH; pfam01636 861208002323 putative active site [active] 861208002324 putative substrate binding site [chemical binding]; other site 861208002325 ATP binding site [chemical binding]; other site 861208002326 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 861208002327 RNA/DNA hybrid binding site [nucleotide binding]; other site 861208002328 active site 861208002329 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 861208002330 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 861208002331 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; cl01155 861208002332 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 861208002333 catalytic triad [active] 861208002334 dimer interface [polypeptide binding]; other site 861208002335 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 861208002336 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 861208002337 CsbD-like; Region: CsbD; cl15799 861208002338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 861208002339 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 861208002340 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 861208002341 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 861208002342 putative active site [active] 861208002343 PAS fold; Region: PAS_3; pfam08447 861208002344 heme pocket [chemical binding]; other site 861208002345 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208002346 metal binding site [ion binding]; metal-binding site 861208002347 active site 861208002348 I-site; other site 861208002349 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 861208002350 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 861208002351 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208002352 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 861208002353 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 861208002354 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 861208002355 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 861208002356 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 861208002357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208002358 catalytic residue [active] 861208002359 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 861208002360 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 861208002361 motif II; other site 861208002362 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208002363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208002364 DNA-binding site [nucleotide binding]; DNA binding site 861208002365 FCD domain; Region: FCD; cl11656 861208002366 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 861208002367 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 861208002368 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; cl16911 861208002369 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 861208002370 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208002371 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 861208002372 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 861208002373 minor groove reading motif; other site 861208002374 helix-hairpin-helix signature motif; other site 861208002375 substrate binding pocket [chemical binding]; other site 861208002376 active site 861208002377 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 861208002378 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 861208002379 DNA binding and oxoG recognition site [nucleotide binding] 861208002380 Protein of unknown function (DUF721); Region: DUF721; cl02324 861208002381 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 861208002382 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 861208002383 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 861208002384 Walker A/P-loop; other site 861208002385 ATP binding site [chemical binding]; other site 861208002386 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 861208002387 ABC transporter signature motif; other site 861208002388 Walker B; other site 861208002389 D-loop; other site 861208002390 H-loop/switch region; other site 861208002391 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 861208002392 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 861208002393 putative metal binding site [ion binding]; other site 861208002394 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 861208002395 active site 861208002396 metal binding site [ion binding]; metal-binding site 861208002397 pyruvate phosphate dikinase; Provisional; Region: PRK09279 861208002398 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 861208002399 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 861208002400 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 861208002401 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 861208002402 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 861208002403 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 861208002404 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 861208002405 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 861208002406 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208002407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208002408 Predicted dehydrogenase [General function prediction only]; Region: COG0579 861208002409 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 861208002410 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 861208002411 CysD dimerization site [polypeptide binding]; other site 861208002412 G1 box; other site 861208002413 putative GEF interaction site [polypeptide binding]; other site 861208002414 GTP/Mg2+ binding site [chemical binding]; other site 861208002415 Switch I region; other site 861208002416 G2 box; other site 861208002417 G3 box; other site 861208002418 Switch II region; other site 861208002419 G4 box; other site 861208002420 G5 box; other site 861208002421 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 861208002422 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 861208002423 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 861208002424 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 861208002425 Active Sites [active] 861208002426 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 861208002427 Active Sites [active] 861208002428 Predicted transcriptional regulator [Transcription]; Region: COG1959 861208002429 Helix-turn-helix domains; Region: HTH; cl00088 861208002430 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 861208002431 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 861208002432 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 861208002433 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 861208002434 dimer interface [polypeptide binding]; other site 861208002435 conserved gate region; other site 861208002436 putative PBP binding loops; other site 861208002437 ABC-ATPase subunit interface; other site 861208002438 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 861208002439 dimer interface [polypeptide binding]; other site 861208002440 conserved gate region; other site 861208002441 putative PBP binding loops; other site 861208002442 ABC-ATPase subunit interface; other site 861208002443 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 861208002444 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 861208002445 Walker A/P-loop; other site 861208002446 ATP binding site [chemical binding]; other site 861208002447 Q-loop/lid; other site 861208002448 ABC transporter signature motif; other site 861208002449 Walker B; other site 861208002450 D-loop; other site 861208002451 H-loop/switch region; other site 861208002452 TOBE-like domain; Region: TOBE_3; pfam12857 861208002453 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 861208002454 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 861208002455 NAD(P) binding site [chemical binding]; other site 861208002456 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 861208002457 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 861208002458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208002459 metal binding site [ion binding]; metal-binding site 861208002460 active site 861208002461 I-site; other site 861208002462 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 861208002463 transcriptional regulator BetI; Validated; Region: PRK00767 861208002464 Helix-turn-helix domains; Region: HTH; cl00088 861208002465 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 861208002466 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208002467 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 861208002468 NAD(P) binding site [chemical binding]; other site 861208002469 catalytic residues [active] 861208002470 choline dehydrogenase; Validated; Region: PRK02106 861208002471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208002472 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 861208002473 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 861208002474 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 861208002475 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 861208002476 putative ion selectivity filter; other site 861208002477 putative pore gating glutamate residue; other site 861208002478 putative H+/Cl- coupling transport residue; other site 861208002479 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 861208002480 L-asparaginase II; Region: Asparaginase_II; cl01842 861208002481 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 861208002482 glutathionine S-transferase; Provisional; Region: PRK10542 861208002483 C-terminal domain interface [polypeptide binding]; other site 861208002484 GSH binding site (G-site) [chemical binding]; other site 861208002485 dimer interface [polypeptide binding]; other site 861208002486 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 861208002487 dimer interface [polypeptide binding]; other site 861208002488 N-terminal domain interface [polypeptide binding]; other site 861208002489 substrate binding pocket (H-site) [chemical binding]; other site 861208002490 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 861208002491 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 861208002492 putative C-terminal domain interface [polypeptide binding]; other site 861208002493 putative GSH binding site (G-site) [chemical binding]; other site 861208002494 putative dimer interface [polypeptide binding]; other site 861208002495 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 861208002496 dimer interface [polypeptide binding]; other site 861208002497 N-terminal domain interface [polypeptide binding]; other site 861208002498 putative substrate binding pocket (H-site) [chemical binding]; other site 861208002499 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208002500 Helix-turn-helix domains; Region: HTH; cl00088 861208002501 D-galactonate transporter; Region: 2A0114; TIGR00893 861208002502 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 861208002503 putative substrate translocation pore; other site 861208002504 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 861208002505 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208002506 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 861208002507 ATP-dependent DNA ligase; Validated; Region: PRK09247 861208002508 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 861208002509 active site 861208002510 DNA binding site [nucleotide binding] 861208002511 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 861208002512 DNA binding site [nucleotide binding] 861208002513 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 861208002514 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 861208002515 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 861208002516 metal-binding site [ion binding] 861208002517 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 861208002518 metal-binding site [ion binding] 861208002519 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 861208002520 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 861208002521 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208002522 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208002523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 861208002524 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208002525 Transcriptional regulators [Transcription]; Region: MarR; COG1846 861208002526 Helix-turn-helix domains; Region: HTH; cl00088 861208002527 OsmC-like protein; Region: OsmC; cl00767 861208002528 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 861208002529 RES domain; Region: RES; cl02411 861208002530 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 861208002531 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 861208002532 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 861208002533 YCII-related domain; Region: YCII; cl00999 861208002534 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208002535 Helix-turn-helix domains; Region: HTH; cl00088 861208002536 Helix-turn-helix domains; Region: HTH; cl00088 861208002537 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 861208002538 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 861208002539 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208002540 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 861208002541 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208002542 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 861208002543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208002544 Helix-turn-helix domains; Region: HTH; cl00088 861208002545 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 861208002546 putative effector binding pocket; other site 861208002547 putative dimerization interface [polypeptide binding]; other site 861208002548 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 861208002549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208002550 NAD(P) binding site [chemical binding]; other site 861208002551 active site 861208002552 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 861208002553 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208002554 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 861208002555 Helix-turn-helix domains; Region: HTH; cl00088 861208002556 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 861208002557 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 861208002558 putative NAD(P) binding site [chemical binding]; other site 861208002559 active site 861208002560 Cupin domain; Region: Cupin_2; cl09118 861208002561 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208002562 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208002563 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208002564 LysE type translocator; Region: LysE; cl00565 861208002565 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 861208002566 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 861208002567 active site 861208002568 catalytic tetrad [active] 861208002569 Helix-turn-helix domains; Region: HTH; cl00088 861208002570 WYL domain; Region: WYL; cl14852 861208002571 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208002572 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_11; cd07261 861208002573 putative dimer interface [polypeptide binding]; other site 861208002574 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 861208002575 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 861208002576 S-adenosylmethionine binding site [chemical binding]; other site 861208002577 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 861208002578 homodimer interface [polypeptide binding]; other site 861208002579 substrate-cofactor binding pocket; other site 861208002580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208002581 catalytic residue [active] 861208002582 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 861208002583 dimerization interface [polypeptide binding]; other site 861208002584 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208002585 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208002586 dimer interface [polypeptide binding]; other site 861208002587 putative CheW interface [polypeptide binding]; other site 861208002588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208002589 Helix-turn-helix domains; Region: HTH; cl00088 861208002590 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 861208002591 dimerization interface [polypeptide binding]; other site 861208002592 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 861208002593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208002594 Coenzyme A binding pocket [chemical binding]; other site 861208002595 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 861208002596 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 861208002597 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 861208002598 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain; Region: MPP_Nbla03831; cd07396 861208002599 active site 861208002600 metal binding site [ion binding]; metal-binding site 861208002601 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 861208002602 Helix-turn-helix domains; Region: HTH; cl00088 861208002603 WYL domain; Region: WYL; cl14852 861208002604 LysE type translocator; Region: LysE; cl00565 861208002605 Cytochrome C'; Region: Cytochrom_C_2; cl01610 861208002606 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 861208002607 Cytochrome c; Region: Cytochrom_C; cl11414 861208002608 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 861208002609 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 861208002610 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 861208002611 intracellular protease, PfpI family; Region: PfpI; TIGR01382 861208002612 conserved cys residue [active] 861208002613 putative acetyltransferase; Provisional; Region: PRK03624 861208002614 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208002615 Coenzyme A binding pocket [chemical binding]; other site 861208002616 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 861208002617 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 861208002618 DNA binding residues [nucleotide binding] 861208002619 dimer interface [polypeptide binding]; other site 861208002620 putative metal binding site [ion binding]; other site 861208002621 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 861208002622 putative metal binding site [ion binding]; other site 861208002623 putative homotetramer interface [polypeptide binding]; other site 861208002624 putative homodimer interface [polypeptide binding]; other site 861208002625 putative homodimer-homodimer interface [polypeptide binding]; other site 861208002626 putative allosteric switch controlling residues; other site 861208002627 Cation efflux family; Region: Cation_efflux; cl00316 861208002628 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 861208002629 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 861208002630 Walker A/P-loop; other site 861208002631 ATP binding site [chemical binding]; other site 861208002632 Q-loop/lid; other site 861208002633 ABC transporter signature motif; other site 861208002634 Walker B; other site 861208002635 D-loop; other site 861208002636 H-loop/switch region; other site 861208002637 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 861208002638 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 861208002639 dimer interface [polypeptide binding]; other site 861208002640 conserved gate region; other site 861208002641 ABC-ATPase subunit interface; other site 861208002642 NMT1-like family; Region: NMT1_2; cl15260 861208002643 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 861208002644 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 861208002645 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 861208002646 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 861208002647 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 861208002648 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 861208002649 inhibitor site; inhibition site 861208002650 active site 861208002651 dimer interface [polypeptide binding]; other site 861208002652 catalytic residue [active] 861208002653 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 861208002654 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 861208002655 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 861208002656 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 861208002657 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 861208002658 DNA binding site [nucleotide binding] 861208002659 active site 861208002660 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 861208002661 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 861208002662 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 861208002663 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 861208002664 putative metal binding site [ion binding]; other site 861208002665 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 861208002666 active site 861208002667 metal binding site [ion binding]; metal-binding site 861208002668 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 861208002669 Ligand Binding Site [chemical binding]; other site 861208002670 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 861208002671 Haemolysin-III related; Region: HlyIII; cl03831 861208002672 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 861208002673 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208002674 Coenzyme A binding pocket [chemical binding]; other site 861208002675 LysE type translocator; Region: LysE; cl00565 861208002676 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 861208002677 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 861208002678 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 861208002679 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 861208002680 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 861208002681 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 861208002682 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 861208002683 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 861208002684 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 861208002685 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 861208002686 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 861208002687 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 861208002688 Predicted transcriptional regulator [Transcription]; Region: COG4957 861208002689 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 861208002690 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 861208002691 DnaA box-binding interface [nucleotide binding]; other site 861208002692 Fe-S metabolism associated domain; Region: SufE; cl00951 861208002693 PAS domain; Region: PAS_9; pfam13426 861208002694 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 861208002695 dimer interface [polypeptide binding]; other site 861208002696 phosphorylation site [posttranslational modification] 861208002697 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 861208002698 ATP binding site [chemical binding]; other site 861208002699 Mg2+ binding site [ion binding]; other site 861208002700 G-X-G motif; other site 861208002701 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 861208002702 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208002703 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208002704 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 861208002705 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 861208002706 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 861208002707 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 861208002708 hypothetical protein; Provisional; Region: PRK07079 861208002709 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 861208002710 metal binding site [ion binding]; metal-binding site 861208002711 putative dimer interface [polypeptide binding]; other site 861208002712 LysE type translocator; Region: LysE; cl00565 861208002713 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 861208002714 Helix-turn-helix domains; Region: HTH; cl00088 861208002715 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 861208002716 dimerization interface [polypeptide binding]; other site 861208002717 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 861208002718 active site 861208002719 metal binding site [ion binding]; metal-binding site 861208002720 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208002721 Transglycosylase; Region: Transgly; cl07896 861208002722 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 861208002723 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208002724 Flagellin N-methylase; Region: FliB; cl00497 861208002725 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208002726 Methyltransferase domain; Region: Methyltransf_31; pfam13847 861208002727 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 861208002728 S-adenosylmethionine binding site [chemical binding]; other site 861208002729 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 861208002730 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 861208002731 DNA binding residues [nucleotide binding] 861208002732 dimer interface [polypeptide binding]; other site 861208002733 copper binding site [ion binding]; other site 861208002734 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 861208002735 putative substrate translocation pore; other site 861208002736 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 861208002737 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 861208002738 substrate binding [chemical binding]; other site 861208002739 active site 861208002740 PAS fold; Region: PAS_4; pfam08448 861208002741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 861208002742 Histidine kinase; Region: HisKA_2; cl06527 861208002743 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 861208002744 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 861208002745 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 861208002746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208002747 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 861208002748 Helix-turn-helix domains; Region: HTH; cl00088 861208002749 AsnC family; Region: AsnC_trans_reg; pfam01037 861208002750 Helix-turn-helix domains; Region: HTH; cl00088 861208002751 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 861208002752 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 861208002753 NADP binding site [chemical binding]; other site 861208002754 Predicted membrane protein [Function unknown]; Region: COG4425 861208002755 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 861208002756 Uncharacterized conserved protein [Function unknown]; Region: COG5323 861208002757 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 861208002758 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 861208002759 Phage-related protein [Function unknown]; Region: COG4695; cl01923 861208002760 Phage portal protein; Region: Phage_portal; pfam04860 861208002761 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 861208002762 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 861208002763 Phage capsid family; Region: Phage_capsid; pfam05065 861208002764 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 861208002765 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 861208002766 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 861208002767 oligomerization interface [polypeptide binding]; other site 861208002768 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 861208002769 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 861208002770 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 861208002771 putative substrate translocation pore; other site 861208002772 Phage major tail protein 2; Region: Phage_tail_2; cl11463 861208002773 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 861208002774 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 861208002775 Phage-related minor tail protein [Function unknown]; Region: COG5281 861208002776 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 861208002777 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 861208002778 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 861208002779 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 861208002780 NlpC/P60 family; Region: NLPC_P60; cl11438 861208002781 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 861208002782 Putative phage tail protein; Region: Phage-tail_3; pfam13550 861208002783 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208002784 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 861208002785 active site 861208002786 phosphorylation site [posttranslational modification] 861208002787 intermolecular recognition site; other site 861208002788 dimerization interface [polypeptide binding]; other site 861208002789 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 861208002790 DNA binding site [nucleotide binding] 861208002791 sensor protein PhoQ; Provisional; Region: PRK10815 861208002792 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 861208002793 ATP binding site [chemical binding]; other site 861208002794 Mg2+ binding site [ion binding]; other site 861208002795 G-X-G motif; other site 861208002796 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 861208002797 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 861208002798 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 861208002799 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 861208002800 CcmE; Region: CcmE; cl00994 861208002801 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 861208002802 Cytochrome C biogenesis protein; Region: CcmH; cl01179 861208002803 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 861208002804 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 861208002805 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 861208002806 protein binding site [polypeptide binding]; other site 861208002807 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 861208002808 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208002809 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 861208002810 active site 861208002811 phosphorylation site [posttranslational modification] 861208002812 intermolecular recognition site; other site 861208002813 dimerization interface [polypeptide binding]; other site 861208002814 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 861208002815 DNA binding site [nucleotide binding] 861208002816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 861208002817 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 861208002818 dimerization interface [polypeptide binding]; other site 861208002819 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 861208002820 dimer interface [polypeptide binding]; other site 861208002821 phosphorylation site [posttranslational modification] 861208002822 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 861208002823 ATP binding site [chemical binding]; other site 861208002824 Mg2+ binding site [ion binding]; other site 861208002825 G-X-G motif; other site 861208002826 Protein of unknown function, DUF393; Region: DUF393; cl01136 861208002827 MltA-interacting protein MipA; Region: MipA; cl01504 861208002828 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 861208002829 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 861208002830 metal binding triad; other site 861208002831 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 861208002832 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 861208002833 metal binding triad; other site 861208002834 PAS fold; Region: PAS_3; pfam08447 861208002835 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 861208002836 sensory histidine kinase AtoS; Provisional; Region: PRK11360 861208002837 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 861208002838 dimer interface [polypeptide binding]; other site 861208002839 phosphorylation site [posttranslational modification] 861208002840 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 861208002841 ATP binding site [chemical binding]; other site 861208002842 Mg2+ binding site [ion binding]; other site 861208002843 G-X-G motif; other site 861208002844 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208002845 aminopeptidase N; Provisional; Region: pepN; PRK14015 861208002846 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 861208002847 active site 861208002848 Zn binding site [ion binding]; other site 861208002849 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 861208002850 EamA-like transporter family; Region: EamA; cl01037 861208002851 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 861208002852 Fe-S cluster binding site [ion binding]; other site 861208002853 active site 861208002854 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 861208002855 PAS fold; Region: PAS_7; pfam12860 861208002856 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208002857 metal binding site [ion binding]; metal-binding site 861208002858 active site 861208002859 I-site; other site 861208002860 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208002861 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 861208002862 putative NAD(P) binding site [chemical binding]; other site 861208002863 putative active site [active] 861208002864 Cation efflux family; Region: Cation_efflux; cl00316 861208002865 Protein of unknown function, DUF488; Region: DUF488; cl01246 861208002866 polynucleotide 5'-kinase 3'-phosphatase; Region: PNK-3'Pase; TIGR01663 861208002867 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 861208002868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208002869 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 861208002870 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 861208002871 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 861208002872 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 861208002873 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 861208002874 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 861208002875 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 861208002876 putative NAD(P) binding site [chemical binding]; other site 861208002877 dimer interface [polypeptide binding]; other site 861208002878 Helix-turn-helix domains; Region: HTH; cl00088 861208002879 Bacitracin resistance protein BacA; Region: BacA; cl00858 861208002880 Predicted ATPase [General function prediction only]; Region: COG4637 861208002881 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208002882 Walker A/P-loop; other site 861208002883 ATP binding site [chemical binding]; other site 861208002884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208002885 ABC transporter signature motif; other site 861208002886 Walker B; other site 861208002887 D-loop; other site 861208002888 H-loop/switch region; other site 861208002889 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 861208002890 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 861208002891 MgtE intracellular N domain; Region: MgtE_N; cl15244 861208002892 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 861208002893 Divalent cation transporter; Region: MgtE; cl00786 861208002894 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 861208002895 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 861208002896 putative substrate translocation pore; other site 861208002897 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 861208002898 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 861208002899 putative aminotransferase; Validated; Region: PRK07480 861208002900 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 861208002901 inhibitor-cofactor binding pocket; inhibition site 861208002902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208002903 catalytic residue [active] 861208002904 OsmC-like protein; Region: OsmC; cl00767 861208002905 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 861208002906 putative active site [active] 861208002907 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 861208002908 AMP nucleosidase; Provisional; Region: PRK08292 861208002909 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 861208002910 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 861208002911 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]; Region: COG2074 861208002912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208002913 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 861208002914 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 861208002915 Sel1 repeat; Region: Sel1; cl02723 861208002916 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 861208002917 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 861208002918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208002919 homodimer interface [polypeptide binding]; other site 861208002920 catalytic residue [active] 861208002921 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 861208002922 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 861208002923 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 861208002924 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 861208002925 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 861208002926 Porin subfamily; Region: Porin_2; pfam02530 861208002927 Porin subfamily; Region: Porin_2; pfam02530 861208002928 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 861208002929 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 861208002930 N-acetyl-D-glucosamine binding site [chemical binding]; other site 861208002931 catalytic residue [active] 861208002932 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 861208002933 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 861208002934 dimer interface [polypeptide binding]; other site 861208002935 active site 861208002936 catalytic residue [active] 861208002937 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 861208002938 SmpB-tmRNA interface; other site 861208002939 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 861208002940 heme-binding site [chemical binding]; other site 861208002941 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208002942 dimer interface [polypeptide binding]; other site 861208002943 putative CheW interface [polypeptide binding]; other site 861208002944 Uncharacterized conserved protein [Function unknown]; Region: COG1432 861208002945 LabA_like proteins; Region: LabA; cd10911 861208002946 putative metal binding site [ion binding]; other site 861208002947 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 861208002948 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 861208002949 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 861208002950 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 861208002951 synthetase active site [active] 861208002952 NTP binding site [chemical binding]; other site 861208002953 metal binding site [ion binding]; metal-binding site 861208002954 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 861208002955 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 861208002956 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 861208002957 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 861208002958 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 861208002959 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 861208002960 Catalytic site [active] 861208002961 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 861208002962 ribonuclease III; Reviewed; Region: PRK12371 861208002963 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 861208002964 dimerization interface [polypeptide binding]; other site 861208002965 active site 861208002966 metal binding site [ion binding]; metal-binding site 861208002967 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 861208002968 dsRNA binding site [nucleotide binding]; other site 861208002969 GTPase Era; Reviewed; Region: era; PRK00089 861208002970 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 861208002971 G1 box; other site 861208002972 GTP/Mg2+ binding site [chemical binding]; other site 861208002973 Switch I region; other site 861208002974 G2 box; other site 861208002975 Switch II region; other site 861208002976 G3 box; other site 861208002977 G4 box; other site 861208002978 G5 box; other site 861208002979 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 861208002980 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 861208002981 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 861208002982 ligand binding site [chemical binding]; other site 861208002983 flexible hinge region; other site 861208002984 Helix-turn-helix domains; Region: HTH; cl00088 861208002985 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 861208002986 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 861208002987 active site 861208002988 phosphorylation site [posttranslational modification] 861208002989 intermolecular recognition site; other site 861208002990 dimerization interface [polypeptide binding]; other site 861208002991 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 861208002992 Recombination protein O N terminal; Region: RecO_N; cl15812 861208002993 Recombination protein O C terminal; Region: RecO_C; pfam02565 861208002994 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 861208002995 Major Facilitator Superfamily; Region: MFS_1; pfam07690 861208002996 putative substrate translocation pore; other site 861208002997 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 861208002998 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 861208002999 S-adenosylmethionine binding site [chemical binding]; other site 861208003000 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 861208003001 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 861208003002 MOSC domain; Region: MOSC; pfam03473 861208003003 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 861208003004 Predicted membrane protein [Function unknown]; Region: COG5373 861208003005 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 861208003006 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208003007 Zn binding site [ion binding]; other site 861208003008 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 861208003009 Zn binding site [ion binding]; other site 861208003010 Predicted esterase [General function prediction only]; Region: COG0400 861208003011 NMT1/THI5 like; Region: NMT1; pfam09084 861208003012 NMT1-like family; Region: NMT1_2; cl15260 861208003013 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 861208003014 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 861208003015 Walker A/P-loop; other site 861208003016 ATP binding site [chemical binding]; other site 861208003017 Q-loop/lid; other site 861208003018 ABC transporter signature motif; other site 861208003019 Walker B; other site 861208003020 D-loop; other site 861208003021 H-loop/switch region; other site 861208003022 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 861208003023 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 861208003024 YodA lipocalin-like domain; Region: YodA; cl01365 861208003025 Mechanosensitive ion channel; Region: MS_channel; pfam00924 861208003026 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 861208003027 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 861208003028 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 861208003029 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 861208003030 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 861208003031 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 861208003032 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 861208003033 nudix motif; other site 861208003034 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 861208003035 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 861208003036 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 861208003037 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 861208003038 active site 861208003039 phosphorylation site [posttranslational modification] 861208003040 intermolecular recognition site; other site 861208003041 dimerization interface [polypeptide binding]; other site 861208003042 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 861208003043 active site 861208003044 phosphorylation site [posttranslational modification] 861208003045 intermolecular recognition site; other site 861208003046 dimerization interface [polypeptide binding]; other site 861208003047 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208003048 metal binding site [ion binding]; metal-binding site 861208003049 active site 861208003050 I-site; other site 861208003051 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 861208003052 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 861208003053 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 861208003054 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208003055 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 861208003056 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 861208003057 Walker A/P-loop; other site 861208003058 ATP binding site [chemical binding]; other site 861208003059 Q-loop/lid; other site 861208003060 ABC transporter signature motif; other site 861208003061 Walker B; other site 861208003062 D-loop; other site 861208003063 H-loop/switch region; other site 861208003064 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 861208003065 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 861208003066 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 861208003067 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 861208003068 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 861208003069 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208003070 Predicted permeases [General function prediction only]; Region: RarD; COG2962 861208003071 EamA-like transporter family; Region: EamA; cl01037 861208003072 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 861208003073 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 861208003074 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 861208003075 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 861208003076 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 861208003077 putative active site [active] 861208003078 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 861208003079 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 861208003080 active site 861208003081 HIGH motif; other site 861208003082 nucleotide binding site [chemical binding]; other site 861208003083 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 861208003084 KMSKS motif; other site 861208003085 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 861208003086 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208003087 classical (c) SDRs; Region: SDR_c; cd05233 861208003088 NAD(P) binding site [chemical binding]; other site 861208003089 active site 861208003090 amidophosphoribosyltransferase; Provisional; Region: PRK09123 861208003091 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 861208003092 active site 861208003093 tetramer interface [polypeptide binding]; other site 861208003094 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 861208003095 active site 861208003096 Colicin V production protein; Region: Colicin_V; cl00567 861208003097 DNA repair protein RadA; Provisional; Region: PRK11823 861208003098 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 861208003099 Walker A motif/ATP binding site; other site 861208003100 ATP binding site [chemical binding]; other site 861208003101 Walker B motif; other site 861208003102 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 861208003103 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 861208003104 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 861208003105 active site 861208003106 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 861208003107 dimer interface [polypeptide binding]; other site 861208003108 substrate binding site [chemical binding]; other site 861208003109 catalytic residues [active] 861208003110 Cupin domain; Region: Cupin_2; cl09118 861208003111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208003112 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208003113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208003114 AzlC protein; Region: AzlC; cl00570 861208003115 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 861208003116 replicative DNA helicase; Provisional; Region: PRK09165 861208003117 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 861208003118 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 861208003119 Walker A motif; other site 861208003120 ATP binding site [chemical binding]; other site 861208003121 Walker B motif; other site 861208003122 DNA binding loops [nucleotide binding] 861208003123 Helix-turn-helix domains; Region: HTH; cl00088 861208003124 transcriptional regulator SlyA; Provisional; Region: PRK03573 861208003125 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 861208003126 putative substrate translocation pore; other site 861208003127 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 861208003128 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 861208003129 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 861208003130 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 861208003131 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 861208003132 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 861208003133 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 861208003134 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 861208003135 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 861208003136 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 861208003137 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 861208003138 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 861208003139 active site 861208003140 catalytic tetrad [active] 861208003141 Acyl transferase domain; Region: Acyl_transf_1; cl08282 861208003142 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 861208003143 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 861208003144 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 861208003145 NAD(P) binding site [chemical binding]; other site 861208003146 homotetramer interface [polypeptide binding]; other site 861208003147 homodimer interface [polypeptide binding]; other site 861208003148 active site 861208003149 Phosphopantetheine attachment site; Region: PP-binding; cl09936 861208003150 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 861208003151 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 861208003152 dimer interface [polypeptide binding]; other site 861208003153 active site 861208003154 YceG-like family; Region: YceG; pfam02618 861208003155 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 861208003156 dimerization interface [polypeptide binding]; other site 861208003157 hypothetical protein; Provisional; Region: PRK11820 861208003158 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 861208003159 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 861208003160 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 861208003161 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 861208003162 catalytic site [active] 861208003163 G-X2-G-X-G-K; other site 861208003164 Predicted esterase [General function prediction only]; Region: COG0400 861208003165 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 861208003166 S-adenosylmethionine binding site [chemical binding]; other site 861208003167 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 861208003168 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 861208003169 SurA N-terminal domain; Region: SurA_N_3; cl07813 861208003170 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 861208003171 Organic solvent tolerance protein; Region: OstA_C; pfam04453 861208003172 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 861208003173 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 861208003174 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 861208003175 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 861208003176 multifunctional aminopeptidase A; Provisional; Region: PRK00913 861208003177 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 861208003178 interface (dimer of trimers) [polypeptide binding]; other site 861208003179 Substrate-binding/catalytic site; other site 861208003180 Zn-binding sites [ion binding]; other site 861208003181 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 861208003182 GAF domain; Region: GAF; cl15785 861208003183 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208003184 metal binding site [ion binding]; metal-binding site 861208003185 active site 861208003186 I-site; other site 861208003187 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208003188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208003189 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 861208003190 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 861208003191 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 861208003192 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 861208003193 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 861208003194 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 861208003195 ABC transporter; Region: ABC_tran_2; pfam12848 861208003196 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 861208003197 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 861208003198 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208003199 metal binding site [ion binding]; metal-binding site 861208003200 active site 861208003201 I-site; other site 861208003202 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 861208003203 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 861208003204 putative C-terminal domain interface [polypeptide binding]; other site 861208003205 putative GSH binding site (G-site) [chemical binding]; other site 861208003206 putative dimer interface [polypeptide binding]; other site 861208003207 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 861208003208 putative N-terminal domain interface [polypeptide binding]; other site 861208003209 putative dimer interface [polypeptide binding]; other site 861208003210 putative substrate binding pocket (H-site) [chemical binding]; other site 861208003211 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 861208003212 active site 861208003213 multimer interface [polypeptide binding]; other site 861208003214 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 861208003215 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 861208003216 CGNR zinc finger; Region: zf-CGNR; pfam11706 861208003217 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 861208003218 TM-ABC transporter signature motif; other site 861208003219 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 861208003220 MoaE homodimer interface [polypeptide binding]; other site 861208003221 MoaD interaction [polypeptide binding]; other site 861208003222 active site residues [active] 861208003223 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 861208003224 MoaE interaction surface [polypeptide binding]; other site 861208003225 MoeB interaction surface [polypeptide binding]; other site 861208003226 thiocarboxylated glycine; other site 861208003227 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 861208003228 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 861208003229 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 861208003230 GIY-YIG motif/motif A; other site 861208003231 active site 861208003232 catalytic site [active] 861208003233 putative DNA binding site [nucleotide binding]; other site 861208003234 metal binding site [ion binding]; metal-binding site 861208003235 UvrB/uvrC motif; Region: UVR; pfam02151 861208003236 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 861208003237 pteridine reductase; Provisional; Region: PRK09135 861208003238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208003239 NAD(P) binding site [chemical binding]; other site 861208003240 active site 861208003241 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; cl01155 861208003242 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 861208003243 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 861208003244 putative C-terminal domain interface [polypeptide binding]; other site 861208003245 putative GSH binding site (G-site) [chemical binding]; other site 861208003246 putative dimer interface [polypeptide binding]; other site 861208003247 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 861208003248 dimer interface [polypeptide binding]; other site 861208003249 N-terminal domain interface [polypeptide binding]; other site 861208003250 putative substrate binding pocket (H-site) [chemical binding]; other site 861208003251 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 861208003252 B1 nucleotide binding pocket [chemical binding]; other site 861208003253 B2 nucleotide binding pocket [chemical binding]; other site 861208003254 CAS motifs; other site 861208003255 active site 861208003256 Predicted integral membrane protein [Function unknown]; Region: COG0392 861208003257 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 861208003258 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 861208003259 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 861208003260 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 861208003261 putative [4Fe-4S] binding site [ion binding]; other site 861208003262 putative molybdopterin cofactor binding site [chemical binding]; other site 861208003263 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 861208003264 putative molybdopterin cofactor binding site; other site 861208003265 potential frameshift: common BLAST hit: gi|159184632|ref|NP_354155.2| MutT family NTP pyrophosphatase 861208003266 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 861208003267 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 861208003268 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 861208003269 metal binding site [ion binding]; metal-binding site 861208003270 dimer interface [polypeptide binding]; other site 861208003271 Omptin family; Region: Omptin; cl01886 861208003272 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 861208003273 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 861208003274 active site 861208003275 substrate binding site [chemical binding]; other site 861208003276 cosubstrate binding site; other site 861208003277 catalytic site [active] 861208003278 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 861208003279 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 861208003280 dimerization interface [polypeptide binding]; other site 861208003281 putative ATP binding site [chemical binding]; other site 861208003282 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 861208003283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208003284 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 861208003285 polyphosphate kinase; Provisional; Region: PRK05443 861208003286 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 861208003287 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 861208003288 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 861208003289 putative domain interface [polypeptide binding]; other site 861208003290 putative active site [active] 861208003291 catalytic site [active] 861208003292 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 861208003293 putative domain interface [polypeptide binding]; other site 861208003294 putative active site [active] 861208003295 catalytic site [active] 861208003296 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 861208003297 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 861208003298 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 861208003299 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 861208003300 trimer interface [polypeptide binding]; other site 861208003301 active site 861208003302 substrate binding site [chemical binding]; other site 861208003303 CoA binding site [chemical binding]; other site 861208003304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 861208003305 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 861208003306 cyclase homology domain; Region: CHD; cd07302 861208003307 nucleotidyl binding site; other site 861208003308 metal binding site [ion binding]; metal-binding site 861208003309 dimer interface [polypeptide binding]; other site 861208003310 ribonuclease D; Region: rnd; TIGR01388 861208003311 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 861208003312 catalytic site [active] 861208003313 putative active site [active] 861208003314 putative substrate binding site [chemical binding]; other site 861208003315 HRDC domain; Region: HRDC; cl02578 861208003316 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 861208003317 Major Facilitator Superfamily; Region: MFS_1; pfam07690 861208003318 putative substrate translocation pore; other site 861208003319 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 861208003320 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 861208003321 dimer interface [polypeptide binding]; other site 861208003322 anticodon binding site; other site 861208003323 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 861208003324 homodimer interface [polypeptide binding]; other site 861208003325 motif 1; other site 861208003326 active site 861208003327 motif 2; other site 861208003328 GAD domain; Region: GAD; pfam02938 861208003329 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 861208003330 active site 861208003331 motif 3; other site 861208003332 Inner membrane protein CreD; Region: CreD; cl01844 861208003333 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 861208003334 Sulfate transporter family; Region: Sulfate_transp; cl15842 861208003335 Sulfate transporter family; Region: Sulfate_transp; cl15842 861208003336 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 861208003337 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 861208003338 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 861208003339 CAP-like domain; other site 861208003340 active site 861208003341 primary dimer interface [polypeptide binding]; other site 861208003342 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 861208003343 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 861208003344 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 861208003345 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 861208003346 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208003347 RDD family; Region: RDD; cl00746 861208003348 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 861208003349 dimer interface [polypeptide binding]; other site 861208003350 allosteric magnesium binding site [ion binding]; other site 861208003351 active site 861208003352 aspartate-rich active site metal binding site; other site 861208003353 Schiff base residues; other site 861208003354 Helix-turn-helix domains; Region: HTH; cl00088 861208003355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 861208003356 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208003357 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 861208003358 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 861208003359 dimer interface [polypeptide binding]; other site 861208003360 active site 861208003361 glycine-pyridoxal phosphate binding site [chemical binding]; other site 861208003362 folate binding site [chemical binding]; other site 861208003363 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 861208003364 ATP cone domain; Region: ATP-cone; pfam03477 861208003365 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 861208003366 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 861208003367 catalytic motif [active] 861208003368 Zn binding site [ion binding]; other site 861208003369 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 861208003370 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 861208003371 Lumazine binding domain; Region: Lum_binding; pfam00677 861208003372 Lumazine binding domain; Region: Lum_binding; pfam00677 861208003373 LysE type translocator; Region: LysE; cl00565 861208003374 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 861208003375 homopentamer interface [polypeptide binding]; other site 861208003376 active site 861208003377 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 861208003378 putative RNA binding site [nucleotide binding]; other site 861208003379 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 861208003380 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 861208003381 putative substrate translocation pore; other site 861208003382 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 861208003383 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 861208003384 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 861208003385 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 861208003386 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 861208003387 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 861208003388 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 861208003389 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 861208003390 dimer interface [polypeptide binding]; other site 861208003391 active site 861208003392 CoA binding pocket [chemical binding]; other site 861208003393 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 861208003394 IHF dimer interface [polypeptide binding]; other site 861208003395 IHF - DNA interface [nucleotide binding]; other site 861208003396 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 861208003397 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 861208003398 DNA binding residues [nucleotide binding] 861208003399 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 861208003400 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 861208003401 metal-binding site [ion binding] 861208003402 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 861208003403 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 861208003404 metal-binding site [ion binding] 861208003405 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 861208003406 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208003407 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 861208003408 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 861208003409 catalytic loop [active] 861208003410 iron binding site [ion binding]; other site 861208003411 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 861208003412 FAD binding pocket [chemical binding]; other site 861208003413 FAD binding motif [chemical binding]; other site 861208003414 phosphate binding motif [ion binding]; other site 861208003415 beta-alpha-beta structure motif; other site 861208003416 NAD binding pocket [chemical binding]; other site 861208003417 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 861208003418 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 861208003419 DNA binding residues [nucleotide binding] 861208003420 dimer interface [polypeptide binding]; other site 861208003421 copper binding site [ion binding]; other site 861208003422 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208003423 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 861208003424 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 861208003425 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 861208003426 dimer interface [polypeptide binding]; other site 861208003427 conserved gate region; other site 861208003428 putative PBP binding loops; other site 861208003429 ABC-ATPase subunit interface; other site 861208003430 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 861208003431 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 861208003432 Walker A/P-loop; other site 861208003433 ATP binding site [chemical binding]; other site 861208003434 Q-loop/lid; other site 861208003435 ABC transporter signature motif; other site 861208003436 Walker B; other site 861208003437 D-loop; other site 861208003438 H-loop/switch region; other site 861208003439 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208003440 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 861208003441 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 861208003442 Walker A/P-loop; other site 861208003443 ATP binding site [chemical binding]; other site 861208003444 Q-loop/lid; other site 861208003445 ABC transporter signature motif; other site 861208003446 Walker B; other site 861208003447 D-loop; other site 861208003448 H-loop/switch region; other site 861208003449 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208003450 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 861208003451 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208003452 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; cl00207 861208003453 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 861208003454 Cation transport protein; Region: TrkH; cl10514 861208003455 threonine dehydratase; Validated; Region: PRK08639 861208003456 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 861208003457 tetramer interface [polypeptide binding]; other site 861208003458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208003459 catalytic residue [active] 861208003460 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 861208003461 Transcriptional activator HlyU; Region: HlyU; cl02273 861208003462 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208003463 metal binding site [ion binding]; metal-binding site 861208003464 active site 861208003465 I-site; other site 861208003466 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 861208003467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208003468 Helix-turn-helix domains; Region: HTH; cl00088 861208003469 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 861208003470 dimerization interface [polypeptide binding]; other site 861208003471 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 861208003472 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 861208003473 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 861208003474 active site 861208003475 metal binding site [ion binding]; metal-binding site 861208003476 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 861208003477 PilZ domain; Region: PilZ; cl01260 861208003478 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 861208003479 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 861208003480 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 861208003481 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 861208003482 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 861208003483 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 861208003484 active site residue [active] 861208003485 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 861208003486 active site residue [active] 861208003487 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 861208003488 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 861208003489 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 861208003490 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 861208003491 dimer interface [polypeptide binding]; other site 861208003492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208003493 catalytic residue [active] 861208003494 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 861208003495 DNA photolyase; Region: DNA_photolyase; pfam00875 861208003496 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 861208003497 Protein of unknown function (DUF982); Region: DUF982; pfam06169 861208003498 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 861208003499 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 861208003500 DNA binding site [nucleotide binding] 861208003501 active site 861208003502 NlpC/P60 family; Region: NLPC_P60; cl11438 861208003503 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 861208003504 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 861208003505 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 861208003506 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 861208003507 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 861208003508 intersubunit interface [polypeptide binding]; other site 861208003509 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 861208003510 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 861208003511 putative PBP binding regions; other site 861208003512 ABC-ATPase subunit interface; other site 861208003513 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 861208003514 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 861208003515 Walker A/P-loop; other site 861208003516 ATP binding site [chemical binding]; other site 861208003517 Q-loop/lid; other site 861208003518 ABC transporter signature motif; other site 861208003519 Walker B; other site 861208003520 D-loop; other site 861208003521 H-loop/switch region; other site 861208003522 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 861208003523 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 861208003524 Ferritin-like domain; Region: Ferritin; pfam00210 861208003525 ferroxidase diiron center [ion binding]; other site 861208003526 Enolase [Carbohydrate transport and metabolism]; Region: Eno; COG0148 861208003527 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 861208003528 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 861208003529 Bacterial sugar transferase; Region: Bac_transf; cl00939 861208003530 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 861208003531 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208003532 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 861208003533 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 861208003534 SLBB domain; Region: SLBB; pfam10531 861208003535 Chain length determinant protein; Region: Wzz; cl15801 861208003536 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 861208003537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208003538 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 861208003539 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208003540 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 861208003541 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 861208003542 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 861208003543 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 861208003544 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 861208003545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208003546 Arginase family; Region: Arginase; cl00306 861208003547 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 861208003548 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 861208003549 23S rRNA interface [nucleotide binding]; other site 861208003550 L3 interface [polypeptide binding]; other site 861208003551 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 861208003552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208003553 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 861208003554 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 861208003555 homodimer interface [polypeptide binding]; other site 861208003556 substrate-cofactor binding pocket; other site 861208003557 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208003558 catalytic residue [active] 861208003559 Cupin domain; Region: Cupin_2; cl09118 861208003560 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 861208003561 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208003562 metal binding site [ion binding]; metal-binding site 861208003563 active site 861208003564 I-site; other site 861208003565 Clp protease; Region: CLP_protease; pfam00574 861208003566 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 861208003567 oligomer interface [polypeptide binding]; other site 861208003568 active site residues [active] 861208003569 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 861208003570 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 861208003571 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 861208003572 Walker A motif; other site 861208003573 ATP binding site [chemical binding]; other site 861208003574 Walker B motif; other site 861208003575 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 861208003576 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 861208003577 Found in ATP-dependent protease La (LON); Region: LON; smart00464 861208003578 Found in ATP-dependent protease La (LON); Region: LON; smart00464 861208003579 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 861208003580 Walker A motif; other site 861208003581 ATP binding site [chemical binding]; other site 861208003582 Walker B motif; other site 861208003583 arginine finger; other site 861208003584 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 861208003585 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 861208003586 IHF dimer interface [polypeptide binding]; other site 861208003587 IHF - DNA interface [nucleotide binding]; other site 861208003588 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 861208003589 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 861208003590 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 861208003591 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 861208003592 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 861208003593 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 861208003594 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 861208003595 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 861208003596 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 861208003597 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 861208003598 putative dimer interface [polypeptide binding]; other site 861208003599 [2Fe-2S] cluster binding site [ion binding]; other site 861208003600 Uncharacterized conserved protein [Function unknown]; Region: COG3743 861208003601 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 861208003602 SLBB domain; Region: SLBB; pfam10531 861208003603 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 861208003604 NADH dehydrogenase subunit G; Validated; Region: PRK09130 861208003605 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 861208003606 catalytic loop [active] 861208003607 iron binding site [ion binding]; other site 861208003608 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 861208003609 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 861208003610 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 861208003611 NADH dehydrogenase; Region: NADHdh; cl00469 861208003612 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 861208003613 4Fe-4S binding domain; Region: Fer4; cl02805 861208003614 4Fe-4S binding domain; Region: Fer4; cl02805 861208003615 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 861208003616 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 861208003617 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 861208003618 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 861208003619 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 861208003620 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 861208003621 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 861208003622 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 861208003623 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 861208003624 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 861208003625 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 861208003626 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 861208003627 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 861208003628 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 861208003629 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 861208003630 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208003631 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 861208003632 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 861208003633 prolyl-tRNA synthetase; Provisional; Region: PRK12325 861208003634 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 861208003635 dimer interface [polypeptide binding]; other site 861208003636 motif 1; other site 861208003637 active site 861208003638 motif 2; other site 861208003639 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 861208003640 active site 861208003641 motif 3; other site 861208003642 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 861208003643 anticodon binding site; other site 861208003644 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 861208003645 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 861208003646 FtsX-like permease family; Region: FtsX; cl15850 861208003647 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 861208003648 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 861208003649 Walker A/P-loop; other site 861208003650 ATP binding site [chemical binding]; other site 861208003651 Q-loop/lid; other site 861208003652 ABC transporter signature motif; other site 861208003653 Walker B; other site 861208003654 D-loop; other site 861208003655 H-loop/switch region; other site 861208003656 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 861208003657 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 861208003658 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 861208003659 generic binding surface II; other site 861208003660 generic binding surface I; other site 861208003661 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208003662 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 861208003663 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208003664 hypothetical protein; Provisional; Region: PRK06132 861208003665 DNA polymerase IV; Provisional; Region: PRK02794 861208003666 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 861208003667 active site 861208003668 DNA binding site [nucleotide binding] 861208003669 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 861208003670 Response regulator receiver domain; Region: Response_reg; pfam00072 861208003671 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 861208003672 active site 861208003673 phosphorylation site [posttranslational modification] 861208003674 intermolecular recognition site; other site 861208003675 dimerization interface [polypeptide binding]; other site 861208003676 response regulator PleD; Reviewed; Region: pleD; PRK09581 861208003677 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 861208003678 active site 861208003679 phosphorylation site [posttranslational modification] 861208003680 intermolecular recognition site; other site 861208003681 dimerization interface [polypeptide binding]; other site 861208003682 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 861208003683 active site 861208003684 phosphorylation site [posttranslational modification] 861208003685 intermolecular recognition site; other site 861208003686 dimerization interface [polypeptide binding]; other site 861208003687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208003688 metal binding site [ion binding]; metal-binding site 861208003689 active site 861208003690 I-site; other site 861208003691 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 861208003692 Major Facilitator Superfamily; Region: MFS_1; pfam07690 861208003693 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 861208003694 putative substrate translocation pore; other site 861208003695 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 861208003696 Protein of unknown function (DUF983); Region: DUF983; cl02211 861208003697 ribonuclease R; Region: RNase_R; TIGR02063 861208003698 RNB domain; Region: RNB; pfam00773 861208003699 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 861208003700 RNA binding site [nucleotide binding]; other site 861208003701 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 861208003702 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 861208003703 active site 861208003704 interdomain interaction site; other site 861208003705 putative metal-binding site [ion binding]; other site 861208003706 nucleotide binding site [chemical binding]; other site 861208003707 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 861208003708 domain I; other site 861208003709 DNA binding groove [nucleotide binding] 861208003710 phosphate binding site [ion binding]; other site 861208003711 domain II; other site 861208003712 domain III; other site 861208003713 nucleotide binding site [chemical binding]; other site 861208003714 catalytic site [active] 861208003715 domain IV; other site 861208003716 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 861208003717 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 861208003718 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 861208003719 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 861208003720 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 861208003721 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 861208003722 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 861208003723 dihydroorotase; Validated; Region: PRK09059 861208003724 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 861208003725 active site 861208003726 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 861208003727 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 861208003728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208003729 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 861208003730 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 861208003731 active site 861208003732 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208003733 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208003734 Helix-turn-helix domains; Region: HTH; cl00088 861208003735 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 861208003736 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208003737 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 861208003738 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 861208003739 Amidase; Region: Amidase; cl11426 861208003740 Uncharacterized protein conserved in bacteria (DUF2084); Region: DUF2084; cl01566 861208003741 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 861208003742 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208003743 Coenzyme A binding pocket [chemical binding]; other site 861208003744 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 861208003745 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 861208003746 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 861208003747 GatB domain; Region: GatB_Yqey; cl11497 861208003748 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208003749 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 861208003750 Coenzyme A binding pocket [chemical binding]; other site 861208003751 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 861208003752 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 861208003753 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208003754 Coenzyme A binding pocket [chemical binding]; other site 861208003755 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 861208003756 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 861208003757 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208003758 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 861208003759 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 861208003760 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208003761 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 861208003762 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 861208003763 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 861208003764 carboxyltransferase (CT) interaction site; other site 861208003765 biotinylation site [posttranslational modification]; other site 861208003766 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 861208003767 trimer interface [polypeptide binding]; other site 861208003768 active site 861208003769 dimer interface [polypeptide binding]; other site 861208003770 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 861208003771 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 861208003772 catalytic residues [active] 861208003773 aspartate aminotransferase; Provisional; Region: PRK05764 861208003774 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 861208003775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208003776 homodimer interface [polypeptide binding]; other site 861208003777 catalytic residue [active] 861208003778 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 861208003779 dimerization interface [polypeptide binding]; other site 861208003780 putative DNA binding site [nucleotide binding]; other site 861208003781 putative Zn2+ binding site [ion binding]; other site 861208003782 NIPSNAP; Region: NIPSNAP; pfam07978 861208003783 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 861208003784 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 861208003785 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 861208003786 putative NAD(P) binding site [chemical binding]; other site 861208003787 putative active site [active] 861208003788 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 861208003789 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 861208003790 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 861208003791 AMIN domain; Region: AMIN; pfam11741 861208003792 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 861208003793 active site 861208003794 metal binding site [ion binding]; metal-binding site 861208003795 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 861208003796 Transglycosylase; Region: Transgly; cl07896 861208003797 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208003798 peptide chain release factor 2; Provisional; Region: PRK07342 861208003799 RF-1 domain; Region: RF-1; cl02875 861208003800 RF-1 domain; Region: RF-1; cl02875 861208003801 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; cl00220 861208003802 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 861208003803 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 861208003804 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 861208003805 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 861208003806 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 861208003807 dihydropteroate synthase; Region: DHPS; TIGR01496 861208003808 substrate binding pocket [chemical binding]; other site 861208003809 dimer interface [polypeptide binding]; other site 861208003810 inhibitor binding site; inhibition site 861208003811 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 861208003812 homooctamer interface [polypeptide binding]; other site 861208003813 active site 861208003814 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 861208003815 catalytic center binding site [active] 861208003816 ATP binding site [chemical binding]; other site 861208003817 Predicted membrane protein [Function unknown]; Region: COG3768 861208003818 Domain of unknown function (DUF697); Region: DUF697; cl12064 861208003819 YcjX-like family, DUF463; Region: DUF463; cl01193 861208003820 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 861208003821 catalytic core [active] 861208003822 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 861208003823 PAS domain; Region: PAS_9; pfam13426 861208003824 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 861208003825 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 861208003826 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 861208003827 dimer interface [polypeptide binding]; other site 861208003828 phosphorylation site [posttranslational modification] 861208003829 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 861208003830 ATP binding site [chemical binding]; other site 861208003831 Mg2+ binding site [ion binding]; other site 861208003832 G-X-G motif; other site 861208003833 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 861208003834 Response regulator receiver domain; Region: Response_reg; pfam00072 861208003835 active site 861208003836 phosphorylation site [posttranslational modification] 861208003837 intermolecular recognition site; other site 861208003838 dimerization interface [polypeptide binding]; other site 861208003839 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 861208003840 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 861208003841 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 861208003842 Walker A motif; other site 861208003843 ATP binding site [chemical binding]; other site 861208003844 Walker B motif; other site 861208003845 arginine finger; other site 861208003846 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 861208003847 Walker A motif; other site 861208003848 ATP binding site [chemical binding]; other site 861208003849 Walker B motif; other site 861208003850 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 861208003851 AzlC protein; Region: AzlC; cl00570 861208003852 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 861208003853 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 861208003854 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208003855 Helix-turn-helix domains; Region: HTH; cl00088 861208003856 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 861208003857 dimerization interface [polypeptide binding]; other site 861208003858 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 861208003859 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 861208003860 HIT family signature motif; other site 861208003861 catalytic residue [active] 861208003862 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208003863 Protein of unknown function, DUF482; Region: DUF482; pfam04339 861208003864 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 861208003865 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 861208003866 putative active site [active] 861208003867 catalytic site [active] 861208003868 putative metal binding site [ion binding]; other site 861208003869 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 861208003870 homotrimer interaction site [polypeptide binding]; other site 861208003871 putative active site [active] 861208003872 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 861208003873 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 861208003874 rRNA interaction site [nucleotide binding]; other site 861208003875 S8 interaction site; other site 861208003876 putative laminin-1 binding site; other site 861208003877 elongation factor Ts; Provisional; Region: tsf; PRK09377 861208003878 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 861208003879 Elongation factor TS; Region: EF_TS; pfam00889 861208003880 Elongation factor TS; Region: EF_TS; pfam00889 861208003881 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 861208003882 putative nucleotide binding site [chemical binding]; other site 861208003883 uridine monophosphate binding site [chemical binding]; other site 861208003884 homohexameric interface [polypeptide binding]; other site 861208003885 ribosome recycling factor; Reviewed; Region: frr; PRK00083 861208003886 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 861208003887 hinge region; other site 861208003888 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 861208003889 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 861208003890 catalytic residue [active] 861208003891 putative FPP diphosphate binding site; other site 861208003892 putative FPP binding hydrophobic cleft; other site 861208003893 dimer interface [polypeptide binding]; other site 861208003894 putative IPP diphosphate binding site; other site 861208003895 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 861208003896 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 861208003897 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 861208003898 active site 861208003899 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 861208003900 protein binding site [polypeptide binding]; other site 861208003901 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 861208003902 putative substrate binding region [chemical binding]; other site 861208003903 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 861208003904 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 861208003905 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 861208003906 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 861208003907 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 861208003908 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 861208003909 Surface antigen; Region: Bac_surface_Ag; cl03097 861208003910 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 861208003911 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 861208003912 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 861208003913 trimer interface [polypeptide binding]; other site 861208003914 active site 861208003915 UDP-GlcNAc binding site [chemical binding]; other site 861208003916 lipid binding site [chemical binding]; lipid-binding site 861208003917 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 861208003918 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 861208003919 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 861208003920 active site 861208003921 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 861208003922 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 861208003923 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 861208003924 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 861208003925 dimer interface [polypeptide binding]; other site 861208003926 Citrate synthase; Region: Citrate_synt; pfam00285 861208003927 active site 861208003928 citrylCoA binding site [chemical binding]; other site 861208003929 NADH binding [chemical binding]; other site 861208003930 cationic pore residues; other site 861208003931 oxalacetate/citrate binding site [chemical binding]; other site 861208003932 coenzyme A binding site [chemical binding]; other site 861208003933 catalytic triad [active] 861208003934 Competence protein; Region: Competence; cl00471 861208003935 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 861208003936 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 861208003937 putative C-terminal domain interface [polypeptide binding]; other site 861208003938 putative GSH binding site (G-site) [chemical binding]; other site 861208003939 putative dimer interface [polypeptide binding]; other site 861208003940 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 861208003941 putative N-terminal domain interface [polypeptide binding]; other site 861208003942 putative dimer interface [polypeptide binding]; other site 861208003943 putative substrate binding pocket (H-site) [chemical binding]; other site 861208003944 LexA repressor; Validated; Region: PRK00215 861208003945 Helix-turn-helix domains; Region: HTH; cl00088 861208003946 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 861208003947 Catalytic site [active] 861208003948 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 861208003949 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 861208003950 NeuB family; Region: NeuB; cl00496 861208003951 enolase; Provisional; Region: eno; PRK00077 861208003952 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 861208003953 dimer interface [polypeptide binding]; other site 861208003954 metal binding site [ion binding]; metal-binding site 861208003955 substrate binding pocket [chemical binding]; other site 861208003956 Septum formation initiator; Region: DivIC; cl11433 861208003957 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 861208003958 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 861208003959 tetramer interface [polypeptide binding]; other site 861208003960 TPP-binding site [chemical binding]; other site 861208003961 heterodimer interface [polypeptide binding]; other site 861208003962 phosphorylation loop region [posttranslational modification] 861208003963 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 861208003964 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 861208003965 E3 interaction surface; other site 861208003966 lipoyl attachment site [posttranslational modification]; other site 861208003967 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 861208003968 alpha subunit interface [polypeptide binding]; other site 861208003969 TPP binding site [chemical binding]; other site 861208003970 heterodimer interface [polypeptide binding]; other site 861208003971 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 861208003972 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 861208003973 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 861208003974 E3 interaction surface; other site 861208003975 lipoyl attachment site [posttranslational modification]; other site 861208003976 e3 binding domain; Region: E3_binding; pfam02817 861208003977 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 861208003978 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 861208003979 active site 861208003980 catalytic triad [active] 861208003981 oxyanion hole [active] 861208003982 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 861208003983 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 861208003984 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 861208003985 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 861208003986 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 861208003987 lipoyl synthase; Provisional; Region: PRK05481 861208003988 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 861208003989 FeS/SAM binding site; other site 861208003990 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208003991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208003992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208003993 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 861208003994 putative coenzyme Q binding site [chemical binding]; other site 861208003995 Competence-damaged protein; Region: CinA; cl00666 861208003996 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 861208003997 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 861208003998 substrate binding site; other site 861208003999 dimer interface; other site 861208004000 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 861208004001 homotrimer interaction site [polypeptide binding]; other site 861208004002 zinc binding site [ion binding]; other site 861208004003 CDP-binding sites; other site 861208004004 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 861208004005 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 861208004006 FMN binding site [chemical binding]; other site 861208004007 active site 861208004008 catalytic residues [active] 861208004009 substrate binding site [chemical binding]; other site 861208004010 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 861208004011 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 861208004012 dimer interface [polypeptide binding]; other site 861208004013 phosphorylation site [posttranslational modification] 861208004014 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 861208004015 ATP binding site [chemical binding]; other site 861208004016 Mg2+ binding site [ion binding]; other site 861208004017 G-X-G motif; other site 861208004018 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 861208004019 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 861208004020 active site 861208004021 phosphorylation site [posttranslational modification] 861208004022 intermolecular recognition site; other site 861208004023 dimerization interface [polypeptide binding]; other site 861208004024 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 861208004025 Walker A motif; other site 861208004026 ATP binding site [chemical binding]; other site 861208004027 Walker B motif; other site 861208004028 arginine finger; other site 861208004029 Helix-turn-helix domains; Region: HTH; cl00088 861208004030 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 861208004031 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 861208004032 dimerization interface [polypeptide binding]; other site 861208004033 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 861208004034 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 861208004035 dimer interface [polypeptide binding]; other site 861208004036 phosphorylation site [posttranslational modification] 861208004037 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 861208004038 ATP binding site [chemical binding]; other site 861208004039 Mg2+ binding site [ion binding]; other site 861208004040 G-X-G motif; other site 861208004041 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 861208004042 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 861208004043 active site 861208004044 phosphorylation site [posttranslational modification] 861208004045 intermolecular recognition site; other site 861208004046 dimerization interface [polypeptide binding]; other site 861208004047 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 861208004048 Walker A motif; other site 861208004049 ATP binding site [chemical binding]; other site 861208004050 Walker B motif; other site 861208004051 arginine finger; other site 861208004052 Helix-turn-helix domains; Region: HTH; cl00088 861208004053 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 861208004054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004055 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 861208004056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004057 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 861208004058 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 861208004059 Sm1 motif; other site 861208004060 intra - hexamer interaction site; other site 861208004061 inter - hexamer interaction site [polypeptide binding]; other site 861208004062 nucleotide binding pocket [chemical binding]; other site 861208004063 Sm2 motif; other site 861208004064 GTPases [General function prediction only]; Region: HflX; COG2262 861208004065 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 861208004066 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 861208004067 HflX GTPase family; Region: HflX; cd01878 861208004068 G1 box; other site 861208004069 GTP/Mg2+ binding site [chemical binding]; other site 861208004070 Switch I region; other site 861208004071 G2 box; other site 861208004072 G3 box; other site 861208004073 Switch II region; other site 861208004074 G4 box; other site 861208004075 G5 box; other site 861208004076 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 861208004077 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 861208004078 homodimer interface [polypeptide binding]; other site 861208004079 metal binding site [ion binding]; metal-binding site 861208004080 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs'; Region: NTP-PPase_MazG_Cterm; cd11529 861208004081 homodimer interface [polypeptide binding]; other site 861208004082 active site 861208004083 putative chemical substrate binding site [chemical binding]; other site 861208004084 metal binding site [ion binding]; metal-binding site 861208004085 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 861208004086 nucleoside/Zn binding site; other site 861208004087 dimer interface [polypeptide binding]; other site 861208004088 catalytic motif [active] 861208004089 siroheme synthase; Provisional; Region: cysG; PRK10637 861208004090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004091 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 861208004092 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 861208004093 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 861208004094 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 861208004095 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 861208004096 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 861208004097 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 861208004098 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 861208004099 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 861208004100 FAD binding pocket [chemical binding]; other site 861208004101 FAD binding motif [chemical binding]; other site 861208004102 phosphate binding motif [ion binding]; other site 861208004103 beta-alpha-beta structure motif; other site 861208004104 NAD binding pocket [chemical binding]; other site 861208004105 Major Facilitator Superfamily; Region: MFS_1; pfam07690 861208004106 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 861208004107 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 861208004108 putative catalytic site [active] 861208004109 putative metal binding site [ion binding]; other site 861208004110 putative metal binding site [ion binding]; other site 861208004111 putative phosphate binding site [ion binding]; other site 861208004112 glycine dehydrogenase; Provisional; Region: PRK05367 861208004113 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 861208004114 tetramer interface [polypeptide binding]; other site 861208004115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208004116 catalytic residue [active] 861208004117 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 861208004118 tetramer interface [polypeptide binding]; other site 861208004119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208004120 catalytic residue [active] 861208004121 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 861208004122 lipoyl attachment site [posttranslational modification]; other site 861208004123 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 861208004124 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 861208004125 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 861208004126 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 861208004127 Protein of unknown function (DUF461); Region: DUF461; cl01071 861208004128 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 861208004129 CrcB-like protein; Region: CRCB; cl09114 861208004130 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 861208004131 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 861208004132 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 861208004133 active site 861208004134 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 861208004135 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 861208004136 motif II; other site 861208004137 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208004138 ATP12 chaperone protein; Region: ATP12; cl02228 861208004139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208004140 Helix-turn-helix domains; Region: HTH; cl00088 861208004141 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 861208004142 homotrimer interaction site [polypeptide binding]; other site 861208004143 putative active site [active] 861208004144 Predicted esterase [General function prediction only]; Region: COG0627 861208004145 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 861208004146 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 861208004147 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 861208004148 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 861208004149 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 861208004150 dimer interface [polypeptide binding]; other site 861208004151 decamer (pentamer of dimers) interface [polypeptide binding]; other site 861208004152 catalytic triad [active] 861208004153 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 861208004154 putative C-terminal domain interface [polypeptide binding]; other site 861208004155 putative GSH binding site (G-site) [chemical binding]; other site 861208004156 maleylacetoacetate isomerase; Region: maiA; TIGR01262 861208004157 putative dimer interface [polypeptide binding]; other site 861208004158 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 861208004159 dimer interface [polypeptide binding]; other site 861208004160 N-terminal domain interface [polypeptide binding]; other site 861208004161 putative substrate binding pocket (H-site) [chemical binding]; other site 861208004162 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 861208004163 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 861208004164 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 861208004165 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 861208004166 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208004167 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 861208004168 DNA binding residues [nucleotide binding] 861208004169 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 861208004170 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 861208004171 YceI-like domain; Region: YceI; cl01001 861208004172 Helix-turn-helix domains; Region: HTH; cl00088 861208004173 Winged helix-turn helix; Region: HTH_29; pfam13551 861208004174 Helix-turn-helix domains; Region: HTH; cl00088 861208004175 Integrase core domain; Region: rve; cl01316 861208004176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208004177 Helix-turn-helix domains; Region: HTH; cl00088 861208004178 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 861208004179 putative dimerization interface [polypeptide binding]; other site 861208004180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 861208004181 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 861208004182 NMT1-like family; Region: NMT1_2; cl15260 861208004183 NMT1/THI5 like; Region: NMT1; pfam09084 861208004184 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 861208004185 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 861208004186 Walker A/P-loop; other site 861208004187 ATP binding site [chemical binding]; other site 861208004188 Q-loop/lid; other site 861208004189 ABC transporter signature motif; other site 861208004190 Walker B; other site 861208004191 D-loop; other site 861208004192 H-loop/switch region; other site 861208004193 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 861208004194 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 861208004195 PAS domain; Region: PAS_9; pfam13426 861208004196 putative active site [active] 861208004197 heme pocket [chemical binding]; other site 861208004198 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 861208004199 Histidine kinase; Region: HisKA_2; cl06527 861208004200 Response regulator receiver domain; Region: Response_reg; pfam00072 861208004201 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 861208004202 active site 861208004203 phosphorylation site [posttranslational modification] 861208004204 intermolecular recognition site; other site 861208004205 dimerization interface [polypeptide binding]; other site 861208004206 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 861208004207 GAF domain; Region: GAF; cl15785 861208004208 PAS domain S-box; Region: sensory_box; TIGR00229 861208004209 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 861208004210 PAS domain S-box; Region: sensory_box; TIGR00229 861208004211 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 861208004212 GAF domain; Region: GAF; cl15785 861208004213 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 861208004214 Histidine kinase; Region: HisKA_2; cl06527 861208004215 Response regulator receiver domain; Region: Response_reg; pfam00072 861208004216 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 861208004217 active site 861208004218 phosphorylation site [posttranslational modification] 861208004219 intermolecular recognition site; other site 861208004220 dimerization interface [polypeptide binding]; other site 861208004221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 861208004222 Putative glucoamylase; Region: Glycoamylase; pfam10091 861208004223 Cytochrome c; Region: Cytochrom_C; cl11414 861208004224 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 861208004225 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 861208004226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004227 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 861208004228 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208004229 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208004230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004231 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208004232 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208004233 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 861208004234 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208004235 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208004236 DNA binding site [nucleotide binding] 861208004237 domain linker motif; other site 861208004238 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 861208004239 dimerization interface [polypeptide binding]; other site 861208004240 ligand binding site [chemical binding]; other site 861208004241 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 861208004242 TM-ABC transporter signature motif; other site 861208004243 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 861208004244 TM-ABC transporter signature motif; other site 861208004245 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208004246 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 861208004247 Walker A/P-loop; other site 861208004248 ATP binding site [chemical binding]; other site 861208004249 Q-loop/lid; other site 861208004250 ABC transporter signature motif; other site 861208004251 Walker B; other site 861208004252 D-loop; other site 861208004253 H-loop/switch region; other site 861208004254 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 861208004255 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 861208004256 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208004257 putative ligand binding site [chemical binding]; other site 861208004258 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 861208004259 RNA/DNA hybrid binding site [nucleotide binding]; other site 861208004260 active site 861208004261 RDD family; Region: RDD; cl00746 861208004262 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 861208004263 S-adenosylmethionine binding site [chemical binding]; other site 861208004264 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 861208004265 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 861208004266 Cl- selectivity filter; other site 861208004267 Cl- binding residues [ion binding]; other site 861208004268 pore gating glutamate residue; other site 861208004269 dimer interface [polypeptide binding]; other site 861208004270 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 861208004271 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208004272 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 861208004273 active site 861208004274 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 861208004275 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 861208004276 active site 861208004277 HIGH motif; other site 861208004278 KMSKS motif; other site 861208004279 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 861208004280 tRNA binding surface [nucleotide binding]; other site 861208004281 anticodon binding site; other site 861208004282 DNA polymerase III subunit delta'; Validated; Region: PRK09112 861208004283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208004284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208004285 thymidylate kinase; Validated; Region: tmk; PRK00698 861208004286 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 861208004287 TMP-binding site; other site 861208004288 ATP-binding site [chemical binding]; other site 861208004289 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 861208004290 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208004291 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 861208004292 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 861208004293 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 861208004294 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 861208004295 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208004296 Sporulation related domain; Region: SPOR; cl10051 861208004297 DNA gyrase subunit A; Validated; Region: PRK05560 861208004298 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 861208004299 CAP-like domain; other site 861208004300 active site 861208004301 primary dimer interface [polypeptide binding]; other site 861208004302 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 861208004303 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 861208004304 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 861208004305 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 861208004306 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 861208004307 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 861208004308 MarC family integral membrane protein; Region: MarC; cl00919 861208004309 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 861208004310 HPP family; Region: HPP; pfam04982 861208004311 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 861208004312 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 861208004313 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 861208004314 dimer interface [polypeptide binding]; other site 861208004315 ssDNA binding site [nucleotide binding]; other site 861208004316 tetramer (dimer of dimers) interface [polypeptide binding]; other site 861208004317 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 861208004318 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 861208004319 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 861208004320 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 861208004321 Protein of unknown function DUF72; Region: DUF72; cl00777 861208004322 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 861208004323 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 861208004324 FMN binding site [chemical binding]; other site 861208004325 active site 861208004326 catalytic residues [active] 861208004327 substrate binding site [chemical binding]; other site 861208004328 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 861208004329 active site 861208004330 DNA binding site [nucleotide binding] 861208004331 Int/Topo IB signature motif; other site 861208004332 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208004333 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 861208004334 active site 861208004335 Int/Topo IB signature motif; other site 861208004336 catalytic residues [active] 861208004337 DNA binding site [nucleotide binding] 861208004338 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 861208004339 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 861208004340 catalytic residue [active] 861208004341 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208004342 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 861208004343 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 861208004344 Putative phage tail protein; Region: Phage-tail_3; pfam13550 861208004345 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 861208004346 putative acetyltransferase; Provisional; Region: PRK03624 861208004347 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208004348 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 861208004349 dimerization interface [polypeptide binding]; other site 861208004350 metal binding site [ion binding]; metal-binding site 861208004351 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 861208004352 AAA domain; Region: AAA_32; pfam13654 861208004353 Phage major tail protein 2; Region: Phage_tail_2; cl11463 861208004354 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 861208004355 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 861208004356 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 861208004357 oligomerization interface [polypeptide binding]; other site 861208004358 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 861208004359 Phage capsid family; Region: Phage_capsid; pfam05065 861208004360 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 861208004361 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 861208004362 tandem repeat interface [polypeptide binding]; other site 861208004363 oligomer interface [polypeptide binding]; other site 861208004364 active site residues [active] 861208004365 Phage-related protein [Function unknown]; Region: COG4695; cl01923 861208004366 Phage portal protein; Region: Phage_portal; pfam04860 861208004367 Phage Terminase; Region: Terminase_1; pfam03354 861208004368 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 861208004369 active site 861208004370 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 861208004371 Divergent AAA domain; Region: AAA_4; pfam04326 861208004372 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 861208004373 polymerase nucleotide-binding site; other site 861208004374 DNA-binding residues [nucleotide binding]; DNA binding site 861208004375 nucleotide binding site [chemical binding]; other site 861208004376 primase nucleotide-binding site [nucleotide binding]; other site 861208004377 AAA domain; Region: AAA_25; pfam13481 861208004378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208004379 Walker A motif; other site 861208004380 ATP binding site [chemical binding]; other site 861208004381 Walker B motif; other site 861208004382 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 861208004383 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 861208004384 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 861208004385 trimer interface [polypeptide binding]; other site 861208004386 putative metal binding site [ion binding]; other site 861208004387 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 861208004388 metal binding site 2 [ion binding]; metal-binding site 861208004389 putative DNA binding helix; other site 861208004390 metal binding site 1 [ion binding]; metal-binding site 861208004391 dimer interface [polypeptide binding]; other site 861208004392 structural Zn2+ binding site [ion binding]; other site 861208004393 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 861208004394 ABC-ATPase subunit interface; other site 861208004395 dimer interface [polypeptide binding]; other site 861208004396 putative PBP binding regions; other site 861208004397 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 861208004398 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 861208004399 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 861208004400 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 861208004401 metal binding site [ion binding]; metal-binding site 861208004402 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208004403 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208004404 DNA binding site [nucleotide binding] 861208004405 domain linker motif; other site 861208004406 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 861208004407 ligand binding site [chemical binding]; other site 861208004408 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 861208004409 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 861208004410 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 861208004411 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 861208004412 active site 861208004413 catalytic tetrad [active] 861208004414 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 861208004415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004416 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 861208004417 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 861208004418 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 861208004419 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 861208004420 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 861208004421 metal-binding site [ion binding] 861208004422 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 861208004423 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208004424 FixH; Region: FixH; cl01254 861208004425 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 861208004426 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 861208004427 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 861208004428 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208004429 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 861208004430 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 861208004431 Cytochrome c; Region: Cytochrom_C; cl11414 861208004432 Cytochrome c; Region: Cytochrom_C; cl11414 861208004433 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 861208004434 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 861208004435 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 861208004436 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 861208004437 Low-spin heme binding site [chemical binding]; other site 861208004438 Putative water exit pathway; other site 861208004439 Binuclear center (active site) [active] 861208004440 Putative proton exit pathway; other site 861208004441 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 861208004442 homotrimer interface [polypeptide binding]; other site 861208004443 Walker A motif; other site 861208004444 GTP binding site [chemical binding]; other site 861208004445 Walker B motif; other site 861208004446 Protein of unknown function, DUF599; Region: DUF599; cl01575 861208004447 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 861208004448 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 861208004449 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 861208004450 DNA binding residues [nucleotide binding] 861208004451 putative dimer interface [polypeptide binding]; other site 861208004452 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 861208004453 MgtE intracellular N domain; Region: MgtE_N; cl15244 861208004454 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 861208004455 Divalent cation transporter; Region: MgtE; cl00786 861208004456 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 861208004457 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 861208004458 putative molybdopterin cofactor binding site [chemical binding]; other site 861208004459 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 861208004460 putative molybdopterin cofactor binding site; other site 861208004461 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 861208004462 active site 861208004463 catalytic residues [active] 861208004464 metal binding site [ion binding]; metal-binding site 861208004465 OsmC-like protein; Region: OsmC; cl00767 861208004466 PAS fold; Region: PAS_3; pfam08447 861208004467 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 861208004468 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 861208004469 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 861208004470 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 861208004471 putative NAD(P) binding site [chemical binding]; other site 861208004472 putative substrate binding site [chemical binding]; other site 861208004473 catalytic Zn binding site [ion binding]; other site 861208004474 structural Zn binding site [ion binding]; other site 861208004475 dimer interface [polypeptide binding]; other site 861208004476 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 861208004477 EamA-like transporter family; Region: EamA; cl01037 861208004478 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 861208004479 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 861208004480 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 861208004481 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 861208004482 Protein export membrane protein; Region: SecD_SecF; cl14618 861208004483 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 861208004484 Protein export membrane protein; Region: SecD_SecF; cl14618 861208004485 Preprotein translocase subunit; Region: YajC; cl00806 861208004486 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 861208004487 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208004488 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 861208004489 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 861208004490 NAD binding site [chemical binding]; other site 861208004491 catalytic Zn binding site [ion binding]; other site 861208004492 structural Zn binding site [ion binding]; other site 861208004493 Helix-turn-helix domains; Region: HTH; cl00088 861208004494 Bacterial transcriptional repressor; Region: TetR; pfam13972 861208004495 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 861208004496 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 861208004497 serine acetyltransferase; Provisional; Region: cysE; PRK11132 861208004498 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 861208004499 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 861208004500 trimer interface [polypeptide binding]; other site 861208004501 active site 861208004502 substrate binding site [chemical binding]; other site 861208004503 CoA binding site [chemical binding]; other site 861208004504 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 861208004505 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208004506 Zinc-finger domain; Region: zf-CHCC; cl01821 861208004507 salicylate hydroxylase; Provisional; Region: PRK06475 861208004508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004509 cystathionine beta-lyase; Provisional; Region: PRK05967 861208004510 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 861208004511 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208004512 catalytic residue [active] 861208004513 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 861208004514 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 861208004515 substrate binding pocket [chemical binding]; other site 861208004516 membrane-bound complex binding site; other site 861208004517 hinge residues; other site 861208004518 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 861208004519 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 861208004520 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 861208004521 putative PBP binding loops; other site 861208004522 dimer interface [polypeptide binding]; other site 861208004523 ABC-ATPase subunit interface; other site 861208004524 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208004525 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 861208004526 dimer interface [polypeptide binding]; other site 861208004527 conserved gate region; other site 861208004528 putative PBP binding loops; other site 861208004529 ABC-ATPase subunit interface; other site 861208004530 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208004531 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 861208004532 Walker A/P-loop; other site 861208004533 ATP binding site [chemical binding]; other site 861208004534 Q-loop/lid; other site 861208004535 ABC transporter signature motif; other site 861208004536 Walker B; other site 861208004537 D-loop; other site 861208004538 H-loop/switch region; other site 861208004539 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 861208004540 DHH family; Region: DHH; pfam01368 861208004541 DHHA1 domain; Region: DHHA1; pfam02272 861208004542 homoserine dehydrogenase; Provisional; Region: PRK06349 861208004543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004544 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 861208004545 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 861208004546 aminotransferase; Validated; Region: PRK09148 861208004547 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 861208004548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208004549 homodimer interface [polypeptide binding]; other site 861208004550 catalytic residue [active] 861208004551 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 861208004552 active site 861208004553 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 861208004554 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 861208004555 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 861208004556 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 861208004557 putative acyl-acceptor binding pocket; other site 861208004558 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 861208004559 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 861208004560 putative NAD(P) binding site [chemical binding]; other site 861208004561 structural Zn binding site [ion binding]; other site 861208004562 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 861208004563 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 861208004564 dimer interface [polypeptide binding]; other site 861208004565 active site 861208004566 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 861208004567 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 861208004568 active site 861208004569 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 861208004570 Phosphopantetheine attachment site; Region: PP-binding; cl09936 861208004571 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 861208004572 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 861208004573 FeS/SAM binding site; other site 861208004574 HemN C-terminal domain; Region: HemN_C; pfam06969 861208004575 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 861208004576 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 861208004577 ligand binding site [chemical binding]; other site 861208004578 flexible hinge region; other site 861208004579 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 861208004580 putative switch regulator; other site 861208004581 non-specific DNA interactions [nucleotide binding]; other site 861208004582 DNA binding site [nucleotide binding] 861208004583 sequence specific DNA binding site [nucleotide binding]; other site 861208004584 putative cAMP binding site [chemical binding]; other site 861208004585 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 861208004586 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 861208004587 Sugar fermentation stimulation protein; Region: SfsA; cl00647 861208004588 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 861208004589 active site 861208004590 hypothetical protein; Reviewed; Region: PRK00024 861208004591 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 861208004592 MPN+ (JAMM) motif; other site 861208004593 Zinc-binding site [ion binding]; other site 861208004594 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 861208004595 TadE-like protein; Region: TadE; cl10688 861208004596 Predicted membrane protein [Function unknown]; Region: COG4655 861208004597 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 861208004598 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 861208004599 glutathione reductase; Validated; Region: PRK06116 861208004600 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 861208004601 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 861208004602 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 861208004603 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 861208004604 tetramer (dimer of dimers) interface [polypeptide binding]; other site 861208004605 active site 861208004606 dimer interface [polypeptide binding]; other site 861208004607 phosphoglycolate phosphatase; Provisional; Region: PRK13222 861208004608 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208004609 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 861208004610 motif II; other site 861208004611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 861208004612 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208004613 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208004614 fumarate hydratase; Reviewed; Region: fumC; PRK00485 861208004615 Class II fumarases; Region: Fumarase_classII; cd01362 861208004616 active site 861208004617 tetramer interface [polypeptide binding]; other site 861208004618 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 861208004619 CTP synthetase; Validated; Region: pyrG; PRK05380 861208004620 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 861208004621 Catalytic site [active] 861208004622 active site 861208004623 UTP binding site [chemical binding]; other site 861208004624 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 861208004625 active site 861208004626 putative oxyanion hole; other site 861208004627 catalytic triad [active] 861208004628 Preprotein translocase SecG subunit; Region: SecG; cl09123 861208004629 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 861208004630 substrate binding site [chemical binding]; other site 861208004631 dimer interface [polypeptide binding]; other site 861208004632 catalytic triad [active] 861208004633 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 861208004634 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 861208004635 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 861208004636 Mg2+ binding site [ion binding]; other site 861208004637 G-X-G motif; other site 861208004638 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 861208004639 anchoring element; other site 861208004640 dimer interface [polypeptide binding]; other site 861208004641 ATP binding site [chemical binding]; other site 861208004642 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 861208004643 active site 861208004644 metal binding site [ion binding]; metal-binding site 861208004645 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 861208004646 Clp protease; Region: CLP_protease; pfam00574 861208004647 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 861208004648 oligomer interface [polypeptide binding]; other site 861208004649 active site residues [active] 861208004650 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 861208004651 dimerization interface [polypeptide binding]; other site 861208004652 putative DNA binding site [nucleotide binding]; other site 861208004653 putative Zn2+ binding site [ion binding]; other site 861208004654 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 861208004655 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 861208004656 putative active site [active] 861208004657 catalytic site [active] 861208004658 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 861208004659 putative active site [active] 861208004660 catalytic site [active] 861208004661 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 861208004662 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 861208004663 active site 861208004664 phosphorylation site [posttranslational modification] 861208004665 intermolecular recognition site; other site 861208004666 dimerization interface [polypeptide binding]; other site 861208004667 Response regulator receiver domain; Region: Response_reg; pfam00072 861208004668 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 861208004669 active site 861208004670 phosphorylation site [posttranslational modification] 861208004671 intermolecular recognition site; other site 861208004672 dimerization interface [polypeptide binding]; other site 861208004673 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208004674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004675 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 861208004676 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 861208004677 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 861208004678 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 861208004679 Mechanosensitive ion channel; Region: MS_channel; pfam00924 861208004680 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 861208004681 Gram-negative bacterial tonB protein; Region: TonB; cl10048 861208004682 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 861208004683 Predicted membrane protein [Function unknown]; Region: COG4125 861208004684 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 861208004685 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 861208004686 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 861208004687 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 861208004688 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 861208004689 Protein of unknown function (DUF330); Region: DUF330; cl01135 861208004690 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 861208004691 mce related protein; Region: MCE; pfam02470 861208004692 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 861208004693 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 861208004694 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 861208004695 Walker A/P-loop; other site 861208004696 ATP binding site [chemical binding]; other site 861208004697 Q-loop/lid; other site 861208004698 ABC transporter signature motif; other site 861208004699 Walker B; other site 861208004700 D-loop; other site 861208004701 H-loop/switch region; other site 861208004702 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 861208004703 Permease; Region: Permease; cl00510 861208004704 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 861208004705 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 861208004706 active site 861208004707 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 861208004708 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 861208004709 putative active site [active] 861208004710 putative metal binding site [ion binding]; other site 861208004711 malic enzyme; Reviewed; Region: PRK12862 861208004712 Malic enzyme, N-terminal domain; Region: malic; pfam00390 861208004713 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 861208004714 putative NAD(P) binding site [chemical binding]; other site 861208004715 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 861208004716 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 861208004717 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 861208004718 putative FMN binding site [chemical binding]; other site 861208004719 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 861208004720 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 861208004721 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 861208004722 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208004723 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 861208004724 ligand binding site [chemical binding]; other site 861208004725 dimer interface [polypeptide binding]; other site 861208004726 NAD synthetase; Provisional; Region: PRK13981 861208004727 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 861208004728 multimer interface [polypeptide binding]; other site 861208004729 active site 861208004730 catalytic triad [active] 861208004731 protein interface 1 [polypeptide binding]; other site 861208004732 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 861208004733 homodimer interface [polypeptide binding]; other site 861208004734 NAD binding pocket [chemical binding]; other site 861208004735 ATP binding pocket [chemical binding]; other site 861208004736 Mg binding site [ion binding]; other site 861208004737 active-site loop [active] 861208004738 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 861208004739 Sulfatase; Region: Sulfatase; cl10460 861208004740 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 861208004741 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 861208004742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004743 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 861208004744 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 861208004745 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208004746 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 861208004747 active site 861208004748 catalytic triad [active] 861208004749 dimer interface [polypeptide binding]; other site 861208004750 trigger factor; Provisional; Region: tig; PRK01490 861208004751 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 861208004752 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 861208004753 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 861208004754 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 861208004755 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 861208004756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004757 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 861208004758 TadE-like protein; Region: TadE; cl10688 861208004759 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 861208004760 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 861208004761 substrate binding site [chemical binding]; other site 861208004762 catalytic Zn binding site [ion binding]; other site 861208004763 NAD binding site [chemical binding]; other site 861208004764 structural Zn binding site [ion binding]; other site 861208004765 dimer interface [polypeptide binding]; other site 861208004766 Phosphopantetheine attachment site; Region: PP-binding; cl09936 861208004767 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 861208004768 AMP-binding enzyme; Region: AMP-binding; cl15778 861208004769 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 861208004770 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 861208004771 dimer interface [polypeptide binding]; other site 861208004772 active site 861208004773 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 861208004774 catalytic residues [active] 861208004775 substrate binding site [chemical binding]; other site 861208004776 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 861208004777 aminodeoxychorismate synthase; Provisional; Region: PRK07508 861208004778 chorismate binding enzyme; Region: Chorismate_bind; cl10555 861208004779 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 861208004780 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 861208004781 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 861208004782 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 861208004783 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 861208004784 active site 861208004785 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 861208004786 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 861208004787 active site 861208004788 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 861208004789 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 861208004790 active site 861208004791 (T/H)XGH motif; other site 861208004792 periplasmic folding chaperone; Provisional; Region: PRK10788 861208004793 SurA N-terminal domain; Region: SurA_N_3; cl07813 861208004794 PPIC-type PPIASE domain; Region: Rotamase; cl08278 861208004795 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 861208004796 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 861208004797 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 861208004798 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 861208004799 active site 861208004800 ribulose/triose binding site [chemical binding]; other site 861208004801 phosphate binding site [ion binding]; other site 861208004802 substrate (anthranilate) binding pocket [chemical binding]; other site 861208004803 product (indole) binding pocket [chemical binding]; other site 861208004804 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 861208004805 trimer interface [polypeptide binding]; other site 861208004806 dimer interface [polypeptide binding]; other site 861208004807 putative active site [active] 861208004808 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 861208004809 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 861208004810 dimer interface [polypeptide binding]; other site 861208004811 putative functional site; other site 861208004812 putative MPT binding site; other site 861208004813 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208004814 metal binding site [ion binding]; metal-binding site 861208004815 active site 861208004816 I-site; other site 861208004817 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 861208004818 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 861208004819 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 861208004820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208004821 Protein of unknown function (DUF971); Region: DUF971; cl01414 861208004822 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 861208004823 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 861208004824 FeS/SAM binding site; other site 861208004825 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 861208004826 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 861208004827 EamA-like transporter family; Region: EamA; cl01037 861208004828 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 861208004829 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 861208004830 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 861208004831 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 861208004832 GTP binding site; other site 861208004833 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 861208004834 Walker A motif; other site 861208004835 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 861208004836 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 861208004837 Peptidase family M23; Region: Peptidase_M23; pfam01551 861208004838 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 861208004839 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 861208004840 S-adenosylmethionine binding site [chemical binding]; other site 861208004841 Survival protein SurE; Region: SurE; cl00448 861208004842 seryl-tRNA synthetase; Provisional; Region: PRK05431 861208004843 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 861208004844 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 861208004845 dimer interface [polypeptide binding]; other site 861208004846 active site 861208004847 motif 1; other site 861208004848 motif 2; other site 861208004849 motif 3; other site 861208004850 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 861208004851 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 861208004852 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 861208004853 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 861208004854 ScpA/B protein; Region: ScpA_ScpB; cl00598 861208004855 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 861208004856 Sporulation related domain; Region: SPOR; cl10051 861208004857 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 861208004858 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 861208004859 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 861208004860 active site 861208004861 HIGH motif; other site 861208004862 KMSK motif region; other site 861208004863 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 861208004864 tRNA binding surface [nucleotide binding]; other site 861208004865 anticodon binding site; other site 861208004866 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 861208004867 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 861208004868 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 861208004869 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 861208004870 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 861208004871 putative catalytic site [active] 861208004872 putative phosphate binding site [ion binding]; other site 861208004873 active site 861208004874 metal binding site A [ion binding]; metal-binding site 861208004875 DNA binding site [nucleotide binding] 861208004876 putative AP binding site [nucleotide binding]; other site 861208004877 putative metal binding site B [ion binding]; other site 861208004878 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 861208004879 Sel1 repeat; Region: Sel1; cl02723 861208004880 Sel1 repeat; Region: Sel1; cl02723 861208004881 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; cl01155 861208004882 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 861208004883 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 861208004884 HIGH motif; other site 861208004885 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 861208004886 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 861208004887 active site 861208004888 KMSKS motif; other site 861208004889 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 861208004890 tRNA binding surface [nucleotide binding]; other site 861208004891 anticodon binding site; other site 861208004892 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 861208004893 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 861208004894 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 861208004895 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 861208004896 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 861208004897 S-adenosylmethionine binding site [chemical binding]; other site 861208004898 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 861208004899 Protein of unknown function (DUF982); Region: DUF982; pfam06169 861208004900 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 861208004901 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 861208004902 putative MPT binding site; other site 861208004903 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 861208004904 Ligand Binding Site [chemical binding]; other site 861208004905 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 861208004906 active site 861208004907 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 861208004908 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 861208004909 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 861208004910 Transcriptional regulator; Region: Transcrip_reg; cl00361 861208004911 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 861208004912 active site 861208004913 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 861208004914 TSCPD domain; Region: TSCPD; cl14834 861208004915 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 861208004916 Predicted transcriptional regulator [Transcription]; Region: COG2944 861208004917 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 861208004918 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 861208004919 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 861208004920 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208004921 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 861208004922 Walker A/P-loop; other site 861208004923 ATP binding site [chemical binding]; other site 861208004924 Q-loop/lid; other site 861208004925 ABC transporter signature motif; other site 861208004926 Walker B; other site 861208004927 D-loop; other site 861208004928 H-loop/switch region; other site 861208004929 Domain of unknown function DUF20; Region: UPF0118; pfam01594 861208004930 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 861208004931 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 861208004932 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208004933 Coenzyme A binding pocket [chemical binding]; other site 861208004934 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 861208004935 Flavin Reductases; Region: FlaRed; cl00801 861208004936 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 861208004937 putative FMN binding site [chemical binding]; other site 861208004938 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 861208004939 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 861208004940 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 861208004941 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 861208004942 active site 861208004943 dimer interface [polypeptide binding]; other site 861208004944 motif 1; other site 861208004945 motif 2; other site 861208004946 motif 3; other site 861208004947 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 861208004948 anticodon binding site; other site 861208004949 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 861208004950 Haemolytic domain; Region: Haemolytic; cl00506 861208004951 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 861208004952 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 861208004953 trimerization site [polypeptide binding]; other site 861208004954 active site 861208004955 GTP cyclohydrolase I; Provisional; Region: PLN03044 861208004956 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 861208004957 active site 861208004958 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 861208004959 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 861208004960 nucleophile elbow; other site 861208004961 FOG: CBS domain [General function prediction only]; Region: COG0517 861208004962 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 861208004963 Rhomboid family; Region: Rhomboid; cl11446 861208004964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 861208004965 PAS domain; Region: PAS_5; pfam07310 861208004966 PilZ domain; Region: PilZ; cl01260 861208004967 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208004968 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 861208004969 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 861208004970 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 861208004971 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 861208004972 Predicted periplasmic protein [Function unknown]; Region: COG3698 861208004973 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 861208004974 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 861208004975 putative active site [active] 861208004976 putative cosubstrate binding site; other site 861208004977 putative substrate binding site [chemical binding]; other site 861208004978 catalytic site [active] 861208004979 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 861208004980 FAD binding site [chemical binding]; other site 861208004981 Helix-turn-helix domains; Region: HTH; cl00088 861208004982 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 861208004983 dimerization interface [polypeptide binding]; other site 861208004984 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 861208004985 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 861208004986 conserved cys residue [active] 861208004987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208004988 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 861208004989 putative carbohydrate kinase; Provisional; Region: PRK10565 861208004990 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 861208004991 putative substrate binding site [chemical binding]; other site 861208004992 putative ATP binding site [chemical binding]; other site 861208004993 Nitrogen regulatory protein P-II; Region: P-II; cl00412 861208004994 Nitrogen regulatory protein P-II; Region: P-II; smart00938 861208004995 glutamine synthetase; Provisional; Region: glnA; PRK09469 861208004996 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 861208004997 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 861208004998 EamA-like transporter family; Region: EamA; cl01037 861208004999 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 861208005000 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 861208005001 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 861208005002 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 861208005003 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 861208005004 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 861208005005 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 861208005006 catalytic residues [active] 861208005007 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 861208005008 EamA-like transporter family; Region: EamA; cl01037 861208005009 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 861208005010 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 861208005011 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 861208005012 ATP binding site [chemical binding]; other site 861208005013 putative Mg++ binding site [ion binding]; other site 861208005014 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 861208005015 nucleotide binding region [chemical binding]; other site 861208005016 ATP-binding site [chemical binding]; other site 861208005017 TRCF domain; Region: TRCF; cl04088 861208005018 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 861208005019 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 861208005020 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 861208005021 generic binding surface II; other site 861208005022 ssDNA binding site; other site 861208005023 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 861208005024 ATP binding site [chemical binding]; other site 861208005025 putative Mg++ binding site [ion binding]; other site 861208005026 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 861208005027 nucleotide binding region [chemical binding]; other site 861208005028 ATP-binding site [chemical binding]; other site 861208005029 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 861208005030 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 861208005031 putative active site [active] 861208005032 Protein of unknown function (DUF502); Region: DUF502; cl01107 861208005033 Predicted acetyltransferase [General function prediction only]; Region: COG3153 861208005034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208005035 Coenzyme A binding pocket [chemical binding]; other site 861208005036 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 861208005037 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 861208005038 glutaminase active site [active] 861208005039 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 861208005040 dimer interface [polypeptide binding]; other site 861208005041 active site 861208005042 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 861208005043 dimer interface [polypeptide binding]; other site 861208005044 active site 861208005045 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 861208005046 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 861208005047 Substrate binding site; other site 861208005048 Mg++ binding site; other site 861208005049 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 861208005050 active site 861208005051 substrate binding site [chemical binding]; other site 861208005052 CoA binding site [chemical binding]; other site 861208005053 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208005054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208005055 DNA-binding site [nucleotide binding]; DNA binding site 861208005056 FCD domain; Region: FCD; cl11656 861208005057 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 861208005058 putative ligand binding site [chemical binding]; other site 861208005059 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 861208005060 TM-ABC transporter signature motif; other site 861208005061 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 861208005062 TM-ABC transporter signature motif; other site 861208005063 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 861208005064 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 861208005065 Walker A/P-loop; other site 861208005066 ATP binding site [chemical binding]; other site 861208005067 Q-loop/lid; other site 861208005068 ABC transporter signature motif; other site 861208005069 Walker B; other site 861208005070 D-loop; other site 861208005071 H-loop/switch region; other site 861208005072 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 861208005073 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 861208005074 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 861208005075 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 861208005076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208005077 Membrane transport protein; Region: Mem_trans; cl09117 861208005078 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 861208005079 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 861208005080 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 861208005081 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 861208005082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 861208005083 Peptidase M15; Region: Peptidase_M15_3; cl01194 861208005084 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208005085 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 861208005086 dimer interface [polypeptide binding]; other site 861208005087 active site 861208005088 metal binding site [ion binding]; metal-binding site 861208005089 glutathione binding site [chemical binding]; other site 861208005090 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 861208005091 DNA-binding site [nucleotide binding]; DNA binding site 861208005092 RNA-binding motif; other site 861208005093 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 861208005094 DNA-binding site [nucleotide binding]; DNA binding site 861208005095 RNA-binding motif; other site 861208005096 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 861208005097 BON domain; Region: BON; cl02771 861208005098 Protein of unknown function (DUF982); Region: DUF982; pfam06169 861208005099 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 861208005100 ligand binding site; other site 861208005101 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 861208005102 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 861208005103 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 861208005104 AAA domain; Region: AAA_13; pfam13166 861208005105 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 861208005106 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 861208005107 Phage Terminase; Region: Terminase_1; pfam03354 861208005108 Phage terminase, small subunit; Region: Terminase_4; cl01525 861208005109 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 861208005110 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 861208005111 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 861208005112 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 861208005113 oligomerization interface [polypeptide binding]; other site 861208005114 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 861208005115 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 861208005116 Phage capsid family; Region: Phage_capsid; pfam05065 861208005117 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 861208005118 Phage portal protein; Region: Phage_portal; pfam04860 861208005119 Phage-related protein [Function unknown]; Region: COG4695; cl01923 861208005120 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 861208005121 active site 861208005122 Int/Topo IB signature motif; other site 861208005123 DNA binding site [nucleotide binding] 861208005124 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 861208005125 Protein of unknown function (DUF429); Region: DUF429; cl12046 861208005126 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 861208005127 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 861208005128 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 861208005129 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 861208005130 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 861208005131 Walker A/P-loop; other site 861208005132 ATP binding site [chemical binding]; other site 861208005133 Q-loop/lid; other site 861208005134 ABC transporter signature motif; other site 861208005135 Walker B; other site 861208005136 D-loop; other site 861208005137 H-loop/switch region; other site 861208005138 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 861208005139 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 861208005140 FtsX-like permease family; Region: FtsX; cl15850 861208005141 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 861208005142 Domain of unknown function DUF59; Region: DUF59; cl00941 861208005143 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 861208005144 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 861208005145 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208005146 catalytic residue [active] 861208005147 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 861208005148 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 861208005149 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 861208005150 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 861208005151 Walker A/P-loop; other site 861208005152 ATP binding site [chemical binding]; other site 861208005153 Q-loop/lid; other site 861208005154 ABC transporter signature motif; other site 861208005155 Walker B; other site 861208005156 D-loop; other site 861208005157 H-loop/switch region; other site 861208005158 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 861208005159 putative ABC transporter; Region: ycf24; CHL00085 861208005160 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 861208005161 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 861208005162 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208005163 catalytic residue [active] 861208005164 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 861208005165 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 861208005166 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 861208005167 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 861208005168 active site 861208005169 HIGH motif; other site 861208005170 dimer interface [polypeptide binding]; other site 861208005171 KMSKS motif; other site 861208005172 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 861208005173 RNA binding surface [nucleotide binding]; other site 861208005174 AsmA family; Region: AsmA; pfam05170 861208005175 Protein of unknown function; Region: DUF3971; pfam13116 861208005176 AsmA-like C-terminal region; Region: AsmA_2; cl15864 861208005177 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 861208005178 catalytic triad [active] 861208005179 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 861208005180 dinuclear metal binding motif [ion binding]; other site 861208005181 Peptidase family M23; Region: Peptidase_M23; pfam01551 861208005182 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 861208005183 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 861208005184 ATP binding site [chemical binding]; other site 861208005185 Mg++ binding site [ion binding]; other site 861208005186 motif III; other site 861208005187 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 861208005188 nucleotide binding region [chemical binding]; other site 861208005189 ATP-binding site [chemical binding]; other site 861208005190 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 861208005191 nudix motif; other site 861208005192 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 861208005193 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 861208005194 ligand binding site [chemical binding]; other site 861208005195 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 861208005196 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 861208005197 substrate binding site [chemical binding]; other site 861208005198 hexamer interface [polypeptide binding]; other site 861208005199 metal binding site [ion binding]; metal-binding site 861208005200 adenylosuccinate lyase; Provisional; Region: PRK07492 861208005201 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 861208005202 tetramer interface [polypeptide binding]; other site 861208005203 active site 861208005204 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 861208005205 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 861208005206 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 861208005207 ATP binding site [chemical binding]; other site 861208005208 active site 861208005209 substrate binding site [chemical binding]; other site 861208005210 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 861208005211 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 861208005212 putative active site [active] 861208005213 catalytic triad [active] 861208005214 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 861208005215 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 861208005216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208005217 DNA-binding site [nucleotide binding]; DNA binding site 861208005218 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 861208005219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208005220 homodimer interface [polypeptide binding]; other site 861208005221 catalytic residue [active] 861208005222 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 861208005223 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 861208005224 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 861208005225 dimerization interface [polypeptide binding]; other site 861208005226 ATP binding site [chemical binding]; other site 861208005227 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 861208005228 dimerization interface [polypeptide binding]; other site 861208005229 ATP binding site [chemical binding]; other site 861208005230 BolA-like protein; Region: BolA; cl00386 861208005231 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 861208005232 putative GSH binding site [chemical binding]; other site 861208005233 catalytic residues [active] 861208005234 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 861208005235 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 861208005236 putative substrate translocation pore; other site 861208005237 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 861208005238 active site 861208005239 putative lithium-binding site [ion binding]; other site 861208005240 substrate binding site [chemical binding]; other site 861208005241 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 861208005242 active site 861208005243 putative lithium-binding site [ion binding]; other site 861208005244 substrate binding site [chemical binding]; other site 861208005245 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 861208005246 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 861208005247 Ligand Binding Site [chemical binding]; other site 861208005248 Glutaminase; Region: Glutaminase; cl00907 861208005249 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 861208005250 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 861208005251 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 861208005252 RNA binding surface [nucleotide binding]; other site 861208005253 Integral membrane protein TerC family; Region: TerC; cl10468 861208005254 Domain of unknown function DUF87; Region: DUF87; pfam01935 861208005255 HerA helicase [Replication, recombination, and repair]; Region: COG0433 861208005256 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 861208005257 EamA-like transporter family; Region: EamA; cl01037 861208005258 LysE type translocator; Region: LysE; cl00565 861208005259 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 861208005260 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 861208005261 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 861208005262 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 861208005263 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 861208005264 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 861208005265 putative C-terminal domain interface [polypeptide binding]; other site 861208005266 putative GSH binding site (G-site) [chemical binding]; other site 861208005267 putative dimer interface [polypeptide binding]; other site 861208005268 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 861208005269 dimer interface [polypeptide binding]; other site 861208005270 N-terminal domain interface [polypeptide binding]; other site 861208005271 putative substrate binding pocket (H-site) [chemical binding]; other site 861208005272 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_23; cd09011 861208005273 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208005274 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 861208005275 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 861208005276 motif 1; other site 861208005277 active site 861208005278 motif 2; other site 861208005279 motif 3; other site 861208005280 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 861208005281 DHHA1 domain; Region: DHHA1; pfam02272 861208005282 recombinase A; Provisional; Region: recA; PRK09354 861208005283 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 861208005284 hexamer interface [polypeptide binding]; other site 861208005285 Walker A motif; other site 861208005286 ATP binding site [chemical binding]; other site 861208005287 Walker B motif; other site 861208005288 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208005289 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 861208005290 substrate binding site [chemical binding]; other site 861208005291 ATP binding site [chemical binding]; other site 861208005292 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 861208005293 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 861208005294 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 861208005295 ligand binding site [chemical binding]; other site 861208005296 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 861208005297 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208005298 substrate binding pocket [chemical binding]; other site 861208005299 membrane-bound complex binding site; other site 861208005300 hinge residues; other site 861208005301 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208005302 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 861208005303 dimer interface [polypeptide binding]; other site 861208005304 conserved gate region; other site 861208005305 putative PBP binding loops; other site 861208005306 ABC-ATPase subunit interface; other site 861208005307 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208005308 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 861208005309 dimer interface [polypeptide binding]; other site 861208005310 conserved gate region; other site 861208005311 putative PBP binding loops; other site 861208005312 ABC-ATPase subunit interface; other site 861208005313 Usg-like family; Region: Usg; cl11567 861208005314 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 861208005315 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 861208005316 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 861208005317 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 861208005318 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 861208005319 membrane-bound complex binding site; other site 861208005320 hinge residues; other site 861208005321 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208005322 Helix-turn-helix domains; Region: HTH; cl00088 861208005323 AsnC family; Region: AsnC_trans_reg; pfam01037 861208005324 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 861208005325 putative uracil binding site [chemical binding]; other site 861208005326 putative active site [active] 861208005327 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 861208005328 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 861208005329 Catalytic site; other site 861208005330 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 861208005331 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 861208005332 dimer interface [polypeptide binding]; other site 861208005333 phosphorylation site [posttranslational modification] 861208005334 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 861208005335 ATP binding site [chemical binding]; other site 861208005336 Mg2+ binding site [ion binding]; other site 861208005337 G-X-G motif; other site 861208005338 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 861208005339 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 861208005340 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 861208005341 putative dimer interface [polypeptide binding]; other site 861208005342 active site pocket [active] 861208005343 putative cataytic base [active] 861208005344 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 861208005345 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 861208005346 Predicted aspartyl protease [General function prediction only]; Region: COG3577 861208005347 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 861208005348 catalytic motif [active] 861208005349 Catalytic residue [active] 861208005350 ABC-2 type transporter; Region: ABC2_membrane; cl11417 861208005351 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 861208005352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208005353 Walker A/P-loop; other site 861208005354 ATP binding site [chemical binding]; other site 861208005355 Q-loop/lid; other site 861208005356 ABC transporter signature motif; other site 861208005357 Walker B; other site 861208005358 D-loop; other site 861208005359 H-loop/switch region; other site 861208005360 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 861208005361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 861208005362 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 861208005363 Cache domain; Region: Cache_2; cl07034 861208005364 two component system sensor kinase SsrA; Provisional; Region: PRK15347 861208005365 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 861208005366 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208005367 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208005368 dimer interface [polypeptide binding]; other site 861208005369 putative CheW interface [polypeptide binding]; other site 861208005370 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 861208005371 recombination factor protein RarA; Reviewed; Region: PRK13342 861208005372 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 861208005373 Walker A motif; other site 861208005374 ATP binding site [chemical binding]; other site 861208005375 Walker B motif; other site 861208005376 arginine finger; other site 861208005377 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 861208005378 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 861208005379 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 861208005380 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 861208005381 protein binding site [polypeptide binding]; other site 861208005382 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 861208005383 protein binding site [polypeptide binding]; other site 861208005384 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 861208005385 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208005386 Dehydratase family; Region: ILVD_EDD; cl00340 861208005387 TMAO/DMSO reductase; Reviewed; Region: PRK05363 861208005388 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 861208005389 Moco binding site; other site 861208005390 metal coordination site [ion binding]; other site 861208005391 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 861208005392 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 861208005393 Protein of unknown function (DUF817); Region: DUF817; cl01520 861208005394 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 861208005395 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 861208005396 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 861208005397 alphaNTD homodimer interface [polypeptide binding]; other site 861208005398 alphaNTD - beta interaction site [polypeptide binding]; other site 861208005399 alphaNTD - beta' interaction site [polypeptide binding]; other site 861208005400 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 861208005401 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 861208005402 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 861208005403 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 861208005404 adenylate kinase; Reviewed; Region: adk; PRK00279 861208005405 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 861208005406 AMP-binding site [chemical binding]; other site 861208005407 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 861208005408 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 861208005409 SecY translocase; Region: SecY; pfam00344 861208005410 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 861208005411 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 861208005412 23S rRNA binding site [nucleotide binding]; other site 861208005413 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 861208005414 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 861208005415 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 861208005416 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 861208005417 23S rRNA interface [nucleotide binding]; other site 861208005418 L21e interface [polypeptide binding]; other site 861208005419 5S rRNA interface [nucleotide binding]; other site 861208005420 L27 interface [polypeptide binding]; other site 861208005421 L5 interface [polypeptide binding]; other site 861208005422 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 861208005423 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 861208005424 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 861208005425 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 861208005426 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 861208005427 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 861208005428 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 861208005429 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 861208005430 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 861208005431 KOW motif; Region: KOW; cl00354 861208005432 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 861208005433 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 861208005434 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 861208005435 putative translocon interaction site; other site 861208005436 signal recognition particle (SRP54) interaction site; other site 861208005437 L23 interface [polypeptide binding]; other site 861208005438 trigger factor interaction site; other site 861208005439 23S rRNA interface [nucleotide binding]; other site 861208005440 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 861208005441 23S rRNA interface [nucleotide binding]; other site 861208005442 5S rRNA interface [nucleotide binding]; other site 861208005443 putative antibiotic binding site [chemical binding]; other site 861208005444 L25 interface [polypeptide binding]; other site 861208005445 L27 interface [polypeptide binding]; other site 861208005446 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 861208005447 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 861208005448 G-X-X-G motif; other site 861208005449 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 861208005450 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 861208005451 putative translocon binding site; other site 861208005452 protein-rRNA interface [nucleotide binding]; other site 861208005453 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 861208005454 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 861208005455 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 861208005456 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 861208005457 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 861208005458 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 861208005459 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 861208005460 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 861208005461 elongation factor Tu; Reviewed; Region: PRK00049 861208005462 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 861208005463 G1 box; other site 861208005464 GEF interaction site [polypeptide binding]; other site 861208005465 GTP/Mg2+ binding site [chemical binding]; other site 861208005466 Switch I region; other site 861208005467 G2 box; other site 861208005468 G3 box; other site 861208005469 Switch II region; other site 861208005470 G4 box; other site 861208005471 G5 box; other site 861208005472 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 861208005473 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 861208005474 Antibiotic Binding Site [chemical binding]; other site 861208005475 elongation factor G; Reviewed; Region: PRK00007 861208005476 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 861208005477 G1 box; other site 861208005478 putative GEF interaction site [polypeptide binding]; other site 861208005479 GTP/Mg2+ binding site [chemical binding]; other site 861208005480 Switch I region; other site 861208005481 G2 box; other site 861208005482 G3 box; other site 861208005483 Switch II region; other site 861208005484 G4 box; other site 861208005485 G5 box; other site 861208005486 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 861208005487 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 861208005488 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 861208005489 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 861208005490 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 861208005491 S17 interaction site [polypeptide binding]; other site 861208005492 S8 interaction site; other site 861208005493 16S rRNA interaction site [nucleotide binding]; other site 861208005494 streptomycin interaction site [chemical binding]; other site 861208005495 23S rRNA interaction site [nucleotide binding]; other site 861208005496 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 861208005497 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 861208005498 Helix-turn-helix domains; Region: HTH; cl00088 861208005499 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 861208005500 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 861208005501 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 861208005502 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 861208005503 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 861208005504 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 861208005505 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 861208005506 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 861208005507 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 861208005508 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 861208005509 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 861208005510 DNA binding site [nucleotide binding] 861208005511 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 861208005512 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 861208005513 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 861208005514 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 861208005515 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 861208005516 RPB11 interaction site [polypeptide binding]; other site 861208005517 RPB12 interaction site [polypeptide binding]; other site 861208005518 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 861208005519 RPB1 interaction site [polypeptide binding]; other site 861208005520 RPB11 interaction site [polypeptide binding]; other site 861208005521 RPB10 interaction site [polypeptide binding]; other site 861208005522 RPB3 interaction site [polypeptide binding]; other site 861208005523 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 861208005524 L11 interface [polypeptide binding]; other site 861208005525 putative EF-Tu interaction site [polypeptide binding]; other site 861208005526 putative EF-G interaction site [polypeptide binding]; other site 861208005527 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 861208005528 23S rRNA interface [nucleotide binding]; other site 861208005529 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 861208005530 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 861208005531 mRNA/rRNA interface [nucleotide binding]; other site 861208005532 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 861208005533 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 861208005534 23S rRNA interface [nucleotide binding]; other site 861208005535 L7/L12 interface [polypeptide binding]; other site 861208005536 putative thiostrepton binding site; other site 861208005537 L25 interface [polypeptide binding]; other site 861208005538 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 861208005539 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 861208005540 putative homodimer interface [polypeptide binding]; other site 861208005541 KOW motif; Region: KOW; cl00354 861208005542 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 861208005543 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 861208005544 active site 861208005545 elongation factor Tu; Reviewed; Region: PRK00049 861208005546 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 861208005547 G1 box; other site 861208005548 GEF interaction site [polypeptide binding]; other site 861208005549 GTP/Mg2+ binding site [chemical binding]; other site 861208005550 Switch I region; other site 861208005551 G2 box; other site 861208005552 G3 box; other site 861208005553 Switch II region; other site 861208005554 G4 box; other site 861208005555 G5 box; other site 861208005556 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 861208005557 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 861208005558 Antibiotic Binding Site [chemical binding]; other site 861208005559 Integral membrane protein TerC family; Region: TerC; cl10468 861208005560 BA14K-like protein; Region: BA14K; pfam07886 861208005561 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 861208005562 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 861208005563 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 861208005564 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 861208005565 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 861208005566 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 861208005567 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 861208005568 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 861208005569 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 861208005570 NADH(P)-binding; Region: NAD_binding_10; pfam13460 861208005571 NAD binding site [chemical binding]; other site 861208005572 substrate binding site [chemical binding]; other site 861208005573 putative active site [active] 861208005574 Helix-turn-helix domains; Region: HTH; cl00088 861208005575 Protein of unknown function, DUF486; Region: DUF486; cl01236 861208005576 excinuclease ABC subunit B; Provisional; Region: PRK05298 861208005577 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 861208005578 ATP binding site [chemical binding]; other site 861208005579 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 861208005580 nucleotide binding region [chemical binding]; other site 861208005581 ATP-binding site [chemical binding]; other site 861208005582 Ultra-violet resistance protein B; Region: UvrB; pfam12344 861208005583 UvrB/uvrC motif; Region: UVR; pfam02151 861208005584 Predicted esterase [General function prediction only]; Region: COG0627 861208005585 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 861208005586 Protein of unknown function (DUF419); Region: DUF419; cl15265 861208005587 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 861208005588 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 861208005589 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 861208005590 HSP70 interaction site [polypeptide binding]; other site 861208005591 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 861208005592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208005593 metal binding site [ion binding]; metal-binding site 861208005594 active site 861208005595 I-site; other site 861208005596 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 861208005597 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 861208005598 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208005599 Walker A/P-loop; other site 861208005600 ATP binding site [chemical binding]; other site 861208005601 Q-loop/lid; other site 861208005602 ABC transporter signature motif; other site 861208005603 Walker B; other site 861208005604 D-loop; other site 861208005605 H-loop/switch region; other site 861208005606 TOBE domain; Region: TOBE_2; cl01440 861208005607 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 861208005608 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 861208005609 dimer interface [polypeptide binding]; other site 861208005610 conserved gate region; other site 861208005611 putative PBP binding loops; other site 861208005612 ABC-ATPase subunit interface; other site 861208005613 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 861208005614 dimer interface [polypeptide binding]; other site 861208005615 conserved gate region; other site 861208005616 putative PBP binding loops; other site 861208005617 ABC-ATPase subunit interface; other site 861208005618 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 861208005619 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208005620 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 861208005621 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 861208005622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208005623 homodimer interface [polypeptide binding]; other site 861208005624 catalytic residue [active] 861208005625 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 861208005626 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 861208005627 putative catalytic site [active] 861208005628 putative metal binding site [ion binding]; other site 861208005629 putative phosphate binding site [ion binding]; other site 861208005630 ketol-acid reductoisomerase; Provisional; Region: PRK05479 861208005631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208005632 NAD+ binding site [chemical binding]; other site 861208005633 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 861208005634 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208005635 Helix-turn-helix domains; Region: HTH; cl00088 861208005636 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 861208005637 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 861208005638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208005639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208005640 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 861208005641 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 861208005642 putative NAD(P) binding site [chemical binding]; other site 861208005643 putative substrate binding site [chemical binding]; other site 861208005644 catalytic Zn binding site [ion binding]; other site 861208005645 structural Zn binding site [ion binding]; other site 861208005646 dimer interface [polypeptide binding]; other site 861208005647 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 861208005648 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 861208005649 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 861208005650 active site 861208005651 hydrophilic channel; other site 861208005652 dimerization interface [polypeptide binding]; other site 861208005653 catalytic residues [active] 861208005654 active site lid [active] 861208005655 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 861208005656 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 861208005657 DNA binding residues [nucleotide binding] 861208005658 dimer interface [polypeptide binding]; other site 861208005659 Helix-turn-helix domains; Region: HTH; cl00088 861208005660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208005661 Family description; Region: UvrD_C_2; cl15862 861208005662 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 861208005663 NADH(P)-binding; Region: NAD_binding_10; pfam13460 861208005664 putative NAD(P) binding site [chemical binding]; other site 861208005665 active site 861208005666 DoxX-like family; Region: DoxX_3; pfam13781 861208005667 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 861208005668 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 861208005669 putative hydrophobic ligand binding site [chemical binding]; other site 861208005670 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 861208005671 dimerization interface [polypeptide binding]; other site 861208005672 putative DNA binding site [nucleotide binding]; other site 861208005673 putative Zn2+ binding site [ion binding]; other site 861208005674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 861208005675 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 861208005676 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 861208005677 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 861208005678 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208005679 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 861208005680 DNA binding residues [nucleotide binding] 861208005681 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 861208005682 LysE type translocator; Region: LysE; cl00565 861208005683 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 861208005684 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 861208005685 active site 861208005686 catalytic tetrad [active] 861208005687 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 861208005688 putative hydrophobic ligand binding site [chemical binding]; other site 861208005689 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 861208005690 dimerization interface [polypeptide binding]; other site 861208005691 putative DNA binding site [nucleotide binding]; other site 861208005692 putative Zn2+ binding site [ion binding]; other site 861208005693 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 861208005694 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 861208005695 putative valine binding site [chemical binding]; other site 861208005696 dimer interface [polypeptide binding]; other site 861208005697 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 861208005698 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 861208005699 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 861208005700 PYR/PP interface [polypeptide binding]; other site 861208005701 dimer interface [polypeptide binding]; other site 861208005702 TPP binding site [chemical binding]; other site 861208005703 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 861208005704 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 861208005705 TPP-binding site [chemical binding]; other site 861208005706 dimer interface [polypeptide binding]; other site 861208005707 HerA helicase [Replication, recombination, and repair]; Region: COG0433 861208005708 Domain of unknown function DUF87; Region: DUF87; pfam01935 861208005709 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 861208005710 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208005711 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 861208005712 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 861208005713 motif II; other site 861208005714 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 861208005715 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208005716 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208005717 classical (c) SDRs; Region: SDR_c; cd05233 861208005718 NAD(P) binding site [chemical binding]; other site 861208005719 active site 861208005720 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 861208005721 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 861208005722 protein binding site [polypeptide binding]; other site 861208005723 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 861208005724 protein binding site [polypeptide binding]; other site 861208005725 HflC protein; Region: hflC; TIGR01932 861208005726 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 861208005727 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 861208005728 HflK protein; Region: hflK; TIGR01933 861208005729 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 861208005730 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 861208005731 dimerization interface [polypeptide binding]; other site 861208005732 active site 861208005733 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 861208005734 Stringent starvation protein B; Region: SspB; cl01120 861208005735 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 861208005736 Ribbon-helix-helix domain; Region: RHH_4; cl01775 861208005737 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 861208005738 AsmA-like C-terminal region; Region: AsmA_2; cl15864 861208005739 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 861208005740 FAD binding domain; Region: FAD_binding_4; pfam01565 861208005741 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 861208005742 Protein export membrane protein; Region: SecD_SecF; cl14618 861208005743 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 861208005744 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 861208005745 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 861208005746 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208005747 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 861208005748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208005749 Family description; Region: UvrD_C_2; cl15862 861208005750 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 861208005751 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 861208005752 Helix-turn-helix domains; Region: HTH; cl00088 861208005753 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 861208005754 NMT1-like family; Region: NMT1_2; cl15260 861208005755 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 861208005756 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 861208005757 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208005758 Protein of unknown function, DUF606; Region: DUF606; cl01273 861208005759 Protein of unknown function, DUF606; Region: DUF606; cl01273 861208005760 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 861208005761 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 861208005762 Isochorismatase family; Region: Isochorismatase; pfam00857 861208005763 catalytic triad [active] 861208005764 metal binding site [ion binding]; metal-binding site 861208005765 conserved cis-peptide bond; other site 861208005766 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 861208005767 AzlC protein; Region: AzlC; cl00570 861208005768 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 861208005769 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 861208005770 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 861208005771 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 861208005772 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 861208005773 active site 861208005774 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 861208005775 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 861208005776 S-adenosylmethionine binding site [chemical binding]; other site 861208005777 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 861208005778 Cu(I) binding site [ion binding]; other site 861208005779 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 861208005780 putative CheA interaction surface; other site 861208005781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 861208005782 CreA protein; Region: CreA; pfam05981 861208005783 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 861208005784 active site 861208005785 catalytic site [active] 861208005786 substrate binding site [chemical binding]; other site 861208005787 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208005788 Helix-turn-helix domains; Region: HTH; cl00088 861208005789 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 861208005790 dimerization interface [polypeptide binding]; other site 861208005791 substrate binding pocket [chemical binding]; other site 861208005792 EamA-like transporter family; Region: EamA; cl01037 861208005793 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 861208005794 EamA-like transporter family; Region: EamA; cl01037 861208005795 putative acetyltransferase YhhY; Provisional; Region: PRK10140 861208005796 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208005797 Coenzyme A binding pocket [chemical binding]; other site 861208005798 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208005799 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 861208005800 Uncharacterized bacterial proteins with similarity to Aminoglycoside 3'-phosphotransferase (APH) and Choline kinase (ChoK) family members. The APH/ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such...; Region: APH_ChoK_like_1; cd05155 861208005801 putative active site [active] 861208005802 putative substrate binding site [chemical binding]; other site 861208005803 ATP binding site [chemical binding]; other site 861208005804 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 861208005805 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 861208005806 nucleotide binding pocket [chemical binding]; other site 861208005807 K-X-D-G motif; other site 861208005808 catalytic site [active] 861208005809 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 861208005810 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 861208005811 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 861208005812 Dimer interface [polypeptide binding]; other site 861208005813 BRCT sequence motif; other site 861208005814 LysE type translocator; Region: LysE; cl00565 861208005815 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 861208005816 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 861208005817 Walker A/P-loop; other site 861208005818 ATP binding site [chemical binding]; other site 861208005819 Q-loop/lid; other site 861208005820 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 861208005821 ABC transporter signature motif; other site 861208005822 Walker B; other site 861208005823 D-loop; other site 861208005824 H-loop/switch region; other site 861208005825 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 861208005826 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 861208005827 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 861208005828 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 861208005829 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 861208005830 nucleotide binding site [chemical binding]; other site 861208005831 SulA interaction site; other site 861208005832 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 861208005833 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 861208005834 Cell division protein FtsA; Region: FtsA; cl11496 861208005835 Cell division protein FtsA; Region: FtsA; cl11496 861208005836 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 861208005837 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 861208005838 Cell division protein FtsQ; Region: FtsQ; pfam03799 861208005839 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 861208005840 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 861208005841 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208005842 metabolite-proton symporter; Region: 2A0106; TIGR00883 861208005843 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 861208005844 putative substrate translocation pore; other site 861208005845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208005846 metal binding site [ion binding]; metal-binding site 861208005847 active site 861208005848 I-site; other site 861208005849 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 861208005850 FAD binding domain; Region: FAD_binding_4; pfam01565 861208005851 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 861208005852 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 861208005853 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 861208005854 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 861208005855 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 861208005856 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 861208005857 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 861208005858 active site 861208005859 homodimer interface [polypeptide binding]; other site 861208005860 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 861208005861 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 861208005862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208005863 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 861208005864 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 861208005865 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 861208005866 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 861208005867 Mg++ binding site [ion binding]; other site 861208005868 putative catalytic motif [active] 861208005869 putative substrate binding site [chemical binding]; other site 861208005870 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 861208005871 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 861208005872 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 861208005873 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 861208005874 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 861208005875 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 861208005876 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 861208005877 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 861208005878 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 861208005879 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208005880 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 861208005881 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 861208005882 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; cl16911 861208005883 cell division protein MraZ; Reviewed; Region: PRK00326 861208005884 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208005885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208005886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208005887 FAD dependent oxidoreductase; Region: DAO; pfam01266 861208005888 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 861208005889 N-acetyl-D-glucosamine binding site [chemical binding]; other site 861208005890 catalytic residue [active] 861208005891 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 861208005892 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 861208005893 amidase catalytic site [active] 861208005894 Zn binding residues [ion binding]; other site 861208005895 substrate binding site [chemical binding]; other site 861208005896 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208005897 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 861208005898 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 861208005899 putative metal binding site [ion binding]; other site 861208005900 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 861208005901 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 861208005902 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 861208005903 active site 861208005904 ADP/pyrophosphate binding site [chemical binding]; other site 861208005905 dimerization interface [polypeptide binding]; other site 861208005906 allosteric effector site; other site 861208005907 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 861208005908 fructose-1,6-bisphosphate binding site; other site 861208005909 LysE type translocator; Region: LysE; cl00565 861208005910 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 861208005911 N-acetyl-D-glucosamine binding site [chemical binding]; other site 861208005912 catalytic residue [active] 861208005913 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 861208005914 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 861208005915 S-adenosylmethionine binding site [chemical binding]; other site 861208005916 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 861208005917 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 861208005918 active site 861208005919 lytic murein transglycosylase; Region: MltB_2; TIGR02283 861208005920 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 861208005921 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208005922 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 861208005923 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 861208005924 FAD binding site [chemical binding]; other site 861208005925 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 861208005926 dimerization interface [polypeptide binding]; other site 861208005927 putative DNA binding site [nucleotide binding]; other site 861208005928 putative Zn2+ binding site [ion binding]; other site 861208005929 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 861208005930 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 861208005931 S-adenosylmethionine binding site [chemical binding]; other site 861208005932 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 861208005933 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208005934 Walker A/P-loop; other site 861208005935 ATP binding site [chemical binding]; other site 861208005936 Q-loop/lid; other site 861208005937 ABC transporter signature motif; other site 861208005938 Walker B; other site 861208005939 D-loop; other site 861208005940 H-loop/switch region; other site 861208005941 ABC transporter; Region: ABC_tran_2; pfam12848 861208005942 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 861208005943 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 861208005944 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 861208005945 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 861208005946 CoA-transferase family III; Region: CoA_transf_3; pfam02515 861208005947 thiamine pyrophosphate protein; Validated; Region: PRK08199 861208005948 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 861208005949 PYR/PP interface [polypeptide binding]; other site 861208005950 dimer interface [polypeptide binding]; other site 861208005951 TPP binding site [chemical binding]; other site 861208005952 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 861208005953 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; cd00568 861208005954 TPP-binding site [chemical binding]; other site 861208005955 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 861208005956 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 861208005957 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 861208005958 homotrimer interaction site [polypeptide binding]; other site 861208005959 putative active site [active] 861208005960 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 861208005961 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 861208005962 active site 861208005963 catalytic residues [active] 861208005964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 861208005965 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208005966 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 861208005967 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 861208005968 Helix-turn-helix domains; Region: HTH; cl00088 861208005969 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 861208005970 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 861208005971 P-loop; other site 861208005972 Magnesium ion binding site [ion binding]; other site 861208005973 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 861208005974 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 861208005975 putative active site [active] 861208005976 metal binding site [ion binding]; metal-binding site 861208005977 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208005978 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 861208005979 NAD(P) binding site [chemical binding]; other site 861208005980 catalytic residues [active] 861208005981 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 861208005982 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 861208005983 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 861208005984 ethanolamine permease; Region: 2A0305; TIGR00908 861208005985 N-formylglutamate amidohydrolase; Region: FGase; cl01522 861208005986 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 861208005987 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 861208005988 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 861208005989 putative active site [active] 861208005990 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208005991 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 861208005992 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 861208005993 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 861208005994 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 861208005995 dimer interface [polypeptide binding]; other site 861208005996 conserved gate region; other site 861208005997 putative PBP binding loops; other site 861208005998 ABC-ATPase subunit interface; other site 861208005999 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208006000 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208006001 Walker A/P-loop; other site 861208006002 ATP binding site [chemical binding]; other site 861208006003 Q-loop/lid; other site 861208006004 ABC transporter signature motif; other site 861208006005 Walker B; other site 861208006006 D-loop; other site 861208006007 H-loop/switch region; other site 861208006008 TOBE domain; Region: TOBE_2; cl01440 861208006009 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 861208006010 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 861208006011 putative NAD(P) binding site [chemical binding]; other site 861208006012 catalytic Zn binding site [ion binding]; other site 861208006013 structural Zn binding site [ion binding]; other site 861208006014 Predicted ATPase [General function prediction only]; Region: COG3910 861208006015 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208006016 Walker A/P-loop; other site 861208006017 ATP binding site [chemical binding]; other site 861208006018 ABC transporter signature motif; other site 861208006019 Walker B; other site 861208006020 D-loop; other site 861208006021 H-loop/switch region; other site 861208006022 metabolite-proton symporter; Region: 2A0106; TIGR00883 861208006023 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 861208006024 putative substrate translocation pore; other site 861208006025 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 861208006026 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 861208006027 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 861208006028 substrate binding pocket [chemical binding]; other site 861208006029 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 861208006030 B12 binding site [chemical binding]; other site 861208006031 cobalt ligand [ion binding]; other site 861208006032 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 861208006033 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; cd00249 861208006034 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 861208006035 dimerization interface [polypeptide binding]; other site 861208006036 putative active cleft [active] 861208006037 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 861208006038 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; cl01155 861208006039 Protein of unknown function (DUF541); Region: SIMPL; cl01077 861208006040 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 861208006041 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 861208006042 GAF domain; Region: GAF; cl15785 861208006043 Phytochrome region; Region: PHY; pfam00360 861208006044 Histidine kinase; Region: HisKA_2; cl06527 861208006045 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 861208006046 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 861208006047 active site 861208006048 phosphorylation site [posttranslational modification] 861208006049 intermolecular recognition site; other site 861208006050 dimerization interface [polypeptide binding]; other site 861208006051 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 861208006052 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 861208006053 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 861208006054 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 861208006055 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 861208006056 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208006057 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 861208006058 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 861208006059 DNA binding residues [nucleotide binding] 861208006060 DNA primase; Validated; Region: dnaG; PRK05667 861208006061 CHC2 zinc finger; Region: zf-CHC2; cl15369 861208006062 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 861208006063 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 861208006064 active site 861208006065 metal binding site [ion binding]; metal-binding site 861208006066 interdomain interaction site; other site 861208006067 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 861208006068 GatB domain; Region: GatB_Yqey; cl11497 861208006069 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 861208006070 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 861208006071 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 861208006072 catalytic site [active] 861208006073 subunit interface [polypeptide binding]; other site 861208006074 multidrug efflux protein; Reviewed; Region: PRK01766 861208006075 MatE; Region: MatE; cl10513 861208006076 MatE; Region: MatE; cl10513 861208006077 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 861208006078 Cache domain; Region: Cache_1; pfam02743 861208006079 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 861208006080 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208006081 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208006082 dimer interface [polypeptide binding]; other site 861208006083 putative CheW interface [polypeptide binding]; other site 861208006084 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 861208006085 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 861208006086 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 861208006087 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 861208006088 LytTr DNA-binding domain; Region: LytTR; cl04498 861208006089 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 861208006090 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 861208006091 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208006092 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 861208006093 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 861208006094 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208006095 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 861208006096 IMP binding site; other site 861208006097 dimer interface [polypeptide binding]; other site 861208006098 partial ornithine binding site; other site 861208006099 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208006100 metal binding site [ion binding]; metal-binding site 861208006101 active site 861208006102 I-site; other site 861208006103 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 861208006104 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 861208006105 Fe-S cluster binding site [ion binding]; other site 861208006106 active site 861208006107 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 861208006108 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 861208006109 FeS/SAM binding site; other site 861208006110 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 861208006111 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 861208006112 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 861208006113 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208006114 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 861208006115 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208006116 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 861208006117 putative DNA binding site [nucleotide binding]; other site 861208006118 putative Zn2+ binding site [ion binding]; other site 861208006119 AsnC family; Region: AsnC_trans_reg; pfam01037 861208006120 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 861208006121 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 861208006122 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208006123 Helix-turn-helix domains; Region: HTH; cl00088 861208006124 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208006125 putative effector binding pocket; other site 861208006126 dimerization interface [polypeptide binding]; other site 861208006127 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 861208006128 dimerization interface [polypeptide binding]; other site 861208006129 putative DNA binding site [nucleotide binding]; other site 861208006130 putative Zn2+ binding site [ion binding]; other site 861208006131 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 861208006132 FMN binding site [chemical binding]; other site 861208006133 active site 861208006134 substrate binding site [chemical binding]; other site 861208006135 catalytic residue [active] 861208006136 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 861208006137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208006138 NAD(P) binding site [chemical binding]; other site 861208006139 active site 861208006140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208006141 Helix-turn-helix domains; Region: HTH; cl00088 861208006142 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 861208006143 dimerization interface [polypeptide binding]; other site 861208006144 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 861208006145 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 861208006146 aspartate aminotransferase; Provisional; Region: PRK05764 861208006147 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 861208006148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208006149 homodimer interface [polypeptide binding]; other site 861208006150 catalytic residue [active] 861208006151 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 861208006152 EamA-like transporter family; Region: EamA; cl01037 861208006153 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 861208006154 EamA-like transporter family; Region: EamA; cl01037 861208006155 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 861208006156 DNA-binding site [nucleotide binding]; DNA binding site 861208006157 RNA-binding motif; other site 861208006158 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208006159 Bacterial SH3 domain; Region: SH3_3; cl02551 861208006160 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 861208006161 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208006162 Helix-turn-helix domains; Region: HTH; cl00088 861208006163 osmolarity response regulator; Provisional; Region: ompR; PRK09468 861208006164 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 861208006165 active site 861208006166 phosphorylation site [posttranslational modification] 861208006167 intermolecular recognition site; other site 861208006168 dimerization interface [polypeptide binding]; other site 861208006169 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 861208006170 DNA binding site [nucleotide binding] 861208006171 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 861208006172 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 861208006173 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 861208006174 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 861208006175 ATP binding site [chemical binding]; other site 861208006176 Mg2+ binding site [ion binding]; other site 861208006177 G-X-G motif; other site 861208006178 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 861208006179 dimer interface [polypeptide binding]; other site 861208006180 putative tRNA-binding site [nucleotide binding]; other site 861208006181 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 861208006182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208006183 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 861208006184 Membrane fusogenic activity; Region: BMFP; cl01115 861208006185 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 861208006186 Uncharacterized conserved protein [Function unknown]; Region: COG1565 861208006187 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 861208006188 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 861208006189 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 861208006190 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 861208006191 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 861208006192 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 861208006193 active site 861208006194 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 861208006195 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 861208006196 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 861208006197 active site 861208006198 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 861208006199 active site 861208006200 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 861208006201 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 861208006202 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 861208006203 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 861208006204 Ligand binding site; other site 861208006205 Putative Catalytic site; other site 861208006206 DXD motif; other site 861208006207 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 861208006208 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208006209 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208006210 dimer interface [polypeptide binding]; other site 861208006211 putative CheW interface [polypeptide binding]; other site 861208006212 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 861208006213 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208006214 NAD(P) binding site [chemical binding]; other site 861208006215 catalytic residues [active] 861208006216 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 861208006217 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208006218 Helix-turn-helix domains; Region: HTH; cl00088 861208006219 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 861208006220 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 861208006221 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 861208006222 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208006223 metal binding site [ion binding]; metal-binding site 861208006224 active site 861208006225 I-site; other site 861208006226 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 861208006227 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 861208006228 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 861208006229 5S rRNA interface [nucleotide binding]; other site 861208006230 CTC domain interface [polypeptide binding]; other site 861208006231 L16 interface [polypeptide binding]; other site 861208006232 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 861208006233 dimerization interface [polypeptide binding]; other site 861208006234 PAS domain S-box; Region: sensory_box; TIGR00229 861208006235 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 861208006236 putative active site [active] 861208006237 heme pocket [chemical binding]; other site 861208006238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208006239 metal binding site [ion binding]; metal-binding site 861208006240 active site 861208006241 I-site; other site 861208006242 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 861208006243 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 861208006244 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208006245 substrate binding pocket [chemical binding]; other site 861208006246 membrane-bound complex binding site; other site 861208006247 hinge residues; other site 861208006248 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 861208006249 putative active site [active] 861208006250 catalytic residue [active] 861208006251 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208006252 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 861208006253 GTP-binding protein YchF; Reviewed; Region: PRK09601 861208006254 YchF GTPase; Region: YchF; cd01900 861208006255 G1 box; other site 861208006256 GTP/Mg2+ binding site [chemical binding]; other site 861208006257 Switch I region; other site 861208006258 G2 box; other site 861208006259 Switch II region; other site 861208006260 G3 box; other site 861208006261 G4 box; other site 861208006262 G5 box; other site 861208006263 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 861208006264 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 861208006265 putative active site [active] 861208006266 putative catalytic site [active] 861208006267 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 861208006268 putative active site [active] 861208006269 putative catalytic site [active] 861208006270 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 861208006271 S-adenosylmethionine binding site [chemical binding]; other site 861208006272 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 861208006273 active site 861208006274 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 861208006275 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 861208006276 cytochrome b; Provisional; Region: CYTB; MTH00191 861208006277 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 861208006278 Qi binding site; other site 861208006279 intrachain domain interface; other site 861208006280 interchain domain interface [polypeptide binding]; other site 861208006281 heme bH binding site [chemical binding]; other site 861208006282 heme bL binding site [chemical binding]; other site 861208006283 Qo binding site; other site 861208006284 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 861208006285 interchain domain interface [polypeptide binding]; other site 861208006286 intrachain domain interface; other site 861208006287 Qi binding site; other site 861208006288 Qo binding site; other site 861208006289 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 861208006290 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 861208006291 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 861208006292 [2Fe-2S] cluster binding site [ion binding]; other site 861208006293 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 861208006294 putative catalytic site [active] 861208006295 putative metal binding site [ion binding]; other site 861208006296 putative phosphate binding site [ion binding]; other site 861208006297 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 861208006298 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208006299 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 861208006300 Walker A/P-loop; other site 861208006301 ATP binding site [chemical binding]; other site 861208006302 Q-loop/lid; other site 861208006303 ABC transporter signature motif; other site 861208006304 Walker B; other site 861208006305 D-loop; other site 861208006306 H-loop/switch region; other site 861208006307 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 861208006308 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208006309 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 861208006310 Walker A/P-loop; other site 861208006311 ATP binding site [chemical binding]; other site 861208006312 Q-loop/lid; other site 861208006313 ABC transporter signature motif; other site 861208006314 Walker B; other site 861208006315 D-loop; other site 861208006316 H-loop/switch region; other site 861208006317 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 861208006318 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 861208006319 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 861208006320 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 861208006321 PhoU domain; Region: PhoU; pfam01895 861208006322 PhoU domain; Region: PhoU; pfam01895 861208006323 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 861208006324 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 861208006325 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 861208006326 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 861208006327 active site 861208006328 NTP binding site [chemical binding]; other site 861208006329 metal binding triad [ion binding]; metal-binding site 861208006330 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 861208006331 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 861208006332 putative active site [active] 861208006333 putative CoA binding site [chemical binding]; other site 861208006334 nudix motif; other site 861208006335 metal binding site [ion binding]; metal-binding site 861208006336 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 861208006337 MoxR-like ATPases [General function prediction only]; Region: COG0714 861208006338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208006339 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 861208006340 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 861208006341 Aerotolerance regulator N-terminal; Region: BatA; cl06567 861208006342 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 861208006343 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 861208006344 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 861208006345 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208006346 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 861208006347 putative substrate translocation pore; other site 861208006348 cation transport protein; Region: 2A0119; TIGR00898 861208006349 Predicted acetyltransferase [General function prediction only]; Region: COG3153 861208006350 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208006351 Coenzyme A binding pocket [chemical binding]; other site 861208006352 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 861208006353 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 861208006354 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 861208006355 putative dimer interface [polypeptide binding]; other site 861208006356 N-terminal domain interface [polypeptide binding]; other site 861208006357 putative substrate binding pocket (H-site) [chemical binding]; other site 861208006358 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 861208006359 nudix motif; other site 861208006360 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 861208006361 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 861208006362 putative active site [active] 861208006363 putative metal binding site [ion binding]; other site 861208006364 2-isopropylmalate synthase; Validated; Region: PRK03739 861208006365 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 861208006366 active site 861208006367 catalytic residues [active] 861208006368 metal binding site [ion binding]; metal-binding site 861208006369 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 861208006370 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 861208006371 benzoate transporter; Region: benE; TIGR00843 861208006372 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 861208006373 RNA polymerase sigma factor; Provisional; Region: PRK12536 861208006374 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208006375 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208006376 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 861208006377 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 861208006378 oligomer interface [polypeptide binding]; other site 861208006379 active site residues [active] 861208006380 HupE / UreJ protein; Region: HupE_UreJ; cl01011 861208006381 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 861208006382 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 861208006383 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 861208006384 Cation efflux family; Region: Cation_efflux; cl00316 861208006385 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 861208006386 dimer interface [polypeptide binding]; other site 861208006387 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208006388 ligand binding site [chemical binding]; other site 861208006389 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 861208006390 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 861208006391 dimerization interface [polypeptide binding]; other site 861208006392 ligand binding site [chemical binding]; other site 861208006393 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 861208006394 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 861208006395 dimerization interface [polypeptide binding]; other site 861208006396 putative DNA binding site [nucleotide binding]; other site 861208006397 putative Zn2+ binding site [ion binding]; other site 861208006398 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 861208006399 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208006400 Walker A/P-loop; other site 861208006401 ATP binding site [chemical binding]; other site 861208006402 Q-loop/lid; other site 861208006403 ABC transporter signature motif; other site 861208006404 Walker B; other site 861208006405 D-loop; other site 861208006406 H-loop/switch region; other site 861208006407 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 861208006408 dimer interface [polypeptide binding]; other site 861208006409 conserved gate region; other site 861208006410 putative PBP binding loops; other site 861208006411 ABC-ATPase subunit interface; other site 861208006412 NMT1-like family; Region: NMT1_2; cl15260 861208006413 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 861208006414 thymidine kinase; Provisional; Region: PRK04296 861208006415 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 861208006416 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 861208006417 Autoinducer binding domain; Region: Autoind_bind; pfam03472 861208006418 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 861208006419 DNA binding residues [nucleotide binding] 861208006420 dimerization interface [polypeptide binding]; other site 861208006421 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 861208006422 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 861208006423 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 861208006424 N-terminal plug; other site 861208006425 ligand-binding site [chemical binding]; other site 861208006426 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 861208006427 anthranilate synthase; Provisional; Region: PRK13566 861208006428 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 861208006429 chorismate binding enzyme; Region: Chorismate_bind; cl10555 861208006430 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 861208006431 glutamine binding [chemical binding]; other site 861208006432 catalytic triad [active] 861208006433 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 861208006434 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 861208006435 Zn2+ binding site [ion binding]; other site 861208006436 Mg2+ binding site [ion binding]; other site 861208006437 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 861208006438 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 861208006439 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 861208006440 active site 861208006441 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 861208006442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208006443 Coenzyme A binding pocket [chemical binding]; other site 861208006444 putative acetyltransferase; Provisional; Region: PRK03624 861208006445 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 861208006446 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 861208006447 active site 861208006448 catalytic site [active] 861208006449 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208006450 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 861208006451 substrate binding site [chemical binding]; other site 861208006452 ATP binding site [chemical binding]; other site 861208006453 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 861208006454 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208006455 Protein of unknown function (DUF2026); Region: DUF2026; pfam09641 861208006456 GTP-binding protein Der; Reviewed; Region: PRK00093 861208006457 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 861208006458 G1 box; other site 861208006459 GTP/Mg2+ binding site [chemical binding]; other site 861208006460 Switch I region; other site 861208006461 G2 box; other site 861208006462 Switch II region; other site 861208006463 G3 box; other site 861208006464 G4 box; other site 861208006465 G5 box; other site 861208006466 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 861208006467 G1 box; other site 861208006468 GTP/Mg2+ binding site [chemical binding]; other site 861208006469 Switch I region; other site 861208006470 G2 box; other site 861208006471 G3 box; other site 861208006472 Switch II region; other site 861208006473 G4 box; other site 861208006474 G5 box; other site 861208006475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 861208006476 Phospholipid methyltransferase; Region: PEMT; cl00763 861208006477 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 861208006478 NodB motif; other site 861208006479 putative active site [active] 861208006480 putative catalytic site [active] 861208006481 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208006482 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 861208006483 Major Facilitator Superfamily; Region: MFS_1; pfam07690 861208006484 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 861208006485 active site 861208006486 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 861208006487 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 861208006488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208006489 NAD(P) binding site [chemical binding]; other site 861208006490 active site 861208006491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208006492 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 861208006493 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 861208006494 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 861208006495 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 861208006496 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 861208006497 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 861208006498 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 861208006499 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 861208006500 XdhC Rossmann domain; Region: XdhC_C; pfam13478 861208006501 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208006502 Helix-turn-helix domains; Region: HTH; cl00088 861208006503 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 861208006504 dimerization interface [polypeptide binding]; other site 861208006505 substrate binding pocket [chemical binding]; other site 861208006506 Predicted membrane protein [Function unknown]; Region: COG3748 861208006507 Protein of unknown function (DUF989); Region: DUF989; pfam06181 861208006508 Cytochrome c; Region: Cytochrom_C; cl11414 861208006509 guanine deaminase; Provisional; Region: PRK09228 861208006510 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 861208006511 active site 861208006512 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 861208006513 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 861208006514 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 861208006515 phosphate binding site [ion binding]; other site 861208006516 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 861208006517 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208006518 Helix-turn-helix domains; Region: HTH; cl00088 861208006519 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 861208006520 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208006521 Sporulation related domain; Region: SPOR; cl10051 861208006522 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 861208006523 active site 861208006524 metal binding site [ion binding]; metal-binding site 861208006525 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 861208006526 active site 861208006527 homotetramer interface [polypeptide binding]; other site 861208006528 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 861208006529 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 861208006530 Protein of unknown function DUF86; Region: DUF86; cl01031 861208006531 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 861208006532 active site 861208006533 NTP binding site [chemical binding]; other site 861208006534 metal binding triad [ion binding]; metal-binding site 861208006535 antibiotic binding site [chemical binding]; other site 861208006536 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 861208006537 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 861208006538 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 861208006539 active site 861208006540 catalytic site [active] 861208006541 tetramer interface [polypeptide binding]; other site 861208006542 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 861208006543 NADH-dependent fumarate reductase; Provisional; Region: PTZ00306 861208006544 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 861208006545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208006546 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; cl16911 861208006547 PAS fold; Region: PAS_7; pfam12860 861208006548 PAS fold; Region: PAS_4; pfam08448 861208006549 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 861208006550 putative active site [active] 861208006551 heme pocket [chemical binding]; other site 861208006552 PAS fold; Region: PAS_7; pfam12860 861208006553 sensory histidine kinase AtoS; Provisional; Region: PRK11360 861208006554 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 861208006555 dimer interface [polypeptide binding]; other site 861208006556 phosphorylation site [posttranslational modification] 861208006557 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 861208006558 ATP binding site [chemical binding]; other site 861208006559 Mg2+ binding site [ion binding]; other site 861208006560 G-X-G motif; other site 861208006561 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 861208006562 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 861208006563 active site 861208006564 phosphorylation site [posttranslational modification] 861208006565 intermolecular recognition site; other site 861208006566 dimerization interface [polypeptide binding]; other site 861208006567 Response regulator receiver domain; Region: Response_reg; pfam00072 861208006568 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 861208006569 active site 861208006570 phosphorylation site [posttranslational modification] 861208006571 intermolecular recognition site; other site 861208006572 dimerization interface [polypeptide binding]; other site 861208006573 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 861208006574 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 861208006575 ATP binding site [chemical binding]; other site 861208006576 Mg++ binding site [ion binding]; other site 861208006577 motif III; other site 861208006578 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 861208006579 nucleotide binding region [chemical binding]; other site 861208006580 ATP-binding site [chemical binding]; other site 861208006581 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 861208006582 EamA-like transporter family; Region: EamA; cl01037 861208006583 EamA-like transporter family; Region: EamA; cl01037 861208006584 DoxX; Region: DoxX; cl00976 861208006585 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208006586 EamA-like transporter family; Region: EamA; cl01037 861208006587 EamA-like transporter family; Region: EamA; cl01037 861208006588 Uncharacterized conserved protein [Function unknown]; Region: COG2308 861208006589 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 861208006590 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 861208006591 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 861208006592 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208006593 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 861208006594 S-adenosylmethionine binding site [chemical binding]; other site 861208006595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208006596 Coenzyme A binding pocket [chemical binding]; other site 861208006597 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 861208006598 putative metal binding site [ion binding]; other site 861208006599 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208006600 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 861208006601 catalytic core [active] 861208006602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 861208006603 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 861208006604 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 861208006605 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 861208006606 TM-ABC transporter signature motif; other site 861208006607 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 861208006608 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 861208006609 Walker A/P-loop; other site 861208006610 ATP binding site [chemical binding]; other site 861208006611 Q-loop/lid; other site 861208006612 ABC transporter signature motif; other site 861208006613 Walker B; other site 861208006614 D-loop; other site 861208006615 H-loop/switch region; other site 861208006616 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 861208006617 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 861208006618 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 861208006619 putative ligand binding site [chemical binding]; other site 861208006620 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 861208006621 Helix-turn-helix domains; Region: HTH; cl00088 861208006622 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 861208006623 putative dimerization interface [polypeptide binding]; other site 861208006624 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208006625 Helix-turn-helix domains; Region: HTH; cl00088 861208006626 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 861208006627 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 861208006628 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208006629 dimer interface [polypeptide binding]; other site 861208006630 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 861208006631 putative CheW interface [polypeptide binding]; other site 861208006632 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 861208006633 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 861208006634 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208006635 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 861208006636 dimer interface [polypeptide binding]; other site 861208006637 conserved gate region; other site 861208006638 putative PBP binding loops; other site 861208006639 ABC-ATPase subunit interface; other site 861208006640 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208006641 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 861208006642 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208006643 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 861208006644 substrate binding pocket [chemical binding]; other site 861208006645 membrane-bound complex binding site; other site 861208006646 hinge residues; other site 861208006647 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 861208006648 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 861208006649 Walker A/P-loop; other site 861208006650 ATP binding site [chemical binding]; other site 861208006651 Q-loop/lid; other site 861208006652 ABC transporter signature motif; other site 861208006653 Walker B; other site 861208006654 D-loop; other site 861208006655 H-loop/switch region; other site 861208006656 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 861208006657 O-Antigen ligase; Region: Wzy_C; cl04850 861208006658 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 861208006659 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 861208006660 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 861208006661 active site 861208006662 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 861208006663 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 861208006664 active site 861208006665 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 861208006666 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 861208006667 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 861208006668 Chain length determinant protein; Region: Wzz; cl15801 861208006669 Chain length determinant protein; Region: Wzz; cl15801 861208006670 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 861208006671 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 861208006672 active site 861208006673 substrate binding site [chemical binding]; other site 861208006674 metal binding site [ion binding]; metal-binding site 861208006675 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 861208006676 apolar tunnel; other site 861208006677 heme binding site [chemical binding]; other site 861208006678 dimerization interface [polypeptide binding]; other site 861208006679 Protein of unknown function (DUF423); Region: DUF423; cl01008 861208006680 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 861208006681 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 861208006682 Helix-turn-helix domains; Region: HTH; cl00088 861208006683 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 861208006684 allantoate amidohydrolase; Reviewed; Region: PRK12893 861208006685 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 861208006686 active site 861208006687 metal binding site [ion binding]; metal-binding site 861208006688 dimer interface [polypeptide binding]; other site 861208006689 phenylhydantoinase; Validated; Region: PRK08323 861208006690 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 861208006691 tetramer interface [polypeptide binding]; other site 861208006692 active site 861208006693 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 861208006694 nudix motif; other site 861208006695 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 861208006696 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 861208006697 Walker A/P-loop; other site 861208006698 ATP binding site [chemical binding]; other site 861208006699 Q-loop/lid; other site 861208006700 ABC transporter signature motif; other site 861208006701 Walker B; other site 861208006702 D-loop; other site 861208006703 H-loop/switch region; other site 861208006704 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 861208006705 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 861208006706 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 861208006707 NMT1/THI5 like; Region: NMT1; pfam09084 861208006708 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 861208006709 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 861208006710 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 861208006711 ABC-2 type transporter; Region: ABC2_membrane; cl11417 861208006712 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 861208006713 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 861208006714 ligand binding site [chemical binding]; other site 861208006715 flexible hinge region; other site 861208006716 Helix-turn-helix domains; Region: HTH; cl00088 861208006717 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208006718 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208006719 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 861208006720 UreF; Region: UreF; pfam01730 861208006721 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 861208006722 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 861208006723 dimer interface [polypeptide binding]; other site 861208006724 catalytic residues [active] 861208006725 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 861208006726 catalytic triad [active] 861208006727 dimer interface [polypeptide binding]; other site 861208006728 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 861208006729 urease subunit alpha; Reviewed; Region: ureC; PRK13207 861208006730 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 861208006731 subunit interactions [polypeptide binding]; other site 861208006732 active site 861208006733 flap region; other site 861208006734 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 861208006735 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 861208006736 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 861208006737 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 861208006738 gamma-beta subunit interface [polypeptide binding]; other site 861208006739 alpha-beta subunit interface [polypeptide binding]; other site 861208006740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 861208006741 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 861208006742 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 861208006743 alpha-gamma subunit interface [polypeptide binding]; other site 861208006744 beta-gamma subunit interface [polypeptide binding]; other site 861208006745 UreD urease accessory protein; Region: UreD; cl00530 861208006746 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 861208006747 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 861208006748 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 861208006749 Walker A/P-loop; other site 861208006750 ATP binding site [chemical binding]; other site 861208006751 Q-loop/lid; other site 861208006752 ABC transporter signature motif; other site 861208006753 Walker B; other site 861208006754 D-loop; other site 861208006755 H-loop/switch region; other site 861208006756 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 861208006757 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 861208006758 Walker A/P-loop; other site 861208006759 ATP binding site [chemical binding]; other site 861208006760 Q-loop/lid; other site 861208006761 ABC transporter signature motif; other site 861208006762 Walker B; other site 861208006763 D-loop; other site 861208006764 H-loop/switch region; other site 861208006765 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 861208006766 TM-ABC transporter signature motif; other site 861208006767 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 861208006768 TM-ABC transporter signature motif; other site 861208006769 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 861208006770 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 861208006771 putative ligand binding site [chemical binding]; other site 861208006772 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 861208006773 glutamine synthetase; Region: PLN02284 861208006774 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 861208006775 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 861208006776 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 861208006777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208006778 NAD(P) binding site [chemical binding]; other site 861208006779 active site 861208006780 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 861208006781 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 861208006782 dimer interface [polypeptide binding]; other site 861208006783 phosphorylation site [posttranslational modification] 861208006784 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 861208006785 ATP binding site [chemical binding]; other site 861208006786 Mg2+ binding site [ion binding]; other site 861208006787 G-X-G motif; other site 861208006788 Response regulator receiver domain; Region: Response_reg; pfam00072 861208006789 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 861208006790 active site 861208006791 phosphorylation site [posttranslational modification] 861208006792 intermolecular recognition site; other site 861208006793 dimerization interface [polypeptide binding]; other site 861208006794 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208006795 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 861208006796 active site 861208006797 phosphorylation site [posttranslational modification] 861208006798 intermolecular recognition site; other site 861208006799 dimerization interface [polypeptide binding]; other site 861208006800 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 861208006801 DNA binding residues [nucleotide binding] 861208006802 dimerization interface [polypeptide binding]; other site 861208006803 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208006804 AAA domain; Region: AAA_28; pfam13521 861208006805 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 861208006806 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 861208006807 dimerization interface [polypeptide binding]; other site 861208006808 ligand binding site [chemical binding]; other site 861208006809 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 861208006810 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 861208006811 Walker A/P-loop; other site 861208006812 ATP binding site [chemical binding]; other site 861208006813 Q-loop/lid; other site 861208006814 ABC transporter signature motif; other site 861208006815 Walker B; other site 861208006816 D-loop; other site 861208006817 H-loop/switch region; other site 861208006818 potential frameshift: common BLAST hit: gi|159185210|ref|NP_355376.2| ABC transporter nucleotide-binding protein/ATPase 861208006819 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208006820 Walker B; other site 861208006821 D-loop; other site 861208006822 H-loop/switch region; other site 861208006823 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208006824 Walker A/P-loop; other site 861208006825 ATP binding site [chemical binding]; other site 861208006826 Q-loop/lid; other site 861208006827 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 861208006828 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 861208006829 TM-ABC transporter signature motif; other site 861208006830 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 861208006831 TM-ABC transporter signature motif; other site 861208006832 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 861208006833 active site 861208006834 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 861208006835 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 861208006836 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208006837 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208006838 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 861208006839 active site 861208006840 phosphorylation site [posttranslational modification] 861208006841 intermolecular recognition site; other site 861208006842 dimerization interface [polypeptide binding]; other site 861208006843 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 861208006844 DNA binding site [nucleotide binding] 861208006845 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 861208006846 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 861208006847 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 861208006848 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 861208006849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 861208006850 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 861208006851 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 861208006852 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 861208006853 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 861208006854 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 861208006855 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 861208006856 RNA binding surface [nucleotide binding]; other site 861208006857 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 861208006858 active site 861208006859 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; cl16911 861208006860 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 861208006861 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 861208006862 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208006863 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 861208006864 DNA binding residues [nucleotide binding] 861208006865 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 861208006866 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 861208006867 GDP-binding site [chemical binding]; other site 861208006868 ACT binding site; other site 861208006869 IMP binding site; other site 861208006870 EamA-like transporter family; Region: EamA; cl01037 861208006871 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 861208006872 EamA-like transporter family; Region: EamA; cl01037 861208006873 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208006874 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 861208006875 N-acetyl-D-glucosamine binding site [chemical binding]; other site 861208006876 catalytic residue [active] 861208006877 Predicted esterase [General function prediction only]; Region: COG0400 861208006878 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 861208006879 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 861208006880 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208006881 Zn binding site [ion binding]; other site 861208006882 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 861208006883 Zn binding site [ion binding]; other site 861208006884 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 861208006885 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 861208006886 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 861208006887 FAD binding pocket [chemical binding]; other site 861208006888 FAD binding motif [chemical binding]; other site 861208006889 phosphate binding motif [ion binding]; other site 861208006890 NAD binding pocket [chemical binding]; other site 861208006891 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 861208006892 ligand binding site [chemical binding]; other site 861208006893 active site 861208006894 UGI interface [polypeptide binding]; other site 861208006895 catalytic site [active] 861208006896 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208006897 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 861208006898 dimer interface [polypeptide binding]; other site 861208006899 active site 861208006900 metal binding site [ion binding]; metal-binding site 861208006901 glutathione binding site [chemical binding]; other site 861208006902 Protein of unknown function (DUF454); Region: DUF454; cl01063 861208006903 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 861208006904 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 861208006905 Walker A/P-loop; other site 861208006906 ATP binding site [chemical binding]; other site 861208006907 Q-loop/lid; other site 861208006908 ABC transporter signature motif; other site 861208006909 Walker B; other site 861208006910 D-loop; other site 861208006911 H-loop/switch region; other site 861208006912 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 861208006913 ABC-ATPase subunit interface; other site 861208006914 dimer interface [polypeptide binding]; other site 861208006915 putative PBP binding regions; other site 861208006916 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 861208006917 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 861208006918 putative hemin binding site; other site 861208006919 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 861208006920 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 861208006921 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 861208006922 META domain; Region: META; cl01245 861208006923 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 861208006924 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 861208006925 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 861208006926 putative active site [active] 861208006927 putative substrate binding site [chemical binding]; other site 861208006928 putative cosubstrate binding site; other site 861208006929 catalytic site [active] 861208006930 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 861208006931 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 861208006932 dimer interface [polypeptide binding]; other site 861208006933 phosphorylation site [posttranslational modification] 861208006934 sensory histidine kinase AtoS; Provisional; Region: PRK11360 861208006935 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 861208006936 ATP binding site [chemical binding]; other site 861208006937 Mg2+ binding site [ion binding]; other site 861208006938 G-X-G motif; other site 861208006939 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 861208006940 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 861208006941 active site 861208006942 phosphorylation site [posttranslational modification] 861208006943 intermolecular recognition site; other site 861208006944 dimerization interface [polypeptide binding]; other site 861208006945 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 861208006946 DNA binding site [nucleotide binding] 861208006947 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 861208006948 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 861208006949 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208006950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 861208006951 NMT1-like family; Region: NMT1_2; cl15260 861208006952 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 861208006953 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 861208006954 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 861208006955 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 861208006956 putative ligand binding residues [chemical binding]; other site 861208006957 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 861208006958 ABC-ATPase subunit interface; other site 861208006959 dimer interface [polypeptide binding]; other site 861208006960 putative PBP binding regions; other site 861208006961 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 861208006962 ABC-ATPase subunit interface; other site 861208006963 dimer interface [polypeptide binding]; other site 861208006964 putative PBP binding regions; other site 861208006965 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 861208006966 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 861208006967 Walker A/P-loop; other site 861208006968 ATP binding site [chemical binding]; other site 861208006969 Q-loop/lid; other site 861208006970 ABC transporter signature motif; other site 861208006971 Walker B; other site 861208006972 D-loop; other site 861208006973 H-loop/switch region; other site 861208006974 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 861208006975 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 861208006976 dimerization interface [polypeptide binding]; other site 861208006977 DPS ferroxidase diiron center [ion binding]; other site 861208006978 ion pore; other site 861208006979 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 861208006980 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 861208006981 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208006982 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208006983 dimer interface [polypeptide binding]; other site 861208006984 putative CheW interface [polypeptide binding]; other site 861208006985 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 861208006986 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 861208006987 active site 861208006988 catalytic tetrad [active] 861208006989 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 861208006990 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 861208006991 putative substrate translocation pore; other site 861208006992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208006993 Helix-turn-helix domains; Region: HTH; cl00088 861208006994 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 861208006995 dimerization interface [polypeptide binding]; other site 861208006996 LysR family transcriptional regulator; Provisional; Region: PRK14997 861208006997 Helix-turn-helix domains; Region: HTH; cl00088 861208006998 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 861208006999 putative effector binding pocket; other site 861208007000 putative dimerization interface [polypeptide binding]; other site 861208007001 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 861208007002 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 861208007003 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 861208007004 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 861208007005 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 861208007006 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 861208007007 putative catalytic site [active] 861208007008 putative metal binding site [ion binding]; other site 861208007009 putative phosphate binding site [ion binding]; other site 861208007010 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 861208007011 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 861208007012 putative active site [active] 861208007013 catalytic site [active] 861208007014 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 861208007015 putative active site [active] 861208007016 catalytic site [active] 861208007017 pyridoxamine kinase; Validated; Region: PRK05756 861208007018 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 861208007019 pyridoxal binding site [chemical binding]; other site 861208007020 dimer interface [polypeptide binding]; other site 861208007021 ATP binding site [chemical binding]; other site 861208007022 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 861208007023 active site clefts [active] 861208007024 zinc binding site [ion binding]; other site 861208007025 dimer interface [polypeptide binding]; other site 861208007026 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 861208007027 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 861208007028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007029 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 861208007030 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 861208007031 putative substrate translocation pore; other site 861208007032 metabolite-proton symporter; Region: 2A0106; TIGR00883 861208007033 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 861208007034 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 861208007035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007036 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 861208007037 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 861208007038 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 861208007039 Flavin Reductases; Region: FlaRed; cl00801 861208007040 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 861208007041 putative FMN binding site [chemical binding]; other site 861208007042 pyrimidine utilization protein D; Region: RutD; TIGR03611 861208007043 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 861208007044 homotrimer interaction site [polypeptide binding]; other site 861208007045 putative active site [active] 861208007046 Isochorismatase family; Region: Isochorismatase; pfam00857 861208007047 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 861208007048 catalytic triad [active] 861208007049 conserved cis-peptide bond; other site 861208007050 pyrimidine utilization protein A; Region: RutA; TIGR03612 861208007051 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 861208007052 active site 861208007053 dimer interface [polypeptide binding]; other site 861208007054 non-prolyl cis peptide bond; other site 861208007055 insertion regions; other site 861208007056 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 861208007057 heme binding pocket [chemical binding]; other site 861208007058 heme ligand [chemical binding]; other site 861208007059 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 861208007060 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 861208007061 inhibitor site; inhibition site 861208007062 active site 861208007063 dimer interface [polypeptide binding]; other site 861208007064 catalytic residue [active] 861208007065 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208007066 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208007067 DNA-binding site [nucleotide binding]; DNA binding site 861208007068 FCD domain; Region: FCD; cl11656 861208007069 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208007070 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 861208007071 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208007072 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 861208007073 dimer interface [polypeptide binding]; other site 861208007074 conserved gate region; other site 861208007075 putative PBP binding loops; other site 861208007076 ABC-ATPase subunit interface; other site 861208007077 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208007078 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 861208007079 dimer interface [polypeptide binding]; other site 861208007080 conserved gate region; other site 861208007081 putative PBP binding loops; other site 861208007082 ABC-ATPase subunit interface; other site 861208007083 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208007084 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 861208007085 Walker A/P-loop; other site 861208007086 ATP binding site [chemical binding]; other site 861208007087 Q-loop/lid; other site 861208007088 ABC transporter signature motif; other site 861208007089 Walker B; other site 861208007090 D-loop; other site 861208007091 H-loop/switch region; other site 861208007092 TOBE domain; Region: TOBE_2; cl01440 861208007093 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 861208007094 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208007095 substrate binding site [chemical binding]; other site 861208007096 ATP binding site [chemical binding]; other site 861208007097 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 861208007098 homodimer interface [polypeptide binding]; other site 861208007099 homotetramer interface [polypeptide binding]; other site 861208007100 active site pocket [active] 861208007101 cleavage site 861208007102 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 861208007103 homodimer interface [polypeptide binding]; other site 861208007104 substrate-cofactor binding pocket; other site 861208007105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208007106 catalytic residue [active] 861208007107 cell density-dependent motility repressor; Provisional; Region: PRK10082 861208007108 Helix-turn-helix domains; Region: HTH; cl00088 861208007109 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 861208007110 dimerization interface [polypeptide binding]; other site 861208007111 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 861208007112 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208007113 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208007114 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 861208007115 Walker A/P-loop; other site 861208007116 ATP binding site [chemical binding]; other site 861208007117 Q-loop/lid; other site 861208007118 ABC transporter signature motif; other site 861208007119 Walker B; other site 861208007120 D-loop; other site 861208007121 H-loop/switch region; other site 861208007122 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208007123 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 861208007124 Walker A/P-loop; other site 861208007125 ATP binding site [chemical binding]; other site 861208007126 Q-loop/lid; other site 861208007127 ABC transporter signature motif; other site 861208007128 Walker B; other site 861208007129 D-loop; other site 861208007130 H-loop/switch region; other site 861208007131 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208007132 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 861208007133 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 861208007134 dimer interface [polypeptide binding]; other site 861208007135 conserved gate region; other site 861208007136 putative PBP binding loops; other site 861208007137 ABC-ATPase subunit interface; other site 861208007138 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208007139 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 861208007140 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 861208007141 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208007142 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 861208007143 active site 861208007144 dimer interface [polypeptide binding]; other site 861208007145 Predicted integral membrane protein [Function unknown]; Region: COG0392 861208007146 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 861208007147 Uncharacterized conserved protein [Function unknown]; Region: COG2898 861208007148 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 861208007149 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 861208007150 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 861208007151 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208007152 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208007153 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208007154 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208007155 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208007156 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 861208007157 benzoate transport; Region: 2A0115; TIGR00895 861208007158 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 861208007159 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 861208007160 YCII-related domain; Region: YCII; cl00999 861208007161 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 861208007162 dimer interface [polypeptide binding]; other site 861208007163 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 861208007164 active site 861208007165 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 861208007166 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 861208007167 active site 861208007168 dimer interface [polypeptide binding]; other site 861208007169 metal binding site [ion binding]; metal-binding site 861208007170 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 861208007171 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 861208007172 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 861208007173 Flavin binding site [chemical binding]; other site 861208007174 Flavin Reductases; Region: FlaRed; cl00801 861208007175 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208007176 Helix-turn-helix domains; Region: HTH; cl00088 861208007177 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 861208007178 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 861208007179 dimer interface [polypeptide binding]; other site 861208007180 phosphorylation site [posttranslational modification] 861208007181 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 861208007182 ATP binding site [chemical binding]; other site 861208007183 Mg2+ binding site [ion binding]; other site 861208007184 G-X-G motif; other site 861208007185 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208007186 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 861208007187 active site 861208007188 phosphorylation site [posttranslational modification] 861208007189 intermolecular recognition site; other site 861208007190 dimerization interface [polypeptide binding]; other site 861208007191 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 861208007192 DNA binding site [nucleotide binding] 861208007193 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208007194 Helix-turn-helix domains; Region: HTH; cl00088 861208007195 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 861208007196 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 861208007197 putative active site [active] 861208007198 putative FMN binding site [chemical binding]; other site 861208007199 putative substrate binding site [chemical binding]; other site 861208007200 putative catalytic residue [active] 861208007201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007202 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208007203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208007204 Walker A/P-loop; other site 861208007205 ATP binding site [chemical binding]; other site 861208007206 Q-loop/lid; other site 861208007207 ABC transporter signature motif; other site 861208007208 Walker B; other site 861208007209 D-loop; other site 861208007210 H-loop/switch region; other site 861208007211 TOBE domain; Region: TOBE_2; cl01440 861208007212 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 861208007213 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 861208007214 dimer interface [polypeptide binding]; other site 861208007215 conserved gate region; other site 861208007216 putative PBP binding loops; other site 861208007217 ABC-ATPase subunit interface; other site 861208007218 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 861208007219 dimer interface [polypeptide binding]; other site 861208007220 conserved gate region; other site 861208007221 putative PBP binding loops; other site 861208007222 ABC-ATPase subunit interface; other site 861208007223 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208007224 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 861208007225 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 861208007226 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208007227 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208007228 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 861208007229 active site 861208007230 phosphorylation site [posttranslational modification] 861208007231 intermolecular recognition site; other site 861208007232 dimerization interface [polypeptide binding]; other site 861208007233 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 861208007234 DNA binding site [nucleotide binding] 861208007235 sensory histidine kinase AtoS; Provisional; Region: PRK11360 861208007236 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 861208007237 dimer interface [polypeptide binding]; other site 861208007238 phosphorylation site [posttranslational modification] 861208007239 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 861208007240 ATP binding site [chemical binding]; other site 861208007241 Mg2+ binding site [ion binding]; other site 861208007242 G-X-G motif; other site 861208007243 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 861208007244 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 861208007245 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 861208007246 P-loop; other site 861208007247 Magnesium ion binding site [ion binding]; other site 861208007248 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 861208007249 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 861208007250 active site 861208007251 phosphorylation site [posttranslational modification] 861208007252 intermolecular recognition site; other site 861208007253 dimerization interface [polypeptide binding]; other site 861208007254 CheB methylesterase; Region: CheB_methylest; pfam01339 861208007255 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 861208007256 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 861208007257 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; cl16911 861208007258 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 861208007259 putative CheA interaction surface; other site 861208007260 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 861208007261 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 861208007262 dimerization interface [polypeptide binding]; other site 861208007263 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208007264 dimer interface [polypeptide binding]; other site 861208007265 putative CheW interface [polypeptide binding]; other site 861208007266 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 861208007267 putative CheA interaction surface; other site 861208007268 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 861208007269 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 861208007270 putative binding surface; other site 861208007271 active site 861208007272 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 861208007273 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 861208007274 ATP binding site [chemical binding]; other site 861208007275 Mg2+ binding site [ion binding]; other site 861208007276 G-X-G motif; other site 861208007277 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 861208007278 Response regulator receiver domain; Region: Response_reg; pfam00072 861208007279 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 861208007280 active site 861208007281 phosphorylation site [posttranslational modification] 861208007282 intermolecular recognition site; other site 861208007283 dimerization interface [polypeptide binding]; other site 861208007284 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 861208007285 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 861208007286 active site 861208007287 phosphorylation site [posttranslational modification] 861208007288 intermolecular recognition site; other site 861208007289 dimerization interface [polypeptide binding]; other site 861208007290 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 861208007291 Zn2+ binding site [ion binding]; other site 861208007292 Mg2+ binding site [ion binding]; other site 861208007293 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 861208007294 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 861208007295 active site 861208007296 non-prolyl cis peptide bond; other site 861208007297 Flavin Reductases; Region: FlaRed; cl00801 861208007298 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208007299 Helix-turn-helix domains; Region: HTH; cl00088 861208007300 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 861208007301 dimerization interface [polypeptide binding]; other site 861208007302 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 861208007303 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 861208007304 iron-sulfur cluster [ion binding]; other site 861208007305 [2Fe-2S] cluster binding site [ion binding]; other site 861208007306 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 861208007307 alpha subunit interface [polypeptide binding]; other site 861208007308 active site 861208007309 substrate binding site [chemical binding]; other site 861208007310 Fe binding site [ion binding]; other site 861208007311 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 861208007312 active site 861208007313 Zn binding site [ion binding]; other site 861208007314 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 861208007315 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 861208007316 Walker A/P-loop; other site 861208007317 ATP binding site [chemical binding]; other site 861208007318 Q-loop/lid; other site 861208007319 ABC transporter signature motif; other site 861208007320 Walker B; other site 861208007321 D-loop; other site 861208007322 H-loop/switch region; other site 861208007323 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 861208007324 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 861208007325 substrate binding pocket [chemical binding]; other site 861208007326 membrane-bound complex binding site; other site 861208007327 hinge residues; other site 861208007328 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208007329 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 861208007330 dimer interface [polypeptide binding]; other site 861208007331 conserved gate region; other site 861208007332 putative PBP binding loops; other site 861208007333 ABC-ATPase subunit interface; other site 861208007334 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208007335 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 861208007336 dimer interface [polypeptide binding]; other site 861208007337 conserved gate region; other site 861208007338 putative PBP binding loops; other site 861208007339 ABC-ATPase subunit interface; other site 861208007340 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 861208007341 FAD binding domain; Region: FAD_binding_4; pfam01565 861208007342 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 861208007343 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 861208007344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208007345 homodimer interface [polypeptide binding]; other site 861208007346 catalytic residue [active] 861208007347 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 861208007348 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 861208007349 FAD binding pocket [chemical binding]; other site 861208007350 FAD binding motif [chemical binding]; other site 861208007351 phosphate binding motif [ion binding]; other site 861208007352 beta-alpha-beta structure motif; other site 861208007353 NAD binding pocket [chemical binding]; other site 861208007354 Heme binding pocket [chemical binding]; other site 861208007355 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 861208007356 catalytic loop [active] 861208007357 iron binding site [ion binding]; other site 861208007358 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 861208007359 ATP binding site [chemical binding]; other site 861208007360 active site 861208007361 substrate binding site [chemical binding]; other site 861208007362 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208007363 Helix-turn-helix domains; Region: HTH; cl00088 861208007364 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 861208007365 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 861208007366 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 861208007367 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 861208007368 Protein export membrane protein; Region: SecD_SecF; cl14618 861208007369 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 861208007370 elongation factor P; Validated; Region: PRK00529 861208007371 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 861208007372 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 861208007373 RNA binding site [nucleotide binding]; other site 861208007374 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 861208007375 RNA binding site [nucleotide binding]; other site 861208007376 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 861208007377 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 861208007378 motif 1; other site 861208007379 dimer interface [polypeptide binding]; other site 861208007380 active site 861208007381 motif 2; other site 861208007382 motif 3; other site 861208007383 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 861208007384 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 861208007385 FeS/SAM binding site; other site 861208007386 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 861208007387 AsnC family; Region: AsnC_trans_reg; pfam01037 861208007388 Helix-turn-helix domains; Region: HTH; cl00088 861208007389 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208007390 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 861208007391 dimerization interface [polypeptide binding]; other site 861208007392 substrate binding pocket [chemical binding]; other site 861208007393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007394 FAD dependent oxidoreductase; Region: DAO; pfam01266 861208007395 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 861208007396 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 861208007397 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 861208007398 dimer interface [polypeptide binding]; other site 861208007399 conserved gate region; other site 861208007400 putative PBP binding loops; other site 861208007401 ABC-ATPase subunit interface; other site 861208007402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208007403 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 861208007404 Walker A/P-loop; other site 861208007405 ATP binding site [chemical binding]; other site 861208007406 Q-loop/lid; other site 861208007407 ABC transporter signature motif; other site 861208007408 Walker B; other site 861208007409 D-loop; other site 861208007410 H-loop/switch region; other site 861208007411 TOBE domain; Region: TOBE_2; cl01440 861208007412 Helix-turn-helix domains; Region: HTH; cl00088 861208007413 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 861208007414 putative active site pocket [active] 861208007415 cleavage site 861208007416 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 861208007417 ThiS interaction site; other site 861208007418 putative active site [active] 861208007419 tetramer interface [polypeptide binding]; other site 861208007420 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 861208007421 thiS-thiF/thiG interaction site; other site 861208007422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007423 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 861208007424 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 861208007425 ThiC-associated domain; Region: ThiC-associated; pfam13667 861208007426 ThiC family; Region: ThiC; cl08031 861208007427 Phosphopantetheine attachment site; Region: PP-binding; cl09936 861208007428 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 861208007429 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 861208007430 active site 861208007431 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 861208007432 dimer interface [polypeptide binding]; other site 861208007433 motif 1; other site 861208007434 active site 861208007435 motif 2; other site 861208007436 motif 3; other site 861208007437 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 861208007438 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 861208007439 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 861208007440 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 861208007441 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 861208007442 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 861208007443 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208007444 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 861208007445 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 861208007446 Walker A/P-loop; other site 861208007447 ATP binding site [chemical binding]; other site 861208007448 Q-loop/lid; other site 861208007449 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 861208007450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208007451 ABC transporter signature motif; other site 861208007452 Walker B; other site 861208007453 D-loop; other site 861208007454 H-loop/switch region; other site 861208007455 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 861208007456 ligand binding site [chemical binding]; other site 861208007457 flexible hinge region; other site 861208007458 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208007459 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 861208007460 Iron-sulfur protein interface; other site 861208007461 proximal heme binding site [chemical binding]; other site 861208007462 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 861208007463 catalytic loop [active] 861208007464 iron binding site [ion binding]; other site 861208007465 cyclase homology domain; Region: CHD; cd07302 861208007466 nucleotidyl binding site; other site 861208007467 metal binding site [ion binding]; metal-binding site 861208007468 dimer interface [polypeptide binding]; other site 861208007469 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 861208007470 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 861208007471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007472 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 861208007473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007474 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 861208007475 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 861208007476 NodB motif; other site 861208007477 putative active site [active] 861208007478 putative catalytic site [active] 861208007479 putative Zn binding site [ion binding]; other site 861208007480 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 861208007481 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 861208007482 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208007483 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 861208007484 Walker A/P-loop; other site 861208007485 ATP binding site [chemical binding]; other site 861208007486 Q-loop/lid; other site 861208007487 ABC transporter signature motif; other site 861208007488 Walker B; other site 861208007489 D-loop; other site 861208007490 H-loop/switch region; other site 861208007491 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208007492 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 861208007493 Walker A/P-loop; other site 861208007494 ATP binding site [chemical binding]; other site 861208007495 Q-loop/lid; other site 861208007496 ABC transporter signature motif; other site 861208007497 Walker B; other site 861208007498 D-loop; other site 861208007499 H-loop/switch region; other site 861208007500 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208007501 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 861208007502 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208007503 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208007504 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 861208007505 dimer interface [polypeptide binding]; other site 861208007506 conserved gate region; other site 861208007507 putative PBP binding loops; other site 861208007508 ABC-ATPase subunit interface; other site 861208007509 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 861208007510 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 861208007511 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 861208007512 dimer interface [polypeptide binding]; other site 861208007513 conserved gate region; other site 861208007514 putative PBP binding loops; other site 861208007515 ABC-ATPase subunit interface; other site 861208007516 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 861208007517 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 861208007518 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 861208007519 putative ADP-binding pocket [chemical binding]; other site 861208007520 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 861208007521 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 861208007522 CutC family; Region: CutC; cl01218 861208007523 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 861208007524 Uncharacterized conserved protein [Function unknown]; Region: COG5476 861208007525 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 861208007526 MlrC C-terminus; Region: MlrC_C; pfam07171 861208007527 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 861208007528 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 861208007529 active site 861208007530 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208007531 classical (c) SDRs; Region: SDR_c; cd05233 861208007532 NAD(P) binding site [chemical binding]; other site 861208007533 active site 861208007534 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 861208007535 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 861208007536 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 861208007537 putative active site [active] 861208007538 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208007539 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 861208007540 Walker A/P-loop; other site 861208007541 ATP binding site [chemical binding]; other site 861208007542 Q-loop/lid; other site 861208007543 ABC transporter signature motif; other site 861208007544 Walker B; other site 861208007545 D-loop; other site 861208007546 H-loop/switch region; other site 861208007547 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208007548 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 861208007549 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208007550 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 861208007551 dimer interface [polypeptide binding]; other site 861208007552 conserved gate region; other site 861208007553 putative PBP binding loops; other site 861208007554 ABC-ATPase subunit interface; other site 861208007555 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208007556 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 861208007557 dimer interface [polypeptide binding]; other site 861208007558 conserved gate region; other site 861208007559 putative PBP binding loops; other site 861208007560 ABC-ATPase subunit interface; other site 861208007561 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208007562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007563 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 861208007564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208007565 DNA-binding site [nucleotide binding]; DNA binding site 861208007566 UTRA domain; Region: UTRA; cl01230 861208007567 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 861208007568 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 861208007569 dimer interface [polypeptide binding]; other site 861208007570 active site 861208007571 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 861208007572 dimer interface [polypeptide binding]; other site 861208007573 active site 861208007574 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 861208007575 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 861208007576 active site 861208007577 dimer interface [polypeptide binding]; other site 861208007578 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 861208007579 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208007580 hypothetical protein; Provisional; Region: PRK06185 861208007581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007583 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 861208007584 active site 861208007585 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 861208007586 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 861208007587 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 861208007588 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 861208007589 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 861208007590 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 861208007591 substrate-cofactor binding pocket; other site 861208007592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208007593 catalytic residue [active] 861208007594 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 861208007595 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 861208007596 Surface antigen; Region: Bac_surface_Ag; cl03097 861208007597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 861208007598 Family of unknown function (DUF490); Region: DUF490; pfam04357 861208007599 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 861208007600 putative CheA interaction surface; other site 861208007601 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 861208007602 PAS fold; Region: PAS_3; pfam08447 861208007603 putative active site [active] 861208007604 heme pocket [chemical binding]; other site 861208007605 PAS domain; Region: PAS_9; pfam13426 861208007606 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 861208007607 putative active site [active] 861208007608 heme pocket [chemical binding]; other site 861208007609 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 861208007610 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208007611 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208007612 dimer interface [polypeptide binding]; other site 861208007613 putative CheW interface [polypeptide binding]; other site 861208007614 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 861208007615 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 861208007616 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 861208007617 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 861208007618 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 861208007619 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 861208007620 alpha subunit interaction interface [polypeptide binding]; other site 861208007621 Walker A motif; other site 861208007622 ATP binding site [chemical binding]; other site 861208007623 Walker B motif; other site 861208007624 inhibitor binding site; inhibition site 861208007625 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 861208007626 ATP synthase; Region: ATP-synt; cl00365 861208007627 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 861208007628 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 861208007629 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 861208007630 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 861208007631 beta subunit interaction interface [polypeptide binding]; other site 861208007632 Walker A motif; other site 861208007633 ATP binding site [chemical binding]; other site 861208007634 Walker B motif; other site 861208007635 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 861208007636 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 861208007637 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 861208007638 primosome assembly protein PriA; Validated; Region: PRK05580 861208007639 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 861208007640 ATP binding site [chemical binding]; other site 861208007641 putative Mg++ binding site [ion binding]; other site 861208007642 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208007643 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 861208007644 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 861208007645 active site 861208007646 DNA binding site [nucleotide binding] 861208007647 Int/Topo IB signature motif; other site 861208007648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 861208007649 TraB family; Region: TraB; cl12050 861208007650 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 861208007651 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 861208007652 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 861208007653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007654 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 861208007655 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 861208007656 LysE type translocator; Region: LysE; cl00565 861208007657 MAPEG family; Region: MAPEG; cl09190 861208007658 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 861208007659 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 861208007660 E3 interaction surface; other site 861208007661 lipoyl attachment site [posttranslational modification]; other site 861208007662 e3 binding domain; Region: E3_binding; pfam02817 861208007663 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 861208007664 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 861208007665 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 861208007666 TPP-binding site [chemical binding]; other site 861208007667 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 861208007668 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 861208007669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007670 CoA-ligase; Region: Ligase_CoA; cl02894 861208007671 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 861208007672 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208007673 CoA-ligase; Region: Ligase_CoA; cl02894 861208007674 malate dehydrogenase; Reviewed; Region: PRK06223 861208007675 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 861208007676 NAD(P) binding site [chemical binding]; other site 861208007677 dimer interface [polypeptide binding]; other site 861208007678 tetramer (dimer of dimers) interface [polypeptide binding]; other site 861208007679 substrate binding site [chemical binding]; other site 861208007680 Predicted ATPase [General function prediction only]; Region: COG1485 861208007681 Protease inhibitor Inh; Region: Inh; pfam02974 861208007682 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 861208007683 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 861208007684 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 861208007685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007686 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 861208007687 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 861208007688 putative SdhC subunit interface [polypeptide binding]; other site 861208007689 putative proximal heme binding site [chemical binding]; other site 861208007690 putative Iron-sulfur protein interface [polypeptide binding]; other site 861208007691 putative proximal quinone binding site; other site 861208007692 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 861208007693 Iron-sulfur protein interface; other site 861208007694 proximal quinone binding site [chemical binding]; other site 861208007695 SdhD (CybS) interface [polypeptide binding]; other site 861208007696 proximal heme binding site [chemical binding]; other site 861208007697 Predicted methyltransferase [General function prediction only]; Region: COG3897 861208007698 EVE domain; Region: EVE; cl00728 861208007699 YCII-related domain; Region: YCII; cl00999 861208007700 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 861208007701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007702 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 861208007703 UGMP family protein; Validated; Region: PRK09604 861208007704 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 861208007705 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 861208007706 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 861208007707 domain interfaces; other site 861208007708 active site 861208007709 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 861208007710 active site 861208007711 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 861208007712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 861208007713 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 861208007714 HemY protein N-terminus; Region: HemY_N; pfam07219 861208007715 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 861208007716 putative metal binding site [ion binding]; other site 861208007717 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 861208007718 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 861208007719 catalytic triad [active] 861208007720 enterobactin exporter EntS; Provisional; Region: PRK10489 861208007721 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 861208007722 putative substrate translocation pore; other site 861208007723 YGGT family; Region: YGGT; cl00508 861208007724 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 861208007725 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 861208007726 dimer interface [polypeptide binding]; other site 861208007727 substrate binding site [chemical binding]; other site 861208007728 metal binding sites [ion binding]; metal-binding site 861208007729 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 861208007730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208007731 Coenzyme A binding pocket [chemical binding]; other site 861208007732 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 861208007733 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 861208007734 G1 box; other site 861208007735 putative GEF interaction site [polypeptide binding]; other site 861208007736 GTP/Mg2+ binding site [chemical binding]; other site 861208007737 Switch I region; other site 861208007738 G2 box; other site 861208007739 G3 box; other site 861208007740 Switch II region; other site 861208007741 G4 box; other site 861208007742 G5 box; other site 861208007743 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 861208007744 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 861208007745 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 861208007746 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 861208007747 active site 861208007748 Zn binding site [ion binding]; other site 861208007749 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208007750 Helix-turn-helix domains; Region: HTH; cl00088 861208007751 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 861208007752 putative substrate translocation pore; other site 861208007753 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 861208007754 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 861208007755 ANP binding site [chemical binding]; other site 861208007756 Substrate Binding Site II [chemical binding]; other site 861208007757 Substrate Binding Site I [chemical binding]; other site 861208007758 hypothetical protein; Provisional; Region: PRK06194 861208007759 classical (c) SDRs; Region: SDR_c; cd05233 861208007760 NAD(P) binding site [chemical binding]; other site 861208007761 active site 861208007762 LysE type translocator; Region: LysE; cl00565 861208007763 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 861208007764 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 861208007765 Walker A/P-loop; other site 861208007766 ATP binding site [chemical binding]; other site 861208007767 Q-loop/lid; other site 861208007768 ABC transporter signature motif; other site 861208007769 Walker B; other site 861208007770 D-loop; other site 861208007771 H-loop/switch region; other site 861208007772 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 861208007773 TM-ABC transporter signature motif; other site 861208007774 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 861208007775 zinc binding site [ion binding]; other site 861208007776 putative ligand binding site [chemical binding]; other site 861208007777 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 861208007778 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 861208007779 FeS/SAM binding site; other site 861208007780 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 861208007781 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 861208007782 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 861208007783 aromatic arch; other site 861208007784 DCoH dimer interaction site [polypeptide binding]; other site 861208007785 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 861208007786 DCoH tetramer interaction site [polypeptide binding]; other site 861208007787 substrate binding site [chemical binding]; other site 861208007788 Low molecular weight phosphatase family; Region: LMWPc; cd00115 861208007789 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 861208007790 active site 861208007791 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 861208007792 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 861208007793 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 861208007794 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 861208007795 active site 861208007796 catalytic triad [active] 861208007797 oxyanion hole [active] 861208007798 switch loop; other site 861208007799 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 861208007800 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 861208007801 Walker A/P-loop; other site 861208007802 ATP binding site [chemical binding]; other site 861208007803 Q-loop/lid; other site 861208007804 ABC transporter signature motif; other site 861208007805 Walker B; other site 861208007806 D-loop; other site 861208007807 H-loop/switch region; other site 861208007808 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 861208007809 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 861208007810 FtsX-like permease family; Region: FtsX; cl15850 861208007811 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 861208007812 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 861208007813 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 861208007814 aconitate hydratase; Validated; Region: PRK09277 861208007815 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 861208007816 substrate binding site [chemical binding]; other site 861208007817 ligand binding site [chemical binding]; other site 861208007818 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 861208007819 substrate binding site [chemical binding]; other site 861208007820 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 861208007821 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208007822 Walker A/P-loop; other site 861208007823 ATP binding site [chemical binding]; other site 861208007824 Q-loop/lid; other site 861208007825 ABC transporter signature motif; other site 861208007826 Walker B; other site 861208007827 D-loop; other site 861208007828 H-loop/switch region; other site 861208007829 CcmB protein; Region: CcmB; cl01016 861208007830 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 861208007831 Heme exporter protein D (CcmD); Region: CcmD; cl11475 861208007832 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 861208007833 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 861208007834 catalytic residues [active] 861208007835 central insert; other site 861208007836 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208007837 metal binding site [ion binding]; metal-binding site 861208007838 active site 861208007839 I-site; other site 861208007840 Protein of unknown function (DUF2585); Region: DUF2585; cl07906 861208007841 Intracellular septation protein A; Region: IspA; cl01098 861208007842 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 861208007843 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 861208007844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208007845 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 861208007846 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 861208007847 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 861208007848 FeS/SAM binding site; other site 861208007849 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 861208007850 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 861208007851 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 861208007852 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208007853 signal recognition particle protein; Provisional; Region: PRK10867 861208007854 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 861208007855 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 861208007856 P loop; other site 861208007857 GTP binding site [chemical binding]; other site 861208007858 Signal peptide binding domain; Region: SRP_SPB; pfam02978 861208007859 Chorismate mutase type II; Region: CM_2; cl00693 861208007860 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 861208007861 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 861208007862 RimM N-terminal domain; Region: RimM; pfam01782 861208007863 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 861208007864 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 861208007865 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 861208007866 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 861208007867 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 861208007868 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 861208007869 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 861208007870 Walker A/P-loop; other site 861208007871 ATP binding site [chemical binding]; other site 861208007872 Q-loop/lid; other site 861208007873 ABC transporter signature motif; other site 861208007874 Walker B; other site 861208007875 D-loop; other site 861208007876 H-loop/switch region; other site 861208007877 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 861208007878 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 861208007879 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 861208007880 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 861208007881 Transposase; Region: DEDD_Tnp_IS110; pfam01548 861208007882 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 861208007883 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 861208007884 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 861208007885 putative substrate translocation pore; other site 861208007886 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 861208007887 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 861208007888 substrate binding site [chemical binding]; other site 861208007889 ligand binding site [chemical binding]; other site 861208007890 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 861208007891 Peptidase family M48; Region: Peptidase_M48; cl12018 861208007892 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 861208007893 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 861208007894 ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins...; Region: ABC_ThiQ_thiamine_transporter; cd03298 861208007895 Walker A/P-loop; other site 861208007896 ATP binding site [chemical binding]; other site 861208007897 Q-loop/lid; other site 861208007898 ABC transporter signature motif; other site 861208007899 Walker B; other site 861208007900 D-loop; other site 861208007901 H-loop/switch region; other site 861208007902 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 861208007903 dimer interface [polypeptide binding]; other site 861208007904 conserved gate region; other site 861208007905 ABC-ATPase subunit interface; other site 861208007906 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 861208007907 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 861208007908 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 861208007909 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 861208007910 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208007911 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 861208007912 ABC transporter ATPase component; Reviewed; Region: PRK11147 861208007913 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 861208007914 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 861208007915 Thiamine pyrophosphokinase; Region: TPK; cd07995 861208007916 active site 861208007917 dimerization interface [polypeptide binding]; other site 861208007918 thiamine binding site [chemical binding]; other site 861208007919 homoserine O-succinyltransferase; Provisional; Region: PRK05368 861208007920 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 861208007921 proposed active site lysine [active] 861208007922 conserved cys residue [active] 861208007923 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 861208007924 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 861208007925 active site 861208007926 catalytic residues [active] 861208007927 Transglycosylase; Region: Transgly; cl07896 861208007928 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 861208007929 substrate binding pocket [chemical binding]; other site 861208007930 chain length determination region; other site 861208007931 substrate-Mg2+ binding site; other site 861208007932 catalytic residues [active] 861208007933 aspartate-rich region 1; other site 861208007934 active site lid residues [active] 861208007935 aspartate-rich region 2; other site 861208007936 putative outer membrane lipoprotein; Provisional; Region: PRK10510 861208007937 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 861208007938 ligand binding site [chemical binding]; other site 861208007939 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 861208007940 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 861208007941 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 861208007942 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 861208007943 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 861208007944 Helix-turn-helix domains; Region: HTH; cl00088 861208007945 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 861208007946 pyruvate carboxylase; Reviewed; Region: PRK12999 861208007947 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 861208007948 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208007949 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 861208007950 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 861208007951 active site 861208007952 catalytic residues [active] 861208007953 metal binding site [ion binding]; metal-binding site 861208007954 homodimer binding site [polypeptide binding]; other site 861208007955 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 861208007956 carboxyltransferase (CT) interaction site; other site 861208007957 biotinylation site [posttranslational modification]; other site 861208007958 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 861208007959 Autoinducer binding domain; Region: Autoind_bind; pfam03472 861208007960 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 861208007961 DNA binding residues [nucleotide binding] 861208007962 dimerization interface [polypeptide binding]; other site 861208007963 glucan exporter ATP-binding protein; Region: chvA; TIGR01192 861208007964 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208007965 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 861208007966 Walker A/P-loop; other site 861208007967 ATP binding site [chemical binding]; other site 861208007968 Q-loop/lid; other site 861208007969 ABC transporter signature motif; other site 861208007970 Walker B; other site 861208007971 D-loop; other site 861208007972 H-loop/switch region; other site 861208007973 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 861208007974 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 861208007975 Putative glucoamylase; Region: Glycoamylase; pfam10091 861208007976 Putative carbohydrate binding domain; Region: CBM_X; cl05621 861208007977 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 861208007978 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 861208007979 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 861208007980 Putative carbohydrate binding domain; Region: CBM_X; cl05621 861208007981 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 861208007982 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 861208007983 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 861208007984 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 861208007985 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 861208007986 metal binding site [ion binding]; metal-binding site 861208007987 putative dimer interface [polypeptide binding]; other site 861208007988 Predicted dehydrogenase [General function prediction only]; Region: COG0579 861208007989 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 861208007990 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 861208007991 tetramer interface [polypeptide binding]; other site 861208007992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208007993 catalytic residue [active] 861208007994 Dehydratase family; Region: ILVD_EDD; cl00340 861208007995 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 861208007996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208007997 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 861208007998 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 861208007999 putative NAD(P) binding site [chemical binding]; other site 861208008000 active site 861208008001 putative substrate binding site [chemical binding]; other site 861208008002 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 861208008003 FAD binding domain; Region: FAD_binding_4; pfam01565 861208008004 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208008005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208008006 DNA-binding site [nucleotide binding]; DNA binding site 861208008007 FCD domain; Region: FCD; cl11656 861208008008 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 861208008009 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 861208008010 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 861208008011 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 861208008012 DctM-like transporters; Region: DctM; pfam06808 861208008013 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 861208008014 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 861208008015 acetyl-CoA synthetase; Provisional; Region: PRK00174 861208008016 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 861208008017 AMP-binding enzyme; Region: AMP-binding; cl15778 861208008018 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 861208008019 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 861208008020 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 861208008021 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 861208008022 catalytic residue [active] 861208008023 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 861208008024 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 861208008025 HIGH motif; other site 861208008026 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 861208008027 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 861208008028 active site 861208008029 KMSKS motif; other site 861208008030 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 861208008031 tRNA binding surface [nucleotide binding]; other site 861208008032 Lipopolysaccharide-assembly; Region: LptE; cl01125 861208008033 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 861208008034 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 861208008035 Ferredoxin [Energy production and conversion]; Region: COG1146 861208008036 4Fe-4S binding domain; Region: Fer4; cl02805 861208008037 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 861208008038 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 861208008039 RNA binding surface [nucleotide binding]; other site 861208008040 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008041 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 861208008042 nucleotide binding region [chemical binding]; other site 861208008043 Superfamily II helicase [General function prediction only]; Region: COG1204 861208008044 ATP-binding site [chemical binding]; other site 861208008045 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 861208008046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008047 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 861208008048 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 861208008049 active site 861208008050 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 861208008051 catalytic triad [active] 861208008052 dimer interface [polypeptide binding]; other site 861208008053 Nitrogen regulatory protein P-II; Region: P-II; cl00412 861208008054 Nitrogen regulatory protein P-II; Region: P-II; smart00938 861208008055 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 861208008056 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 861208008057 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 861208008058 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008059 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 861208008060 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 861208008061 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 861208008062 putative catalytic site [active] 861208008063 putative phosphate binding site [ion binding]; other site 861208008064 active site 861208008065 metal binding site A [ion binding]; metal-binding site 861208008066 DNA binding site [nucleotide binding] 861208008067 putative AP binding site [nucleotide binding]; other site 861208008068 putative metal binding site B [ion binding]; other site 861208008069 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 861208008070 ligand binding site [chemical binding]; other site 861208008071 flexible hinge region; other site 861208008072 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208008073 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 861208008074 active site 861208008075 phosphorylation site [posttranslational modification] 861208008076 intermolecular recognition site; other site 861208008077 dimerization interface [polypeptide binding]; other site 861208008078 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 861208008079 DNA binding site [nucleotide binding] 861208008080 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208008081 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 861208008082 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 861208008083 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 861208008084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 861208008085 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 861208008086 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 861208008087 putative acyltransferase; Provisional; Region: PRK05790 861208008088 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 861208008089 dimer interface [polypeptide binding]; other site 861208008090 active site 861208008091 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 861208008092 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 861208008093 NAD(P) binding site [chemical binding]; other site 861208008094 homotetramer interface [polypeptide binding]; other site 861208008095 homodimer interface [polypeptide binding]; other site 861208008096 active site 861208008097 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 861208008098 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 861208008099 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 861208008100 heme binding site [chemical binding]; other site 861208008101 ferroxidase pore; other site 861208008102 ferroxidase diiron center [ion binding]; other site 861208008103 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 861208008104 putative active site [active] 861208008105 Ap4A binding site [chemical binding]; other site 861208008106 nudix motif; other site 861208008107 putative metal binding site [ion binding]; other site 861208008108 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 861208008109 NodB motif; other site 861208008110 putative active site [active] 861208008111 putative catalytic site [active] 861208008112 Zn binding site [ion binding]; other site 861208008113 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 861208008114 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 861208008115 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 861208008116 protein binding site [polypeptide binding]; other site 861208008117 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 861208008118 Catalytic dyad [active] 861208008119 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 861208008120 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 861208008121 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 861208008122 Oligomerisation domain; Region: Oligomerisation; cl00519 861208008123 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 861208008124 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 861208008125 active site 861208008126 (T/H)XGH motif; other site 861208008127 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 861208008128 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 861208008129 putative catalytic cysteine [active] 861208008130 gamma-glutamyl kinase; Provisional; Region: PRK05429 861208008131 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 861208008132 nucleotide binding site [chemical binding]; other site 861208008133 homotetrameric interface [polypeptide binding]; other site 861208008134 putative phosphate binding site [ion binding]; other site 861208008135 putative allosteric binding site; other site 861208008136 PUA domain; Region: PUA; cl00607 861208008137 GTPase CgtA; Reviewed; Region: obgE; PRK12299 861208008138 GTP1/OBG; Region: GTP1_OBG; pfam01018 861208008139 Obg GTPase; Region: Obg; cd01898 861208008140 G1 box; other site 861208008141 GTP/Mg2+ binding site [chemical binding]; other site 861208008142 Switch I region; other site 861208008143 G2 box; other site 861208008144 G3 box; other site 861208008145 Switch II region; other site 861208008146 G4 box; other site 861208008147 G5 box; other site 861208008148 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 861208008149 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208008150 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 861208008151 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208008152 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 861208008153 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 861208008154 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 861208008155 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 861208008156 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 861208008157 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 861208008158 substrate binding site [chemical binding]; other site 861208008159 tartrate dehydrogenase; Provisional; Region: PRK08194 861208008160 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 861208008161 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 861208008162 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 861208008163 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008164 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 861208008165 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 861208008166 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 861208008167 CbiD; Region: CbiD; cl00828 861208008168 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 861208008169 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 861208008170 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 861208008171 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 861208008172 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 861208008173 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; cl16911 861208008174 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 861208008175 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 861208008176 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 861208008177 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 861208008178 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 861208008179 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 861208008180 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 861208008181 Precorrin-8X methylmutase; Region: CbiC; pfam02570 861208008182 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 861208008183 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 861208008184 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 861208008185 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 861208008186 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 861208008187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008188 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 861208008189 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 861208008190 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008191 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 861208008192 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 861208008193 homodimer interface [polypeptide binding]; other site 861208008194 Walker A motif; other site 861208008195 ATP binding site [chemical binding]; other site 861208008196 hydroxycobalamin binding site [chemical binding]; other site 861208008197 Walker B motif; other site 861208008198 cobyric acid synthase; Provisional; Region: PRK00784 861208008199 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008200 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 861208008201 catalytic triad [active] 861208008202 CobD/Cbib protein; Region: CobD_Cbib; cl00561 861208008203 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 861208008204 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 861208008205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208008206 homodimer interface [polypeptide binding]; other site 861208008207 catalytic residue [active] 861208008208 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 861208008209 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 861208008210 putative active site pocket [active] 861208008211 metal binding site [ion binding]; metal-binding site 861208008212 Domain of unknown function (DUF718); Region: DUF718; cl01281 861208008213 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 861208008214 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 861208008215 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 861208008216 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 861208008217 putative NAD(P) binding site [chemical binding]; other site 861208008218 catalytic Zn binding site [ion binding]; other site 861208008219 structural Zn binding site [ion binding]; other site 861208008220 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 861208008221 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 861208008222 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 861208008223 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 861208008224 active site 861208008225 catalytic tetrad [active] 861208008226 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 861208008227 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208008228 putative ligand binding site [chemical binding]; other site 861208008229 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 861208008230 TM-ABC transporter signature motif; other site 861208008231 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208008232 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 861208008233 Walker A/P-loop; other site 861208008234 ATP binding site [chemical binding]; other site 861208008235 Q-loop/lid; other site 861208008236 ABC transporter signature motif; other site 861208008237 Walker B; other site 861208008238 D-loop; other site 861208008239 H-loop/switch region; other site 861208008240 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 861208008241 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208008242 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208008243 DNA-binding site [nucleotide binding]; DNA binding site 861208008244 FCD domain; Region: FCD; cl11656 861208008245 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 861208008246 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 861208008247 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 861208008248 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 861208008249 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 861208008250 purine monophosphate binding site [chemical binding]; other site 861208008251 dimer interface [polypeptide binding]; other site 861208008252 putative catalytic residues [active] 861208008253 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 861208008254 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 861208008255 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 861208008256 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 861208008257 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; cl16911 861208008258 Peptidase family M48; Region: Peptidase_M48; cl12018 861208008259 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 861208008260 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 861208008261 ParB-like nuclease domain; Region: ParBc; cl02129 861208008262 KorB domain; Region: KorB; pfam08535 861208008263 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 861208008264 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 861208008265 P-loop; other site 861208008266 Magnesium ion binding site [ion binding]; other site 861208008267 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 861208008268 Magnesium ion binding site [ion binding]; other site 861208008269 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; cl16911 861208008270 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 861208008271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008272 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 861208008273 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 861208008274 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 861208008275 trmE is a tRNA modification GTPase; Region: trmE; cd04164 861208008276 G1 box; other site 861208008277 GTP/Mg2+ binding site [chemical binding]; other site 861208008278 Switch I region; other site 861208008279 G2 box; other site 861208008280 Switch II region; other site 861208008281 G3 box; other site 861208008282 G4 box; other site 861208008283 G5 box; other site 861208008284 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 861208008285 transcription termination factor Rho; Provisional; Region: rho; PRK09376 861208008286 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 861208008287 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 861208008288 RNA binding site [nucleotide binding]; other site 861208008289 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 861208008290 multimer interface [polypeptide binding]; other site 861208008291 Walker A motif; other site 861208008292 ATP binding site [chemical binding]; other site 861208008293 Walker B motif; other site 861208008294 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 861208008295 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 861208008296 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 861208008297 substrate binding site [chemical binding]; other site 861208008298 active site 861208008299 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 861208008300 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 861208008301 DNA binding residues [nucleotide binding] 861208008302 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 861208008303 P-loop; other site 861208008304 Magnesium ion binding site [ion binding]; other site 861208008305 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 861208008306 P-loop; other site 861208008307 Magnesium ion binding site [ion binding]; other site 861208008308 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 861208008309 ParB-like nuclease domain; Region: ParBc; cl02129 861208008310 replication initiation protein RepC; Provisional; Region: PRK13824 861208008311 Helix-turn-helix domains; Region: HTH; cl00088 861208008312 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 861208008313 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 861208008314 CoA-transferase family III; Region: CoA_transf_3; pfam02515 861208008315 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 861208008316 CoA-transferase family III; Region: CoA_transf_3; pfam02515 861208008317 choline dehydrogenase; Validated; Region: PRK02106 861208008318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008319 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 861208008320 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008321 Helix-turn-helix domains; Region: HTH; cl00088 861208008322 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 861208008323 dimerization interface [polypeptide binding]; other site 861208008324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008325 Helix-turn-helix domains; Region: HTH; cl00088 861208008326 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 861208008327 putative effector binding pocket; other site 861208008328 putative dimerization interface [polypeptide binding]; other site 861208008329 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208008330 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 861208008331 active site 861208008332 metal binding site [ion binding]; metal-binding site 861208008333 classical (c) SDRs; Region: SDR_c; cd05233 861208008334 NAD(P) binding site [chemical binding]; other site 861208008335 active site 861208008336 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 861208008337 short chain dehydrogenase; Provisional; Region: PRK06180 861208008338 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 861208008339 NADP binding site [chemical binding]; other site 861208008340 active site 861208008341 steroid binding site; other site 861208008342 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 861208008343 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 861208008344 LysR family transcriptional regulator; Provisional; Region: PRK14997 861208008345 Helix-turn-helix domains; Region: HTH; cl00088 861208008346 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 861208008347 putative effector binding pocket; other site 861208008348 putative dimerization interface [polypeptide binding]; other site 861208008349 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 861208008350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008352 Cupin domain; Region: Cupin_2; cl09118 861208008353 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208008354 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 861208008355 NADP binding site [chemical binding]; other site 861208008356 active site 861208008357 steroid binding site; other site 861208008358 Fic family protein [Function unknown]; Region: COG3177 861208008359 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 861208008360 Fic/DOC family; Region: Fic; cl00960 861208008361 Helix-turn-helix domains; Region: HTH; cl00088 861208008362 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 861208008363 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 861208008364 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 861208008365 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 861208008366 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 861208008367 active site 861208008368 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208008369 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208008370 DNA-binding site [nucleotide binding]; DNA binding site 861208008371 FCD domain; Region: FCD; cl11656 861208008372 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 861208008373 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 861208008374 putative active site [active] 861208008375 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 861208008376 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 861208008377 DNA binding site [nucleotide binding] 861208008378 dimer interface [polypeptide binding]; other site 861208008379 active site 861208008380 Int/Topo IB signature motif; other site 861208008381 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 861208008382 HTH DNA binding domain; Region: HTH_13; pfam11972 861208008383 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 861208008384 TIR domain; Region: TIR_2; cl15770 861208008385 TIR domain; Region: TIR_2; cl15770 861208008386 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 861208008387 5' RNA guide strand anchoring site; other site 861208008388 active site 861208008389 RloB-like protein; Region: RloB; pfam13707 861208008390 RecF/RecN/SMC N terminal domain; Region: SMC_N; pfam02463 861208008391 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008392 AAA domain; Region: AAA_21; pfam13304 861208008393 G1 box; other site 861208008394 GTP/Mg2+ binding site [chemical binding]; other site 861208008395 G2 box; other site 861208008396 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 861208008397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008398 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 861208008399 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 861208008400 putative substrate translocation pore; other site 861208008401 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 861208008402 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 861208008403 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 861208008404 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 861208008405 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008406 Helix-turn-helix domains; Region: HTH; cl00088 861208008407 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208008408 putative effector binding pocket; other site 861208008409 dimerization interface [polypeptide binding]; other site 861208008410 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008411 Helix-turn-helix domains; Region: HTH; cl00088 861208008412 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 861208008413 putative effector binding pocket; other site 861208008414 putative dimerization interface [polypeptide binding]; other site 861208008415 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 861208008416 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208008417 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208008418 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208008419 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208008420 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208008421 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208008422 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 861208008423 cyclase homology domain; Region: CHD; cd07302 861208008424 nucleotidyl binding site; other site 861208008425 metal binding site [ion binding]; metal-binding site 861208008426 dimer interface [polypeptide binding]; other site 861208008427 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 861208008428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008429 NAD(P) binding site [chemical binding]; other site 861208008430 active site 861208008431 Flavin Reductases; Region: FlaRed; cl00801 861208008432 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 861208008433 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 861208008434 short chain dehydrogenase; Provisional; Region: PRK06180 861208008435 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 861208008436 NADP binding site [chemical binding]; other site 861208008437 active site 861208008438 steroid binding site; other site 861208008439 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 861208008440 classical (c) SDRs; Region: SDR_c; cd05233 861208008441 NAD(P) binding site [chemical binding]; other site 861208008442 active site 861208008443 DoxX; Region: DoxX; cl00976 861208008444 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208008445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008446 NAD(P) binding site [chemical binding]; other site 861208008447 active site 861208008448 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 861208008449 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208008450 classical (c) SDRs; Region: SDR_c; cd05233 861208008451 NAD(P) binding site [chemical binding]; other site 861208008452 active site 861208008453 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 861208008454 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 861208008455 TPP-binding site [chemical binding]; other site 861208008456 dimer interface [polypeptide binding]; other site 861208008457 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 861208008458 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 861208008459 PYR/PP interface [polypeptide binding]; other site 861208008460 dimer interface [polypeptide binding]; other site 861208008461 TPP binding site [chemical binding]; other site 861208008462 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 861208008463 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 861208008464 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 861208008465 inhibitor-cofactor binding pocket; inhibition site 861208008466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208008467 catalytic residue [active] 861208008468 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 861208008469 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 861208008470 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 861208008471 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 861208008472 dimer interface [polypeptide binding]; other site 861208008473 conserved gate region; other site 861208008474 putative PBP binding loops; other site 861208008475 ABC-ATPase subunit interface; other site 861208008476 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 861208008477 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 861208008478 dimer interface [polypeptide binding]; other site 861208008479 conserved gate region; other site 861208008480 putative PBP binding loops; other site 861208008481 ABC-ATPase subunit interface; other site 861208008482 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208008483 classical (c) SDRs; Region: SDR_c; cd05233 861208008484 NAD(P) binding site [chemical binding]; other site 861208008485 active site 861208008486 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208008487 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208008488 DNA-binding site [nucleotide binding]; DNA binding site 861208008489 FCD domain; Region: FCD; cl11656 861208008490 aminotransferase; Provisional; Region: PRK06105 861208008491 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 861208008492 inhibitor-cofactor binding pocket; inhibition site 861208008493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208008494 catalytic residue [active] 861208008495 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 861208008496 Amidase; Region: Amidase; cl11426 861208008497 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208008498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008499 Walker A/P-loop; other site 861208008500 ATP binding site [chemical binding]; other site 861208008501 Q-loop/lid; other site 861208008502 ABC transporter signature motif; other site 861208008503 Walker B; other site 861208008504 D-loop; other site 861208008505 H-loop/switch region; other site 861208008506 TOBE domain; Region: TOBE_2; cl01440 861208008507 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208008508 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 861208008509 tetramerization interface [polypeptide binding]; other site 861208008510 NAD(P) binding site [chemical binding]; other site 861208008511 catalytic residues [active] 861208008512 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 861208008513 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 861208008514 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 861208008515 short chain dehydrogenase; Provisional; Region: PRK06180 861208008516 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 861208008517 NADP binding site [chemical binding]; other site 861208008518 active site 861208008519 steroid binding site; other site 861208008520 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 861208008521 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208008522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008523 Helix-turn-helix domains; Region: HTH; cl00088 861208008524 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 861208008525 putative effector binding pocket; other site 861208008526 putative dimerization interface [polypeptide binding]; other site 861208008527 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208008528 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 861208008529 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 861208008530 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208008531 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208008532 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 861208008533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008534 Pirin-related protein [General function prediction only]; Region: COG1741 861208008535 Cupin domain; Region: Cupin_2; cl09118 861208008536 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 861208008537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008538 Helix-turn-helix domains; Region: HTH; cl00088 861208008539 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 861208008540 dimerization interface [polypeptide binding]; other site 861208008541 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 861208008542 DDE domain; Region: DDE_Tnp_IS240; pfam13610 861208008543 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 861208008544 hypothetical protein; Provisional; Region: PRK07482 861208008545 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208008546 Helix-turn-helix domains; Region: HTH; cl00088 861208008547 AsnC family; Region: AsnC_trans_reg; pfam01037 861208008548 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 861208008549 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208008550 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208008551 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 861208008552 dimer interface [polypeptide binding]; other site 861208008553 conserved gate region; other site 861208008554 putative PBP binding loops; other site 861208008555 ABC-ATPase subunit interface; other site 861208008556 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 861208008557 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 861208008558 dimer interface [polypeptide binding]; other site 861208008559 conserved gate region; other site 861208008560 putative PBP binding loops; other site 861208008561 ABC-ATPase subunit interface; other site 861208008562 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208008563 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 861208008564 Walker A/P-loop; other site 861208008565 ATP binding site [chemical binding]; other site 861208008566 Q-loop/lid; other site 861208008567 ABC transporter signature motif; other site 861208008568 Walker B; other site 861208008569 D-loop; other site 861208008570 H-loop/switch region; other site 861208008571 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208008572 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 861208008573 Walker A/P-loop; other site 861208008574 ATP binding site [chemical binding]; other site 861208008575 Q-loop/lid; other site 861208008576 ABC transporter signature motif; other site 861208008577 Walker B; other site 861208008578 D-loop; other site 861208008579 H-loop/switch region; other site 861208008580 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208008581 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208008582 Creatinine amidohydrolase; Region: Creatininase; cl00618 861208008583 hypothetical protein; Validated; Region: PRK06201 861208008584 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 861208008585 N-formylglutamate amidohydrolase; Region: FGase; cl01522 861208008586 Predicted peptidase [General function prediction only]; Region: COG4099 861208008587 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 861208008588 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 861208008589 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208008590 DNA-binding site [nucleotide binding]; DNA binding site 861208008591 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208008592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208008593 DNA-binding site [nucleotide binding]; DNA binding site 861208008594 FCD domain; Region: FCD; cl11656 861208008595 hypothetical protein; Provisional; Region: PRK06834 861208008596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008597 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 861208008598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008599 Helix-turn-helix domains; Region: HTH; cl00088 861208008600 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 861208008601 dimerization interface [polypeptide binding]; other site 861208008602 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 861208008603 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 861208008604 NAD(P) binding site [chemical binding]; other site 861208008605 Helix-turn-helix domains; Region: HTH; cl00088 861208008606 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208008607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008608 NAD(P) binding site [chemical binding]; other site 861208008609 active site 861208008610 Helix-turn-helix domains; Region: HTH; cl00088 861208008611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008612 Helix-turn-helix domains; Region: HTH; cl00088 861208008613 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 861208008614 dimerization interface [polypeptide binding]; other site 861208008615 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 861208008616 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 861208008617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008618 NAD(P) binding site [chemical binding]; other site 861208008619 active site 861208008620 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 861208008621 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 861208008622 active site 861208008623 catalytic tetrad [active] 861208008624 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 861208008625 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 861208008626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008627 Helix-turn-helix domains; Region: HTH; cl00088 861208008628 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 861208008629 dimerization interface [polypeptide binding]; other site 861208008630 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 861208008631 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 861208008632 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208008633 Cupin domain; Region: Cupin_2; cl09118 861208008634 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 861208008635 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208008636 oxidoreductase; Provisional; Region: PRK06196 861208008637 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 861208008638 putative NAD(P) binding site [chemical binding]; other site 861208008639 active site 861208008640 Predicted transcriptional regulator [Transcription]; Region: COG1959 861208008641 Helix-turn-helix domains; Region: HTH; cl00088 861208008642 Helix-turn-helix domains; Region: HTH; cl00088 861208008643 Mechanosensitive ion channel; Region: MS_channel; pfam00924 861208008644 Cupin domain; Region: Cupin_2; cl09118 861208008645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008646 NADH(P)-binding; Region: NAD_binding_10; pfam13460 861208008647 NAD(P) binding site [chemical binding]; other site 861208008648 active site 861208008649 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208008650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008651 Helix-turn-helix domains; Region: HTH; cl00088 861208008652 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208008653 putative effector binding pocket; other site 861208008654 dimerization interface [polypeptide binding]; other site 861208008655 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 861208008656 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 861208008657 active site 861208008658 phosphorylation site [posttranslational modification] 861208008659 intermolecular recognition site; other site 861208008660 dimerization interface [polypeptide binding]; other site 861208008661 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 861208008662 DNA binding residues [nucleotide binding] 861208008663 dimerization interface [polypeptide binding]; other site 861208008664 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 861208008665 PAS domain; Region: PAS_9; pfam13426 861208008666 putative active site [active] 861208008667 heme pocket [chemical binding]; other site 861208008668 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 861208008669 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 861208008670 putative active site [active] 861208008671 heme pocket [chemical binding]; other site 861208008672 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 861208008673 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 861208008674 putative active site [active] 861208008675 heme pocket [chemical binding]; other site 861208008676 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 861208008677 dimer interface [polypeptide binding]; other site 861208008678 phosphorylation site [posttranslational modification] 861208008679 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 861208008680 ATP binding site [chemical binding]; other site 861208008681 Mg2+ binding site [ion binding]; other site 861208008682 G-X-G motif; other site 861208008683 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208008684 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 861208008685 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208008686 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 861208008687 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 861208008688 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 861208008689 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208008690 Coenzyme A binding pocket [chemical binding]; other site 861208008691 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 861208008692 catalytic residue [active] 861208008693 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208008694 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 861208008695 RNA polymerase sigma factor; Provisional; Region: PRK12512 861208008696 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208008697 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208008698 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 861208008699 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 861208008700 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 861208008701 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 861208008702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008703 NAD(P) binding site [chemical binding]; other site 861208008704 active site 861208008705 Helix-turn-helix domains; Region: HTH; cl00088 861208008706 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208008707 Helix-turn-helix domains; Region: HTH; cl00088 861208008708 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 861208008709 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 861208008710 putative substrate translocation pore; other site 861208008711 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 861208008712 classical (c) SDRs; Region: SDR_c; cd05233 861208008713 NAD(P) binding site [chemical binding]; other site 861208008714 active site 861208008715 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 861208008716 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 861208008717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208008718 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208008719 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208008720 short chain dehydrogenase; Provisional; Region: PRK06180 861208008721 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 861208008722 NADP binding site [chemical binding]; other site 861208008723 active site 861208008724 steroid binding site; other site 861208008725 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208008726 Helix-turn-helix domains; Region: HTH; cl00088 861208008727 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 861208008728 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 861208008729 Moco binding site; other site 861208008730 metal coordination site [ion binding]; other site 861208008731 Chorismate mutase type II; Region: CM_2; cl00693 861208008732 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008733 Helix-turn-helix domains; Region: HTH; cl00088 861208008734 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 861208008735 dimerization interface [polypeptide binding]; other site 861208008736 short chain dehydrogenase; Provisional; Region: PRK06180 861208008737 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 861208008738 NADP binding site [chemical binding]; other site 861208008739 active site 861208008740 steroid binding site; other site 861208008741 Epoxide hydrolase N terminus; Region: EHN; pfam06441 861208008742 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208008743 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208008744 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 861208008745 active site 861208008746 metal binding site [ion binding]; metal-binding site 861208008747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 861208008748 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208008749 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208008750 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 861208008751 homotrimer interaction site [polypeptide binding]; other site 861208008752 putative active site [active] 861208008753 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 861208008754 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 861208008755 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 861208008756 active site 861208008757 catalytic tetrad [active] 861208008758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008759 NmrA-like family; Region: NmrA; pfam05368 861208008760 NAD(P) binding site [chemical binding]; other site 861208008761 active site 861208008762 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208008763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208008764 Helix-turn-helix domains; Region: HTH; cl00088 861208008765 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208008766 putative effector binding pocket; other site 861208008767 dimerization interface [polypeptide binding]; other site 861208008768 Fic family protein [Function unknown]; Region: COG3177 861208008769 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 861208008770 Fic/DOC family; Region: Fic; cl00960 861208008771 Helix-turn-helix domains; Region: HTH; cl00088 861208008772 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 861208008773 putative hydrophobic ligand binding site [chemical binding]; other site 861208008774 NmrA-like family; Region: NmrA; pfam05368 861208008775 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 861208008776 NADP binding site [chemical binding]; other site 861208008777 active site 861208008778 regulatory binding site [polypeptide binding]; other site 861208008779 LysR family transcriptional regulator; Provisional; Region: PRK14997 861208008780 Helix-turn-helix domains; Region: HTH; cl00088 861208008781 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208008782 putative effector binding pocket; other site 861208008783 dimerization interface [polypeptide binding]; other site 861208008784 Cupin domain; Region: Cupin_2; cl09118 861208008785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208008786 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208008787 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208008788 short chain dehydrogenase; Provisional; Region: PRK06482 861208008789 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 861208008790 NADP binding site [chemical binding]; other site 861208008791 active site 861208008792 steroid binding site; other site 861208008793 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 861208008794 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 861208008795 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 861208008796 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 861208008797 short chain dehydrogenase; Provisional; Region: PRK06701 861208008798 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 861208008799 NAD binding site [chemical binding]; other site 861208008800 metal binding site [ion binding]; metal-binding site 861208008801 active site 861208008802 Low affinity iron permease; Region: Iron_permease; cl12096 861208008803 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 861208008804 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 861208008805 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 861208008806 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 861208008807 NAD binding site [chemical binding]; other site 861208008808 catalytic Zn binding site [ion binding]; other site 861208008809 structural Zn binding site [ion binding]; other site 861208008810 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 861208008811 classical (c) SDRs; Region: SDR_c; cd05233 861208008812 NAD(P) binding site [chemical binding]; other site 861208008813 active site 861208008814 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 861208008815 putative active site [active] 861208008816 heme pocket [chemical binding]; other site 861208008817 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 861208008818 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 861208008819 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 861208008820 MgtC family; Region: MgtC; pfam02308 861208008821 Protein of unknown function (DUF983); Region: DUF983; cl02211 861208008822 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 861208008823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008824 hydroperoxidase II; Provisional; Region: katE; PRK11249 861208008825 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 861208008826 tetramer interface [polypeptide binding]; other site 861208008827 heme binding pocket [chemical binding]; other site 861208008828 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 861208008829 domain interactions; other site 861208008830 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 861208008831 metal binding site [ion binding]; metal-binding site 861208008832 dimerization interface [polypeptide binding]; other site 861208008833 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 861208008834 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208008835 classical (c) SDRs; Region: SDR_c; cd05233 861208008836 NAD(P) binding site [chemical binding]; other site 861208008837 active site 861208008838 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 861208008839 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 861208008840 catalytic site [active] 861208008841 active site 861208008842 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 861208008843 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 861208008844 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 861208008845 putative DNA binding site [nucleotide binding]; other site 861208008846 putative Zn2+ binding site [ion binding]; other site 861208008847 Poxvirus J1 protein; Region: Pox_J1; pfam03338 861208008848 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 861208008849 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 861208008850 CGNR zinc finger; Region: zf-CGNR; pfam11706 861208008851 EamA-like transporter family; Region: EamA; cl01037 861208008852 EamA-like transporter family; Region: EamA; cl01037 861208008853 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 861208008854 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 861208008855 short chain dehydrogenase; Provisional; Region: PRK06139 861208008856 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 861208008857 putative NAD(P) binding site [chemical binding]; other site 861208008858 active site 861208008859 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 861208008860 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 861208008861 NAD binding site [chemical binding]; other site 861208008862 catalytic Zn binding site [ion binding]; other site 861208008863 structural Zn binding site [ion binding]; other site 861208008864 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 861208008865 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 861208008866 putative DNA binding site [nucleotide binding]; other site 861208008867 putative homodimer interface [polypeptide binding]; other site 861208008868 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 861208008869 heterodimer interface [polypeptide binding]; other site 861208008870 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 861208008871 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 861208008872 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 861208008873 active site 861208008874 DNA binding site [nucleotide binding] 861208008875 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 861208008876 DNA binding site [nucleotide binding] 861208008877 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 861208008878 nucleotide binding site [chemical binding]; other site 861208008879 GXWXG protein; Region: GXWXG; pfam14231 861208008880 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 861208008881 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 861208008882 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 861208008883 ring oligomerisation interface [polypeptide binding]; other site 861208008884 ATP/Mg binding site [chemical binding]; other site 861208008885 stacking interactions; other site 861208008886 hinge regions; other site 861208008887 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 861208008888 oligomerisation interface [polypeptide binding]; other site 861208008889 mobile loop; other site 861208008890 roof hairpin; other site 861208008891 Usg-like family; Region: Usg; cl11567 861208008892 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 861208008893 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 861208008894 putative dimer interface [polypeptide binding]; other site 861208008895 Protein of unknown function (DUF982); Region: DUF982; pfam06169 861208008896 Response regulator receiver domain; Region: Response_reg; pfam00072 861208008897 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 861208008898 active site 861208008899 phosphorylation site [posttranslational modification] 861208008900 intermolecular recognition site; other site 861208008901 dimerization interface [polypeptide binding]; other site 861208008902 Response regulator receiver domain; Region: Response_reg; pfam00072 861208008903 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 861208008904 active site 861208008905 phosphorylation site [posttranslational modification] 861208008906 intermolecular recognition site; other site 861208008907 dimerization interface [polypeptide binding]; other site 861208008908 PAS fold; Region: PAS_4; pfam08448 861208008909 PAS domain S-box; Region: sensory_box; TIGR00229 861208008910 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 861208008911 putative active site [active] 861208008912 heme pocket [chemical binding]; other site 861208008913 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 861208008914 Histidine kinase; Region: HisKA_2; cl06527 861208008915 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 861208008916 Response regulator receiver domain; Region: Response_reg; pfam00072 861208008917 active site 861208008918 phosphorylation site [posttranslational modification] 861208008919 intermolecular recognition site; other site 861208008920 dimerization interface [polypeptide binding]; other site 861208008921 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208008922 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 861208008923 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 861208008924 putative dimer interface [polypeptide binding]; other site 861208008925 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 861208008926 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 861208008927 metal binding site [ion binding]; metal-binding site 861208008928 putative dimer interface [polypeptide binding]; other site 861208008929 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 861208008930 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 861208008931 Found in ATP-dependent protease La (LON); Region: LON; smart00464 861208008932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208008933 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208008934 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208008935 DNA binding site [nucleotide binding] 861208008936 domain linker motif; other site 861208008937 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_7; cd06285 861208008938 putative dimerization interface [polypeptide binding]; other site 861208008939 putative ligand binding site [chemical binding]; other site 861208008940 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 861208008941 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 861208008942 inhibitor site; inhibition site 861208008943 active site 861208008944 dimer interface [polypeptide binding]; other site 861208008945 catalytic residue [active] 861208008946 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 861208008947 benzoate transport; Region: 2A0115; TIGR00895 861208008948 putative substrate translocation pore; other site 861208008949 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 861208008950 Fic/DOC family; Region: Fic; cl00960 861208008951 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 861208008952 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 861208008953 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 861208008954 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208008955 Helix-turn-helix domains; Region: HTH; cl00088 861208008956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208008957 Helix-turn-helix domains; Region: HTH; cl00088 861208008958 prephenate dehydrogenase; Provisional; Region: PRK08655 861208008959 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208008960 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 861208008961 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 861208008962 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 861208008963 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 861208008964 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 861208008965 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 861208008966 NmrA (a transcriptional regulator) and triphenylmethane reductase (TMR) like proteins, subgroup 1, atypical (a) SDRs; Region: NmrA_TMR_like_1_SDR_a; cd05231 861208008967 NmrA-like family; Region: NmrA; pfam05368 861208008968 putative NADP binding site [chemical binding]; other site 861208008969 Cupin domain; Region: Cupin_2; cl09118 861208008970 Helix-turn-helix domain; Region: HTH_18; pfam12833 861208008971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208008972 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 861208008973 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 861208008974 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 861208008975 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208008976 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 861208008977 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208008978 Integrase core domain; Region: rve; cl01316 861208008979 Integrase core domain; Region: rve; cl01316 861208008980 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 861208008981 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 861208008982 DDE domain; Region: DDE_Tnp_IS240; pfam13610 861208008983 Integrase core domain; Region: rve; cl01316 861208008984 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 861208008985 chaperone protein HchA; Provisional; Region: PRK04155 861208008986 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 861208008987 conserved cys residue [active] 861208008988 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 861208008989 Autoinducer binding domain; Region: Autoind_bind; pfam03472 861208008990 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 861208008991 DNA binding residues [nucleotide binding] 861208008992 dimerization interface [polypeptide binding]; other site 861208008993 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208008994 metal binding site [ion binding]; metal-binding site 861208008995 active site 861208008996 I-site; other site 861208008997 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 861208008998 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 861208008999 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208009000 DNA-binding site [nucleotide binding]; DNA binding site 861208009001 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 861208009002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208009003 homodimer interface [polypeptide binding]; other site 861208009004 catalytic residue [active] 861208009005 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 861208009006 Predicted amidohydrolase [General function prediction only]; Region: COG0388 861208009007 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 861208009008 putative active site [active] 861208009009 catalytic triad [active] 861208009010 putative dimer interface [polypeptide binding]; other site 861208009011 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 861208009012 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208009013 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 861208009014 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 861208009015 dimerization interface [polypeptide binding]; other site 861208009016 putative ATP binding site [chemical binding]; other site 861208009017 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 861208009018 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 861208009019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009020 biosynthesis cluster domain; Region: biosyn_clust_1; cl14822 861208009021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208009022 dimer interface [polypeptide binding]; other site 861208009023 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 861208009024 putative CheW interface [polypeptide binding]; other site 861208009025 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 861208009026 short chain dehydrogenase; Provisional; Region: PRK06123 861208009027 classical (c) SDRs; Region: SDR_c; cd05233 861208009028 NAD(P) binding site [chemical binding]; other site 861208009029 active site 861208009030 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 861208009031 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 861208009032 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 861208009033 active site 861208009034 DNA binding site [nucleotide binding] 861208009035 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 861208009036 DNA binding site [nucleotide binding] 861208009037 Cell division inhibitor SulA; Region: SulA; cl01880 861208009038 DNA Polymerase Y-family; Region: PolY_like; cd03468 861208009039 active site 861208009040 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 861208009041 DNA binding site [nucleotide binding] 861208009042 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 861208009043 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 861208009044 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 861208009045 generic binding surface I; other site 861208009046 generic binding surface II; other site 861208009047 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 861208009048 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 861208009049 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 861208009050 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 861208009051 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 861208009052 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 861208009053 Protein of unknown function (DUF736); Region: DUF736; cl02303 861208009054 envelope glycoprotein C; Provisional; Region: PHA03269 861208009055 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 861208009056 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 861208009057 DNA binding site [nucleotide binding] 861208009058 active site 861208009059 Int/Topo IB signature motif; other site 861208009060 Helix-turn-helix domains; Region: HTH; cl00088 861208009061 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 861208009062 NmrA-like family; Region: NmrA; pfam05368 861208009063 NAD(P) binding site [chemical binding]; other site 861208009064 active site lysine 861208009065 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 861208009066 IHF - DNA interface [nucleotide binding]; other site 861208009067 IHF dimer interface [polypeptide binding]; other site 861208009068 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 861208009069 Ti-type conjugative transfer system protein TraG; Region: TraG-Ti; TIGR02767 861208009070 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208009071 Walker A motif; other site 861208009072 ATP binding site [chemical binding]; other site 861208009073 Walker B motif; other site 861208009074 Conjugal transfer protein TraD; Region: TraD; cl05753 861208009075 TraC-like protein; Region: TraC; cl06725 861208009076 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 861208009077 MobA/MobL family; Region: MobA_MobL; pfam03389 861208009078 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208009079 Family description; Region: UvrD_C_2; cl15862 861208009080 Dtr system oriT relaxase; Provisional; Region: PRK13826 861208009081 Dtr system oriT relaxase; Provisional; Region: PRK13826 861208009082 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 861208009083 HipA N-terminal domain; Region: Couple_hipA; cl11853 861208009084 HipA-like N-terminal domain; Region: HipA_N; pfam07805 861208009085 HipA-like C-terminal domain; Region: HipA_C; pfam07804 861208009086 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 861208009087 non-specific DNA binding site [nucleotide binding]; other site 861208009088 salt bridge; other site 861208009089 sequence-specific DNA binding site [nucleotide binding]; other site 861208009090 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 861208009091 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208009092 Coenzyme A binding pocket [chemical binding]; other site 861208009093 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 861208009094 DNA binding site [nucleotide binding] 861208009095 active site 861208009096 Int/Topo IB signature motif; other site 861208009097 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 861208009098 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 861208009099 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208009100 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 861208009101 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208009102 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 861208009103 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208009104 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 861208009105 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 861208009106 Active site serine [active] 861208009107 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 861208009108 DNA binding site [nucleotide binding] 861208009109 Int/Topo IB signature motif; other site 861208009110 active site 861208009111 Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protei; Region: 3a01203; TIGR00954 861208009112 AAA domain; Region: AAA_21; pfam13304 861208009113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208009114 ABC transporter signature motif; other site 861208009115 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 861208009116 Walker B; other site 861208009117 H-loop/switch region; other site 861208009118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208009119 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208009120 Coenzyme A binding pocket [chemical binding]; other site 861208009121 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 861208009122 active site 861208009123 DNA binding site [nucleotide binding] 861208009124 Int/Topo IB signature motif; other site 861208009125 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 861208009126 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 861208009127 active site 861208009128 NTP binding site [chemical binding]; other site 861208009129 metal binding triad [ion binding]; metal-binding site 861208009130 antibiotic binding site [chemical binding]; other site 861208009131 HEPN domain; Region: HEPN; cl00824 861208009132 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 861208009133 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 861208009134 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208009135 catalytic residue [active] 861208009136 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208009137 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 861208009138 active site 861208009139 phosphorylation site [posttranslational modification] 861208009140 intermolecular recognition site; other site 861208009141 dimerization interface [polypeptide binding]; other site 861208009142 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 861208009143 DNA binding site [nucleotide binding] 861208009144 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208009145 Helix-turn-helix domains; Region: HTH; cl00088 861208009146 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 861208009147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009148 NAD(P) binding site [chemical binding]; other site 861208009149 active site 861208009150 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 861208009151 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 861208009152 PYR/PP interface [polypeptide binding]; other site 861208009153 dimer interface [polypeptide binding]; other site 861208009154 TPP binding site [chemical binding]; other site 861208009155 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 861208009156 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; cd00568 861208009157 TPP-binding site [chemical binding]; other site 861208009158 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 861208009159 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 861208009160 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208009161 catalytic residue [active] 861208009162 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208009163 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208009164 DNA-binding site [nucleotide binding]; DNA binding site 861208009165 FCD domain; Region: FCD; cl11656 861208009166 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208009167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208009168 Walker A/P-loop; other site 861208009169 ATP binding site [chemical binding]; other site 861208009170 Q-loop/lid; other site 861208009171 ABC transporter signature motif; other site 861208009172 Walker B; other site 861208009173 D-loop; other site 861208009174 H-loop/switch region; other site 861208009175 TOBE domain; Region: TOBE_2; cl01440 861208009176 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 861208009177 dimer interface [polypeptide binding]; other site 861208009178 conserved gate region; other site 861208009179 putative PBP binding loops; other site 861208009180 ABC-ATPase subunit interface; other site 861208009181 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 861208009182 dimer interface [polypeptide binding]; other site 861208009183 conserved gate region; other site 861208009184 putative PBP binding loops; other site 861208009185 ABC-ATPase subunit interface; other site 861208009186 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 861208009187 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 861208009188 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 861208009189 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 861208009190 Walker A/P-loop; other site 861208009191 ATP binding site [chemical binding]; other site 861208009192 Q-loop/lid; other site 861208009193 ABC transporter signature motif; other site 861208009194 Walker B; other site 861208009195 D-loop; other site 861208009196 H-loop/switch region; other site 861208009197 FtsX-like permease family; Region: FtsX; cl15850 861208009198 FtsX-like permease family; Region: FtsX; cl15850 861208009199 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 861208009200 Transcriptional regulator [Transcription]; Region: IclR; COG1414 861208009201 Helix-turn-helix domains; Region: HTH; cl00088 861208009202 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208009203 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208009204 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 861208009205 tetramerization interface [polypeptide binding]; other site 861208009206 NAD(P) binding site [chemical binding]; other site 861208009207 catalytic residues [active] 861208009208 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 861208009209 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 861208009210 putative active site [active] 861208009211 metal binding site [ion binding]; metal-binding site 861208009212 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208009213 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 861208009214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009215 NAD(P) binding site [chemical binding]; other site 861208009216 active site 861208009217 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208009218 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208009219 DNA-binding site [nucleotide binding]; DNA binding site 861208009220 FCD domain; Region: FCD; cl11656 861208009221 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 861208009222 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208009223 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 861208009224 dimer interface [polypeptide binding]; other site 861208009225 conserved gate region; other site 861208009226 putative PBP binding loops; other site 861208009227 ABC-ATPase subunit interface; other site 861208009228 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 861208009229 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208009230 substrate binding pocket [chemical binding]; other site 861208009231 membrane-bound complex binding site; other site 861208009232 hinge residues; other site 861208009233 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208009234 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208009235 Walker A/P-loop; other site 861208009236 ATP binding site [chemical binding]; other site 861208009237 Q-loop/lid; other site 861208009238 ABC transporter signature motif; other site 861208009239 Walker B; other site 861208009240 D-loop; other site 861208009241 H-loop/switch region; other site 861208009242 TOBE domain; Region: TOBE_2; cl01440 861208009243 TOBE domain; Region: TOBE_2; cl01440 861208009244 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208009245 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 861208009246 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208009247 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 861208009248 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 861208009249 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 861208009250 dimer interface [polypeptide binding]; other site 861208009251 conserved gate region; other site 861208009252 putative PBP binding loops; other site 861208009253 ABC-ATPase subunit interface; other site 861208009254 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 861208009255 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 861208009256 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 861208009257 active site 861208009258 Flavin Reductases; Region: FlaRed; cl00801 861208009259 OsmC-like protein; Region: OsmC; cl00767 861208009260 Transcriptional regulators [Transcription]; Region: MarR; COG1846 861208009261 Helix-turn-helix domains; Region: HTH; cl00088 861208009262 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 861208009263 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 861208009264 NADP binding site [chemical binding]; other site 861208009265 substrate binding site [chemical binding]; other site 861208009266 active site 861208009267 Protein required for attachment to host cells; Region: Host_attach; cl02398 861208009268 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 861208009269 TrbC/VIRB2 family; Region: TrbC; cl01583 861208009270 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 861208009271 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 861208009272 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 861208009273 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 861208009274 Type IV secretion system proteins; Region: T4SS; pfam07996 861208009275 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 861208009276 VirB8 protein; Region: VirB8; cl01500 861208009277 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 861208009278 VirB7 interaction site; other site 861208009279 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 861208009280 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 861208009281 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 861208009282 Walker A motif; other site 861208009283 hexamer interface [polypeptide binding]; other site 861208009284 ATP binding site [chemical binding]; other site 861208009285 Walker B motif; other site 861208009286 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 861208009287 dimerization interface [polypeptide binding]; other site 861208009288 putative DNA binding site [nucleotide binding]; other site 861208009289 putative Zn2+ binding site [ion binding]; other site 861208009290 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 861208009291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009292 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 861208009293 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 861208009294 EamA-like transporter family; Region: EamA; cl01037 861208009295 glutamate dehydrogenase; Provisional; Region: PRK09414 861208009296 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 861208009297 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 861208009298 NAD(P) binding site [chemical binding]; other site 861208009299 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 861208009300 nudix motif; other site 861208009301 GAF domain; Region: GAF; cl15785 861208009302 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 861208009303 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 861208009304 dimer interface [polypeptide binding]; other site 861208009305 phosphorylation site [posttranslational modification] 861208009306 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 861208009307 ATP binding site [chemical binding]; other site 861208009308 Mg2+ binding site [ion binding]; other site 861208009309 G-X-G motif; other site 861208009310 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 861208009311 Response regulator receiver domain; Region: Response_reg; pfam00072 861208009312 active site 861208009313 phosphorylation site [posttranslational modification] 861208009314 intermolecular recognition site; other site 861208009315 dimerization interface [polypeptide binding]; other site 861208009316 Response regulator receiver domain; Region: Response_reg; pfam00072 861208009317 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 861208009318 active site 861208009319 phosphorylation site [posttranslational modification] 861208009320 intermolecular recognition site; other site 861208009321 dimerization interface [polypeptide binding]; other site 861208009322 putative diguanylate cyclase; Provisional; Region: PRK09776 861208009323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 861208009324 Histidine kinase; Region: HisKA_2; cl06527 861208009325 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 861208009326 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 861208009327 HSP70 interaction site [polypeptide binding]; other site 861208009328 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 861208009329 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 861208009330 oligomeric interface; other site 861208009331 putative active site [active] 861208009332 homodimer interface [polypeptide binding]; other site 861208009333 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 861208009334 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 861208009335 inhibitor site; inhibition site 861208009336 active site 861208009337 dimer interface [polypeptide binding]; other site 861208009338 catalytic residue [active] 861208009339 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 861208009340 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208009341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208009342 DNA-binding site [nucleotide binding]; DNA binding site 861208009343 FCD domain; Region: FCD; cl11656 861208009344 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 861208009345 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208009346 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208009347 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 861208009348 dimer interface [polypeptide binding]; other site 861208009349 conserved gate region; other site 861208009350 putative PBP binding loops; other site 861208009351 ABC-ATPase subunit interface; other site 861208009352 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 861208009353 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 861208009354 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 861208009355 dimer interface [polypeptide binding]; other site 861208009356 conserved gate region; other site 861208009357 putative PBP binding loops; other site 861208009358 ABC-ATPase subunit interface; other site 861208009359 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208009360 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 861208009361 Walker A/P-loop; other site 861208009362 ATP binding site [chemical binding]; other site 861208009363 Q-loop/lid; other site 861208009364 ABC transporter signature motif; other site 861208009365 Walker B; other site 861208009366 D-loop; other site 861208009367 H-loop/switch region; other site 861208009368 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208009369 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 861208009370 Walker A/P-loop; other site 861208009371 ATP binding site [chemical binding]; other site 861208009372 Q-loop/lid; other site 861208009373 ABC transporter signature motif; other site 861208009374 Walker B; other site 861208009375 D-loop; other site 861208009376 H-loop/switch region; other site 861208009377 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208009378 galactonate dehydratase; Provisional; Region: PRK14017 861208009379 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 861208009380 active site pocket [active] 861208009381 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 861208009382 active site 861208009383 catalytic residues [active] 861208009384 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208009385 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208009386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009387 Helix-turn-helix domains; Region: HTH; cl00088 861208009388 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208009389 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 861208009390 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 861208009391 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 861208009392 dimer interface [polypeptide binding]; other site 861208009393 conserved gate region; other site 861208009394 putative PBP binding loops; other site 861208009395 ABC-ATPase subunit interface; other site 861208009396 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 861208009397 dimer interface [polypeptide binding]; other site 861208009398 conserved gate region; other site 861208009399 putative PBP binding loops; other site 861208009400 ABC-ATPase subunit interface; other site 861208009401 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208009402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208009403 Walker A/P-loop; other site 861208009404 ATP binding site [chemical binding]; other site 861208009405 Q-loop/lid; other site 861208009406 ABC transporter signature motif; other site 861208009407 Walker B; other site 861208009408 D-loop; other site 861208009409 H-loop/switch region; other site 861208009410 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 861208009411 active site 861208009412 dimerization interface [polypeptide binding]; other site 861208009413 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 861208009414 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 861208009415 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 861208009416 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 861208009417 Members of the SGNH-hydrolase superfamily, 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_like_7; cd04502 861208009418 active site 861208009419 catalytic triad [active] 861208009420 oxyanion hole [active] 861208009421 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 861208009422 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 861208009423 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 861208009424 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 861208009425 inhibitor site; inhibition site 861208009426 active site 861208009427 dimer interface [polypeptide binding]; other site 861208009428 catalytic residue [active] 861208009429 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 861208009430 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 861208009431 active site pocket [active] 861208009432 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208009433 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 861208009434 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208009435 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 861208009436 dimer interface [polypeptide binding]; other site 861208009437 conserved gate region; other site 861208009438 putative PBP binding loops; other site 861208009439 ABC-ATPase subunit interface; other site 861208009440 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208009441 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 861208009442 putative PBP binding loops; other site 861208009443 dimer interface [polypeptide binding]; other site 861208009444 ABC-ATPase subunit interface; other site 861208009445 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208009446 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 861208009447 Walker A/P-loop; other site 861208009448 ATP binding site [chemical binding]; other site 861208009449 Q-loop/lid; other site 861208009450 ABC transporter signature motif; other site 861208009451 Walker B; other site 861208009452 D-loop; other site 861208009453 H-loop/switch region; other site 861208009454 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 861208009455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009456 NAD(P) binding site [chemical binding]; other site 861208009457 active site 861208009458 Transcriptional regulator [Transcription]; Region: IclR; COG1414 861208009459 Helix-turn-helix domains; Region: HTH; cl00088 861208009460 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208009461 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 861208009462 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208009463 classical (c) SDRs; Region: SDR_c; cd05233 861208009464 NAD(P) binding site [chemical binding]; other site 861208009465 active site 861208009466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009467 glycerate dehydrogenase; Provisional; Region: PRK06932 861208009468 Helix-turn-helix domain; Region: HTH_18; pfam12833 861208009469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009470 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208009471 Helix-turn-helix domains; Region: HTH; cl00088 861208009472 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 861208009473 putative effector binding pocket; other site 861208009474 putative dimerization interface [polypeptide binding]; other site 861208009475 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 861208009476 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 861208009477 active site 861208009478 catalytic tetrad [active] 861208009479 potential frameshift: common BLAST hit: gi|50120417|ref|YP_049584.1| LysR family transcriptional regulator 861208009480 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 861208009481 Helix-turn-helix domains; Region: HTH; cl00088 861208009482 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 861208009483 dimerization interface [polypeptide binding]; other site 861208009484 Cupin domain; Region: Cupin_2; cl09118 861208009485 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 861208009486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009487 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 861208009488 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 861208009489 putative NAD(P) binding site [chemical binding]; other site 861208009490 Cupin domain; Region: Cupin_2; cl09118 861208009491 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 861208009492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009494 short chain dehydrogenase; Provisional; Region: PRK06180 861208009495 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 861208009496 NADP binding site [chemical binding]; other site 861208009497 active site 861208009498 steroid binding site; other site 861208009499 multidrug resistance protein MdtN; Provisional; Region: PRK10476 861208009500 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 861208009501 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 861208009502 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 861208009503 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 861208009504 Walker A/P-loop; other site 861208009505 ATP binding site [chemical binding]; other site 861208009506 Q-loop/lid; other site 861208009507 ABC transporter signature motif; other site 861208009508 Walker B; other site 861208009509 D-loop; other site 861208009510 H-loop/switch region; other site 861208009511 DevC protein; Region: devC; TIGR01185 861208009512 FtsX-like permease family; Region: FtsX; cl15850 861208009513 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 861208009514 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 861208009515 Protein of unknown function, DUF482; Region: DUF482; pfam04339 861208009516 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208009517 Esterase/lipase [General function prediction only]; Region: COG1647 861208009518 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 861208009519 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 861208009520 Arginase family; Region: Arginase; cl00306 861208009521 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 861208009522 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 861208009523 inhibitor-cofactor binding pocket; inhibition site 861208009524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208009525 catalytic residue [active] 861208009526 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208009527 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 861208009528 active site 861208009529 phosphorylation site [posttranslational modification] 861208009530 intermolecular recognition site; other site 861208009531 dimerization interface [polypeptide binding]; other site 861208009532 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 861208009533 DNA binding site [nucleotide binding] 861208009534 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 861208009535 dimerization interface [polypeptide binding]; other site 861208009536 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 861208009537 dimer interface [polypeptide binding]; other site 861208009538 phosphorylation site [posttranslational modification] 861208009539 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 861208009540 ATP binding site [chemical binding]; other site 861208009541 Mg2+ binding site [ion binding]; other site 861208009542 G-X-G motif; other site 861208009543 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 861208009544 Bacterial SH3 domain; Region: SH3_3; cl02551 861208009545 macrolide transporter subunit MacA; Provisional; Region: PRK11578 861208009546 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 861208009547 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 861208009548 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 861208009549 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 861208009550 Walker A/P-loop; other site 861208009551 ATP binding site [chemical binding]; other site 861208009552 Q-loop/lid; other site 861208009553 ABC transporter signature motif; other site 861208009554 Walker B; other site 861208009555 D-loop; other site 861208009556 H-loop/switch region; other site 861208009557 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 861208009558 FtsX-like permease family; Region: FtsX; cl15850 861208009559 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208009560 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 861208009561 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 861208009562 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 861208009563 putative substrate translocation pore; other site 861208009564 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 861208009565 intermolecular recognition site; other site 861208009566 active site 861208009567 DNA-binding response regulator CreB; Provisional; Region: PRK11083 861208009568 dimerization interface [polypeptide binding]; other site 861208009569 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 861208009570 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 861208009571 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 861208009572 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 861208009573 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 861208009574 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 861208009575 Walker A/P-loop; other site 861208009576 ATP binding site [chemical binding]; other site 861208009577 Q-loop/lid; other site 861208009578 ABC transporter signature motif; other site 861208009579 Walker B; other site 861208009580 D-loop; other site 861208009581 H-loop/switch region; other site 861208009582 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 861208009583 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 861208009584 ABC-ATPase subunit interface; other site 861208009585 dimer interface [polypeptide binding]; other site 861208009586 putative PBP binding regions; other site 861208009587 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 861208009588 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 861208009589 putative ligand binding residues [chemical binding]; other site 861208009590 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 861208009591 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208009592 DNA binding site [nucleotide binding] 861208009593 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 861208009594 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208009595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009596 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208009597 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208009598 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 861208009599 AP (apurinic/apyrimidinic) site pocket; other site 861208009600 DNA interaction; other site 861208009601 Metal-binding active site; metal-binding site 861208009602 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 861208009603 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 861208009604 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 861208009605 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 861208009606 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 861208009607 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 861208009608 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 861208009609 DXD motif; other site 861208009610 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 861208009611 methionine synthase; Provisional; Region: PRK01207 861208009612 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 861208009613 substrate binding site [chemical binding]; other site 861208009614 THF binding site; other site 861208009615 zinc-binding site [ion binding]; other site 861208009616 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 861208009617 catalytic triad [active] 861208009618 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208009619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009620 NAD(P) binding site [chemical binding]; other site 861208009621 active site 861208009622 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 861208009623 Helix-turn-helix domains; Region: HTH; cl00088 861208009624 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 861208009625 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 861208009626 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 861208009627 putative N- and C-terminal domain interface [polypeptide binding]; other site 861208009628 putative active site [active] 861208009629 putative MgATP binding site [chemical binding]; other site 861208009630 catalytic site [active] 861208009631 metal binding site [ion binding]; metal-binding site 861208009632 putative homotetramer interface [polypeptide binding]; other site 861208009633 putative homodimer interface [polypeptide binding]; other site 861208009634 putative glycerol binding site [chemical binding]; other site 861208009635 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 861208009636 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 861208009637 PYR/PP interface [polypeptide binding]; other site 861208009638 dimer interface [polypeptide binding]; other site 861208009639 TPP binding site [chemical binding]; other site 861208009640 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 861208009641 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 861208009642 TPP-binding site [chemical binding]; other site 861208009643 dimer interface [polypeptide binding]; other site 861208009644 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 861208009645 TM-ABC transporter signature motif; other site 861208009646 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 861208009647 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208009648 ligand binding site [chemical binding]; other site 861208009649 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208009650 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 861208009651 Walker A/P-loop; other site 861208009652 ATP binding site [chemical binding]; other site 861208009653 Q-loop/lid; other site 861208009654 ABC transporter signature motif; other site 861208009655 Walker B; other site 861208009656 D-loop; other site 861208009657 H-loop/switch region; other site 861208009658 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 861208009659 short chain dehydrogenase; Provisional; Region: PRK06114 861208009660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009661 NAD(P) binding site [chemical binding]; other site 861208009662 active site 861208009663 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 861208009664 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 861208009665 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 861208009666 putative active site [active] 861208009667 PAS fold; Region: PAS_3; pfam08447 861208009668 heme pocket [chemical binding]; other site 861208009669 adaptive-response sensory kinase; Validated; Region: PRK09303 861208009670 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 861208009671 dimer interface [polypeptide binding]; other site 861208009672 phosphorylation site [posttranslational modification] 861208009673 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 861208009674 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 861208009675 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 861208009676 active site 861208009677 phosphorylation site [posttranslational modification] 861208009678 intermolecular recognition site; other site 861208009679 dimerization interface [polypeptide binding]; other site 861208009680 circadian clock protein KaiC; Reviewed; Region: PRK09302 861208009681 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 861208009682 Walker A motif; other site 861208009683 ATP binding site [chemical binding]; other site 861208009684 Walker B motif; other site 861208009685 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208009686 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 861208009687 Walker A motif; other site 861208009688 ATP binding site [chemical binding]; other site 861208009689 Walker B motif; other site 861208009690 Pirin-related protein [General function prediction only]; Region: COG1741 861208009691 Cupin domain; Region: Cupin_2; cl09118 861208009692 Isochorismatase family; Region: Isochorismatase; pfam00857 861208009693 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 861208009694 catalytic triad [active] 861208009695 dimer interface [polypeptide binding]; other site 861208009696 conserved cis-peptide bond; other site 861208009697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208009698 Helix-turn-helix domains; Region: HTH; cl00088 861208009699 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208009700 putative effector binding pocket; other site 861208009701 dimerization interface [polypeptide binding]; other site 861208009702 Helix-turn-helix domains; Region: HTH; cl00088 861208009703 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 861208009704 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 861208009705 NAD(P) binding site [chemical binding]; other site 861208009706 transcriptional regulator; Provisional; Region: PRK10632 861208009707 Helix-turn-helix domains; Region: HTH; cl00088 861208009708 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 861208009709 putative effector binding pocket; other site 861208009710 putative dimerization interface [polypeptide binding]; other site 861208009711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 861208009712 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 861208009713 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 861208009714 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208009715 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 861208009716 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 861208009717 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 861208009718 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 861208009719 FAD binding pocket [chemical binding]; other site 861208009720 FAD binding motif [chemical binding]; other site 861208009721 phosphate binding motif [ion binding]; other site 861208009722 beta-alpha-beta structure motif; other site 861208009723 NAD binding pocket [chemical binding]; other site 861208009724 Heme binding pocket [chemical binding]; other site 861208009725 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 861208009726 catalytic loop [active] 861208009727 iron binding site [ion binding]; other site 861208009728 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 861208009729 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 861208009730 putative C-terminal domain interface [polypeptide binding]; other site 861208009731 putative GSH binding site (G-site) [chemical binding]; other site 861208009732 putative dimer interface [polypeptide binding]; other site 861208009733 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 861208009734 putative N-terminal domain interface [polypeptide binding]; other site 861208009735 putative dimer interface [polypeptide binding]; other site 861208009736 putative substrate binding pocket (H-site) [chemical binding]; other site 861208009737 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 861208009738 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208009739 NAD binding site [chemical binding]; other site 861208009740 catalytic residues [active] 861208009741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208009742 Helix-turn-helix domains; Region: HTH; cl00088 861208009743 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 861208009744 putative effector binding pocket; other site 861208009745 putative dimerization interface [polypeptide binding]; other site 861208009746 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 861208009747 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 861208009748 Helix-turn-helix domains; Region: HTH; cl00088 861208009749 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 861208009750 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 861208009751 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208009752 ligand binding site [chemical binding]; other site 861208009753 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208009754 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 861208009755 Walker A/P-loop; other site 861208009756 ATP binding site [chemical binding]; other site 861208009757 Q-loop/lid; other site 861208009758 ABC transporter signature motif; other site 861208009759 Walker B; other site 861208009760 D-loop; other site 861208009761 H-loop/switch region; other site 861208009762 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 861208009763 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 861208009764 TM-ABC transporter signature motif; other site 861208009765 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 861208009766 TM-ABC transporter signature motif; other site 861208009767 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 861208009768 active site 861208009769 catalytic residues [active] 861208009770 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208009771 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 861208009772 substrate binding site [chemical binding]; other site 861208009773 dimer interface [polypeptide binding]; other site 861208009774 ATP binding site [chemical binding]; other site 861208009775 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 861208009776 intersubunit interface [polypeptide binding]; other site 861208009777 active site 861208009778 catalytic residue [active] 861208009779 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 861208009780 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208009781 NAD(P) binding site [chemical binding]; other site 861208009782 catalytic residues [active] 861208009783 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 861208009784 NAD(P) binding site [chemical binding]; other site 861208009785 LysE type translocator; Region: LysE; cl00565 861208009786 Predicted amidohydrolase [General function prediction only]; Region: COG0388 861208009787 First nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R1; cd07578 861208009788 putative active site [active] 861208009789 catalytic triad [active] 861208009790 putative dimer interface [polypeptide binding]; other site 861208009791 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R2; cd07579 861208009792 Predicted amidohydrolase [General function prediction only]; Region: COG0388 861208009793 putative active site [active] 861208009794 catalytic triad [active] 861208009795 putative dimer interface [polypeptide binding]; other site 861208009796 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 861208009797 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 861208009798 Walker A/P-loop; other site 861208009799 ATP binding site [chemical binding]; other site 861208009800 Q-loop/lid; other site 861208009801 ABC transporter signature motif; other site 861208009802 Walker B; other site 861208009803 D-loop; other site 861208009804 H-loop/switch region; other site 861208009805 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 861208009806 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 861208009807 Walker A/P-loop; other site 861208009808 ATP binding site [chemical binding]; other site 861208009809 Q-loop/lid; other site 861208009810 ABC transporter signature motif; other site 861208009811 Walker B; other site 861208009812 D-loop; other site 861208009813 H-loop/switch region; other site 861208009814 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 861208009815 TM-ABC transporter signature motif; other site 861208009816 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 861208009817 TM-ABC transporter signature motif; other site 861208009818 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 861208009819 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 861208009820 ligand binding site [chemical binding]; other site 861208009821 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 861208009822 ANTAR domain; Region: ANTAR; cl04297 861208009823 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 861208009824 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 861208009825 ligand binding site [chemical binding]; other site 861208009826 regulator interaction site; other site 861208009827 MarC family integral membrane protein; Region: MarC; cl00919 861208009828 Mechanosensitive ion channel; Region: MS_channel; pfam00924 861208009829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 861208009830 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 861208009831 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 861208009832 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 861208009833 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 861208009834 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 861208009835 TolB amino-terminal domain; Region: TolB_N; cl00639 861208009836 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 861208009837 TPR motif; other site 861208009838 binding surface 861208009839 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 861208009840 binding surface 861208009841 TPR motif; other site 861208009842 Helix-turn-helix domain; Region: HTH_18; pfam12833 861208009843 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 861208009844 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 861208009845 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009846 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 861208009847 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 861208009848 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 861208009849 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 861208009850 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 861208009851 active site 861208009852 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 861208009853 Phosphotransferase enzyme family; Region: APH; pfam01636 861208009854 active site 861208009855 ATP binding site [chemical binding]; other site 861208009856 substrate binding site [chemical binding]; other site 861208009857 dimer interface [polypeptide binding]; other site 861208009858 Phosphotransferase enzyme family; Region: APH; pfam01636 861208009859 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 861208009860 substrate binding site [chemical binding]; other site 861208009861 allantoate amidohydrolase; Reviewed; Region: PRK09290 861208009862 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 861208009863 active site 861208009864 metal binding site [ion binding]; metal-binding site 861208009865 dimer interface [polypeptide binding]; other site 861208009866 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 861208009867 Helix-turn-helix domains; Region: HTH; cl00088 861208009868 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 861208009869 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208009870 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 861208009871 Walker A/P-loop; other site 861208009872 ATP binding site [chemical binding]; other site 861208009873 Q-loop/lid; other site 861208009874 ABC transporter signature motif; other site 861208009875 Walker B; other site 861208009876 D-loop; other site 861208009877 H-loop/switch region; other site 861208009878 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 861208009879 Walker A/P-loop; other site 861208009880 ATP binding site [chemical binding]; other site 861208009881 Q-loop/lid; other site 861208009882 ABC transporter signature motif; other site 861208009883 Walker B; other site 861208009884 D-loop; other site 861208009885 H-loop/switch region; other site 861208009886 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208009887 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208009888 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 861208009889 dimer interface [polypeptide binding]; other site 861208009890 conserved gate region; other site 861208009891 putative PBP binding loops; other site 861208009892 ABC-ATPase subunit interface; other site 861208009893 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208009894 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 861208009895 dimer interface [polypeptide binding]; other site 861208009896 conserved gate region; other site 861208009897 putative PBP binding loops; other site 861208009898 ABC-ATPase subunit interface; other site 861208009899 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; cd00995 861208009900 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208009901 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208009902 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 861208009903 Walker A/P-loop; other site 861208009904 ATP binding site [chemical binding]; other site 861208009905 Q-loop/lid; other site 861208009906 ABC transporter signature motif; other site 861208009907 Walker B; other site 861208009908 D-loop; other site 861208009909 H-loop/switch region; other site 861208009910 TOBE domain; Region: TOBE_2; cl01440 861208009911 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 861208009912 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 861208009913 inhibitor binding site; inhibition site 861208009914 catalytic Zn binding site [ion binding]; other site 861208009915 structural Zn binding site [ion binding]; other site 861208009916 NADP binding site [chemical binding]; other site 861208009917 tetramer interface [polypeptide binding]; other site 861208009918 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 861208009919 dimer interface [polypeptide binding]; other site 861208009920 conserved gate region; other site 861208009921 putative PBP binding loops; other site 861208009922 ABC-ATPase subunit interface; other site 861208009923 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 861208009924 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 861208009925 dimer interface [polypeptide binding]; other site 861208009926 conserved gate region; other site 861208009927 putative PBP binding loops; other site 861208009928 ABC-ATPase subunit interface; other site 861208009929 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208009930 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 861208009931 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 861208009932 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009933 Helix-turn-helix domain; Region: HTH_18; pfam12833 861208009934 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009935 muropeptide transporter; Validated; Region: ampG; PRK11010 861208009936 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 861208009937 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208009938 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009939 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 861208009940 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 861208009941 N-terminal plug; other site 861208009942 ligand-binding site [chemical binding]; other site 861208009943 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 861208009944 heat shock protein 90; Provisional; Region: PRK05218 861208009945 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 861208009946 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 861208009947 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 861208009948 S-adenosylmethionine binding site [chemical binding]; other site 861208009949 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 861208009950 substrate binding site [chemical binding]; other site 861208009951 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208009952 Helix-turn-helix domains; Region: HTH; cl00088 861208009953 Winged helix-turn helix; Region: HTH_29; pfam13551 861208009954 Helix-turn-helix domains; Region: HTH; cl00088 861208009955 Integrase core domain; Region: rve; cl01316 861208009956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208009957 Helix-turn-helix domains; Region: HTH; cl00088 861208009958 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208009959 putative effector binding pocket; other site 861208009960 dimerization interface [polypeptide binding]; other site 861208009961 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208009962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208009963 NADH(P)-binding; Region: NAD_binding_10; pfam13460 861208009964 NAD(P) binding site [chemical binding]; other site 861208009965 active site 861208009966 Cupin domain; Region: Cupin_2; cl09118 861208009967 Mechanosensitive ion channel; Region: MS_channel; pfam00924 861208009968 Predicted transcriptional regulator [Transcription]; Region: COG1959 861208009969 Helix-turn-helix domains; Region: HTH; cl00088 861208009970 Helix-turn-helix domains; Region: HTH; cl00088 861208009971 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 861208009972 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 861208009973 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 861208009974 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 861208009975 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; cl01155 861208009976 potential frameshift: common BLAST hit: gi|16119504|ref|NP_396210.1| AraC family transcriptional regulator 861208009977 Cupin domain; Region: Cupin_2; cl09118 861208009978 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208009979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208009980 LysR family transcriptional regulator; Provisional; Region: PRK14997 861208009981 Helix-turn-helix domains; Region: HTH; cl00088 861208009982 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208009983 putative effector binding pocket; other site 861208009984 dimerization interface [polypeptide binding]; other site 861208009985 NmrA-like family; Region: NmrA; pfam05368 861208009986 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 861208009987 NADP binding site [chemical binding]; other site 861208009988 active site 861208009989 regulatory binding site [polypeptide binding]; other site 861208009990 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 861208009991 putative hydrophobic ligand binding site [chemical binding]; other site 861208009992 transcriptional regulator; Provisional; Region: PRK10632 861208009993 Helix-turn-helix domains; Region: HTH; cl00088 861208009994 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 861208009995 dimerization interface [polypeptide binding]; other site 861208009996 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 861208009997 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 861208009998 active site 861208009999 catalytic tetrad [active] 861208010000 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 861208010001 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208010002 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 861208010003 DNA-binding site [nucleotide binding]; DNA binding site 861208010004 RNA-binding motif; other site 861208010005 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208010006 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 861208010007 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 861208010008 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 861208010009 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 861208010010 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 861208010011 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 861208010012 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 861208010013 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 861208010014 putative active site [active] 861208010015 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 861208010016 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208010017 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 861208010018 Walker A/P-loop; other site 861208010019 ATP binding site [chemical binding]; other site 861208010020 Q-loop/lid; other site 861208010021 ABC transporter signature motif; other site 861208010022 Walker B; other site 861208010023 D-loop; other site 861208010024 H-loop/switch region; other site 861208010025 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 861208010026 LysE type translocator; Region: LysE; cl00565 861208010027 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208010028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010029 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 861208010030 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208010031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010032 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208010033 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208010034 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 861208010035 dimer interface [polypeptide binding]; other site 861208010036 conserved gate region; other site 861208010037 putative PBP binding loops; other site 861208010038 ABC-ATPase subunit interface; other site 861208010039 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208010040 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 861208010041 Walker A/P-loop; other site 861208010042 ATP binding site [chemical binding]; other site 861208010043 Q-loop/lid; other site 861208010044 ABC transporter signature motif; other site 861208010045 Walker B; other site 861208010046 D-loop; other site 861208010047 H-loop/switch region; other site 861208010048 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208010049 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 861208010050 substrate binding pocket [chemical binding]; other site 861208010051 membrane-bound complex binding site; other site 861208010052 hinge residues; other site 861208010053 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208010054 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208010055 DNA binding site [nucleotide binding] 861208010056 domain linker motif; other site 861208010057 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 861208010058 dimerization interface [polypeptide binding]; other site 861208010059 ligand binding site [chemical binding]; other site 861208010060 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 861208010061 oligomeric interface; other site 861208010062 putative active site [active] 861208010063 homodimer interface [polypeptide binding]; other site 861208010064 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 861208010065 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 861208010066 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 861208010067 Catalytic site; other site 861208010068 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 861208010069 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 861208010070 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208010071 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 861208010072 Integrase core domain; Region: rve; cl01316 861208010073 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 861208010074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208010075 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 861208010076 active site 861208010077 NTP binding site [chemical binding]; other site 861208010078 metal binding triad [ion binding]; metal-binding site 861208010079 antibiotic binding site [chemical binding]; other site 861208010080 HEPN domain; Region: HEPN; cl00824 861208010081 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 861208010082 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 861208010083 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 861208010084 Walker A motif; other site 861208010085 ATP binding site [chemical binding]; other site 861208010086 Walker B motif; other site 861208010087 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 861208010088 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 861208010089 active site 861208010090 NTP binding site [chemical binding]; other site 861208010091 metal binding triad [ion binding]; metal-binding site 861208010092 antibiotic binding site [chemical binding]; other site 861208010093 HEPN domain; Region: HEPN; cl00824 861208010094 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 861208010095 Transposase; Region: DEDD_Tnp_IS110; pfam01548 861208010096 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 861208010097 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 861208010098 MobA/MobL family; Region: MobA_MobL; pfam03389 861208010099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208010100 Family description; Region: UvrD_C_2; cl15862 861208010101 Dtr system oriT relaxase; Provisional; Region: PRK13826 861208010102 MgtC family; Region: MgtC; pfam02308 861208010103 DKNYY family; Region: DKNYY; pfam13644 861208010104 DKNYY family; Region: DKNYY; pfam13644 861208010105 DKNYY family; Region: DKNYY; pfam13644 861208010106 DKNYY family; Region: DKNYY; pfam13644 861208010107 PAAR motif; Region: PAAR_motif; cl15808 861208010108 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 861208010109 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 861208010110 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 861208010111 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 861208010112 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 861208010113 Protein of unknown function (DUF796); Region: DUF796; cl01226 861208010114 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 861208010115 Clp amino terminal domain; Region: Clp_N; pfam02861 861208010116 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 861208010117 Walker A motif; other site 861208010118 ATP binding site [chemical binding]; other site 861208010119 Walker B motif; other site 861208010120 arginine finger; other site 861208010121 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 861208010122 Walker A motif; other site 861208010123 ATP binding site [chemical binding]; other site 861208010124 Walker B motif; other site 861208010125 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 861208010126 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 861208010127 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 861208010128 Protein of unknown function (DUF770); Region: DUF770; cl01402 861208010129 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 861208010130 Protein of unknown function (DUF877); Region: DUF877; pfam05943 861208010131 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 861208010132 Protein of unknown function (DUF877); Region: DUF877; pfam05943 861208010133 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 861208010134 ImpE protein; Region: ImpE; pfam07024 861208010135 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 861208010136 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 861208010137 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 861208010138 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 861208010139 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 861208010140 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 861208010141 phosphopeptide binding site; other site 861208010142 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 861208010143 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 861208010144 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 861208010145 hypothetical protein; Provisional; Region: PRK08126 861208010146 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 861208010147 ligand binding site [chemical binding]; other site 861208010148 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 861208010149 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 861208010150 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 861208010151 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 861208010152 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 861208010153 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 861208010154 active site 861208010155 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 861208010156 Catalytic domain of Protein Kinases; Region: PKc; cd00180 861208010157 substrate binding site [chemical binding]; other site 861208010158 activation loop (A-loop); other site 861208010159 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 861208010160 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 861208010161 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 861208010162 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 861208010163 hydrophobic ligand binding site; other site 861208010164 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 861208010165 Helix-turn-helix domains; Region: HTH; cl00088 861208010166 AsnC family; Region: AsnC_trans_reg; pfam01037 861208010167 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208010168 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 861208010169 tetramerization interface [polypeptide binding]; other site 861208010170 NAD(P) binding site [chemical binding]; other site 861208010171 catalytic residues [active] 861208010172 hypothetical protein; Provisional; Region: PRK07482 861208010173 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 861208010174 inhibitor-cofactor binding pocket; inhibition site 861208010175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208010176 catalytic residue [active] 861208010177 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 861208010178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208010179 DNA-binding site [nucleotide binding]; DNA binding site 861208010180 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 861208010181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208010182 homodimer interface [polypeptide binding]; other site 861208010183 catalytic residue [active] 861208010184 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 861208010185 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 861208010186 tetramer interface [polypeptide binding]; other site 861208010187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208010188 catalytic residue [active] 861208010189 ectoine utilization protein EutC; Validated; Region: PRK08291 861208010190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010191 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 861208010192 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 861208010193 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 861208010194 active site 861208010195 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 861208010196 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 861208010197 putative active site [active] 861208010198 Zn binding site [ion binding]; other site 861208010199 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 861208010200 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 861208010201 substrate binding pocket [chemical binding]; other site 861208010202 membrane-bound complex binding site; other site 861208010203 hinge residues; other site 861208010204 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208010205 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 861208010206 dimer interface [polypeptide binding]; other site 861208010207 conserved gate region; other site 861208010208 ABC-ATPase subunit interface; other site 861208010209 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 861208010210 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 861208010211 ABC-ATPase subunit interface; other site 861208010212 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 861208010213 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 861208010214 Walker A/P-loop; other site 861208010215 ATP binding site [chemical binding]; other site 861208010216 Q-loop/lid; other site 861208010217 ABC transporter signature motif; other site 861208010218 Walker B; other site 861208010219 D-loop; other site 861208010220 H-loop/switch region; other site 861208010221 Predicted transcriptional regulator [Transcription]; Region: COG4190 861208010222 Helix-turn-helix domains; Region: HTH; cl00088 861208010223 Cupin domain; Region: Cupin_2; cl09118 861208010224 Helix-turn-helix domains; Region: HTH; cl00088 861208010225 oxidoreductase; Provisional; Region: PRK12742 861208010226 classical (c) SDRs; Region: SDR_c; cd05233 861208010227 NAD(P) binding site [chemical binding]; other site 861208010228 active site 861208010229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 861208010230 Anti-sigma-K factor rskA; Region: RskA; pfam10099 861208010231 RNA polymerase sigma factor; Provisional; Region: PRK12537 861208010232 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208010233 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208010234 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 861208010235 Cadherin repeat-like domain; Region: CA_like; cl15786 861208010236 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 861208010237 Cadherin repeat-like domain; Region: CA_like; cl15786 861208010238 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; cl01155 861208010239 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 861208010240 NADP binding site [chemical binding]; other site 861208010241 homodimer interface [polypeptide binding]; other site 861208010242 active site 861208010243 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 861208010244 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 861208010245 Curlin associated repeat; Region: Curlin_rpt; pfam07012 861208010246 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 861208010247 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 861208010248 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 861208010249 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 861208010250 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208010251 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 861208010252 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 861208010253 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 861208010254 S-adenosylmethionine binding site [chemical binding]; other site 861208010255 Phospholipid methyltransferase; Region: PEMT; cl00763 861208010256 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 861208010257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010258 Uncharacterized conserved protein [Function unknown]; Region: COG3496 861208010259 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 861208010260 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 861208010261 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 861208010262 S-adenosylmethionine binding site [chemical binding]; other site 861208010263 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 861208010264 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 861208010265 RNA polymerase sigma factor; Provisional; Region: PRK12514 861208010266 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208010267 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 861208010268 DNA binding residues [nucleotide binding] 861208010269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 861208010270 Anti-sigma-K factor rskA; Region: RskA; pfam10099 861208010271 Protein of unknown function DUF72; Region: DUF72; cl00777 861208010272 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 861208010273 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 861208010274 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 861208010275 tetramer interface [polypeptide binding]; other site 861208010276 heme binding pocket [chemical binding]; other site 861208010277 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 861208010278 domain interactions; other site 861208010279 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 861208010280 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208010281 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 861208010282 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 861208010283 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 861208010284 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 861208010285 hydrophobic ligand binding site; other site 861208010286 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 861208010287 putative hydrophobic ligand binding site [chemical binding]; other site 861208010288 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 861208010289 dimerization interface [polypeptide binding]; other site 861208010290 putative DNA binding site [nucleotide binding]; other site 861208010291 putative Zn2+ binding site [ion binding]; other site 861208010292 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 861208010293 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208010294 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 861208010295 Walker A/P-loop; other site 861208010296 ATP binding site [chemical binding]; other site 861208010297 Q-loop/lid; other site 861208010298 ABC transporter signature motif; other site 861208010299 Walker B; other site 861208010300 D-loop; other site 861208010301 H-loop/switch region; other site 861208010302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 861208010303 NMT1-like family; Region: NMT1_2; cl15260 861208010304 PAS fold; Region: PAS_4; pfam08448 861208010305 hypothetical protein; Provisional; Region: PRK13560 861208010306 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 861208010307 transcriptional regulator FimZ; Provisional; Region: PRK09935 861208010308 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 861208010309 DNA binding residues [nucleotide binding] 861208010310 dimerization interface [polypeptide binding]; other site 861208010311 CsbD-like; Region: CsbD; cl15799 861208010312 BON domain; Region: BON; cl02771 861208010313 Protein of unknown function (DUF992); Region: DUF992; pfam06186 861208010314 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208010315 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 861208010316 active site 861208010317 phosphorylation site [posttranslational modification] 861208010318 intermolecular recognition site; other site 861208010319 dimerization interface [polypeptide binding]; other site 861208010320 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 861208010321 DNA binding site [nucleotide binding] 861208010322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 861208010323 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 861208010324 dimer interface [polypeptide binding]; other site 861208010325 phosphorylation site [posttranslational modification] 861208010326 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 861208010327 ATP binding site [chemical binding]; other site 861208010328 Mg2+ binding site [ion binding]; other site 861208010329 G-X-G motif; other site 861208010330 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 861208010331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208010332 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208010333 Coenzyme A binding pocket [chemical binding]; other site 861208010334 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 861208010335 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 861208010336 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 861208010337 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 861208010338 catalytic loop [active] 861208010339 iron binding site [ion binding]; other site 861208010340 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 861208010341 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 861208010342 [4Fe-4S] binding site [ion binding]; other site 861208010343 molybdopterin cofactor binding site; other site 861208010344 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 861208010345 molybdopterin cofactor binding site; other site 861208010346 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 861208010347 putative dimer interface [polypeptide binding]; other site 861208010348 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 861208010349 SLBB domain; Region: SLBB; pfam10531 861208010350 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 861208010351 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 861208010352 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 861208010353 putative dimer interface [polypeptide binding]; other site 861208010354 [2Fe-2S] cluster binding site [ion binding]; other site 861208010355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208010356 Helix-turn-helix domains; Region: HTH; cl00088 861208010357 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 861208010358 dimerization interface [polypeptide binding]; other site 861208010359 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 861208010360 Flavin Reductases; Region: FlaRed; cl00801 861208010361 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208010362 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208010363 DNA-binding site [nucleotide binding]; DNA binding site 861208010364 FCD domain; Region: FCD; cl11656 861208010365 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 861208010366 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 861208010367 Walker A/P-loop; other site 861208010368 ATP binding site [chemical binding]; other site 861208010369 Q-loop/lid; other site 861208010370 ABC transporter signature motif; other site 861208010371 Walker B; other site 861208010372 D-loop; other site 861208010373 H-loop/switch region; other site 861208010374 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208010375 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 861208010376 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 861208010377 Walker A/P-loop; other site 861208010378 ATP binding site [chemical binding]; other site 861208010379 Q-loop/lid; other site 861208010380 ABC transporter signature motif; other site 861208010381 Walker B; other site 861208010382 D-loop; other site 861208010383 H-loop/switch region; other site 861208010384 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208010385 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 861208010386 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 861208010387 active site 861208010388 cytosine deaminase; Provisional; Region: PRK05985 861208010389 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 861208010390 active site 861208010391 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 861208010392 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 861208010393 dimer interface [polypeptide binding]; other site 861208010394 conserved gate region; other site 861208010395 putative PBP binding loops; other site 861208010396 ABC-ATPase subunit interface; other site 861208010397 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208010398 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 861208010399 dimer interface [polypeptide binding]; other site 861208010400 conserved gate region; other site 861208010401 putative PBP binding loops; other site 861208010402 ABC-ATPase subunit interface; other site 861208010403 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 861208010404 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208010405 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 861208010406 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 861208010407 active site 861208010408 Porin subfamily; Region: Porin_2; pfam02530 861208010409 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 861208010410 PAS fold; Region: PAS_4; pfam08448 861208010411 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208010412 metal binding site [ion binding]; metal-binding site 861208010413 active site 861208010414 I-site; other site 861208010415 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 861208010416 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 861208010417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010418 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208010419 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 861208010420 Walker A/P-loop; other site 861208010421 ATP binding site [chemical binding]; other site 861208010422 Q-loop/lid; other site 861208010423 ABC transporter signature motif; other site 861208010424 Walker B; other site 861208010425 D-loop; other site 861208010426 H-loop/switch region; other site 861208010427 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 861208010428 dimer interface [polypeptide binding]; other site 861208010429 conserved gate region; other site 861208010430 putative PBP binding loops; other site 861208010431 ABC-ATPase subunit interface; other site 861208010432 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 861208010433 dimer interface [polypeptide binding]; other site 861208010434 conserved gate region; other site 861208010435 ABC-ATPase subunit interface; other site 861208010436 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 861208010437 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208010438 substrate binding pocket [chemical binding]; other site 861208010439 membrane-bound complex binding site; other site 861208010440 hinge residues; other site 861208010441 Restriction endonuclease NaeI; Region: NaeI; pfam09126 861208010442 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208010443 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208010444 DNA binding site [nucleotide binding] 861208010445 domain linker motif; other site 861208010446 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 861208010447 putative dimerization interface [polypeptide binding]; other site 861208010448 putative ligand binding site [chemical binding]; other site 861208010449 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 861208010450 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 861208010451 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 861208010452 substrate binding site [chemical binding]; other site 861208010453 Protein of unknown function (DUF521); Region: DUF521; pfam04412 861208010454 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 861208010455 substrate binding site [chemical binding]; other site 861208010456 ligand binding site [chemical binding]; other site 861208010457 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 861208010458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010459 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208010460 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 861208010461 Walker A/P-loop; other site 861208010462 ATP binding site [chemical binding]; other site 861208010463 Q-loop/lid; other site 861208010464 ABC transporter signature motif; other site 861208010465 Walker B; other site 861208010466 D-loop; other site 861208010467 H-loop/switch region; other site 861208010468 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208010469 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 861208010470 dimer interface [polypeptide binding]; other site 861208010471 conserved gate region; other site 861208010472 putative PBP binding loops; other site 861208010473 ABC-ATPase subunit interface; other site 861208010474 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 861208010475 dimer interface [polypeptide binding]; other site 861208010476 conserved gate region; other site 861208010477 putative PBP binding loops; other site 861208010478 ABC-ATPase subunit interface; other site 861208010479 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208010480 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 861208010481 substrate binding pocket [chemical binding]; other site 861208010482 membrane-bound complex binding site; other site 861208010483 hinge residues; other site 861208010484 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 861208010485 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 861208010486 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 861208010487 inhibitor site; inhibition site 861208010488 active site 861208010489 dimer interface [polypeptide binding]; other site 861208010490 catalytic residue [active] 861208010491 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208010492 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208010493 DNA-binding site [nucleotide binding]; DNA binding site 861208010494 FCD domain; Region: FCD; cl11656 861208010495 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 861208010496 nucleotide binding site [chemical binding]; other site 861208010497 SulA interaction site; other site 861208010498 response regulator; Provisional; Region: PRK13435 861208010499 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 861208010500 active site 861208010501 phosphorylation site [posttranslational modification] 861208010502 intermolecular recognition site; other site 861208010503 dimerization interface [polypeptide binding]; other site 861208010504 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 861208010505 alpha-galactosidase; Provisional; Region: PRK15076 861208010506 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 861208010507 NAD binding site [chemical binding]; other site 861208010508 sugar binding site [chemical binding]; other site 861208010509 divalent metal binding site [ion binding]; other site 861208010510 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 861208010511 dimer interface [polypeptide binding]; other site 861208010512 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 861208010513 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 861208010514 Walker A/P-loop; other site 861208010515 ATP binding site [chemical binding]; other site 861208010516 Q-loop/lid; other site 861208010517 ABC transporter signature motif; other site 861208010518 Walker B; other site 861208010519 D-loop; other site 861208010520 H-loop/switch region; other site 861208010521 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208010522 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 861208010523 Walker A/P-loop; other site 861208010524 ATP binding site [chemical binding]; other site 861208010525 Q-loop/lid; other site 861208010526 ABC transporter signature motif; other site 861208010527 Walker B; other site 861208010528 D-loop; other site 861208010529 H-loop/switch region; other site 861208010530 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208010531 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 861208010532 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 861208010533 dimer interface [polypeptide binding]; other site 861208010534 conserved gate region; other site 861208010535 putative PBP binding loops; other site 861208010536 ABC-ATPase subunit interface; other site 861208010537 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208010538 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 861208010539 dimer interface [polypeptide binding]; other site 861208010540 conserved gate region; other site 861208010541 putative PBP binding loops; other site 861208010542 ABC-ATPase subunit interface; other site 861208010543 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 861208010544 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208010545 alpha-galactosidase; Provisional; Region: PRK15076 861208010546 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 861208010547 NAD binding site [chemical binding]; other site 861208010548 sugar binding site [chemical binding]; other site 861208010549 divalent metal binding site [ion binding]; other site 861208010550 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 861208010551 dimer interface [polypeptide binding]; other site 861208010552 Cupin domain; Region: Cupin_2; cl09118 861208010553 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 861208010554 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208010555 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 861208010556 EamA-like transporter family; Region: EamA; cl01037 861208010557 EamA-like transporter family; Region: EamA; cl01037 861208010558 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 861208010559 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208010560 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208010561 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208010562 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 861208010563 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208010564 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 861208010565 dimer interface [polypeptide binding]; other site 861208010566 conserved gate region; other site 861208010567 putative PBP binding loops; other site 861208010568 ABC-ATPase subunit interface; other site 861208010569 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208010570 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 861208010571 dimer interface [polypeptide binding]; other site 861208010572 conserved gate region; other site 861208010573 putative PBP binding loops; other site 861208010574 ABC-ATPase subunit interface; other site 861208010575 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 861208010576 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 861208010577 active sites [active] 861208010578 tetramer interface [polypeptide binding]; other site 861208010579 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208010580 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 861208010581 Walker A/P-loop; other site 861208010582 ATP binding site [chemical binding]; other site 861208010583 Q-loop/lid; other site 861208010584 ABC transporter signature motif; other site 861208010585 Walker B; other site 861208010586 D-loop; other site 861208010587 H-loop/switch region; other site 861208010588 TOBE domain; Region: TOBE_2; cl01440 861208010589 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 861208010590 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208010591 substrate binding site [chemical binding]; other site 861208010592 ATP binding site [chemical binding]; other site 861208010593 Sulfatase; Region: Sulfatase; cl10460 861208010594 choline-sulfatase; Region: chol_sulfatase; TIGR03417 861208010595 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 861208010596 NMT1-like family; Region: NMT1_2; cl15260 861208010597 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 861208010598 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 861208010599 Helix-turn-helix domains; Region: HTH; cl00088 861208010600 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 861208010601 dimerization interface [polypeptide binding]; other site 861208010602 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208010603 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 861208010604 NAD(P) binding site [chemical binding]; other site 861208010605 catalytic residues [active] 861208010606 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 861208010607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208010608 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 861208010609 classical (c) SDRs; Region: SDR_c; cd05233 861208010610 NAD(P) binding site [chemical binding]; other site 861208010611 active site 861208010612 Helix-turn-helix domains; Region: HTH; cl00088 861208010613 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 861208010614 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 861208010615 Walker A/P-loop; other site 861208010616 ATP binding site [chemical binding]; other site 861208010617 Q-loop/lid; other site 861208010618 ABC transporter signature motif; other site 861208010619 Walker B; other site 861208010620 D-loop; other site 861208010621 H-loop/switch region; other site 861208010622 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 861208010623 ABC-ATPase subunit interface; other site 861208010624 dimer interface [polypeptide binding]; other site 861208010625 putative PBP binding regions; other site 861208010626 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 861208010627 ABC-ATPase subunit interface; other site 861208010628 dimer interface [polypeptide binding]; other site 861208010629 putative PBP binding regions; other site 861208010630 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 861208010631 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 861208010632 siderophore binding site; other site 861208010633 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 861208010634 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 861208010635 N-terminal plug; other site 861208010636 ligand-binding site [chemical binding]; other site 861208010637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208010638 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208010639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208010640 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 861208010641 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 861208010642 heme binding site [chemical binding]; other site 861208010643 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 861208010644 Helix-turn-helix domains; Region: HTH; cl00088 861208010645 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 861208010646 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 861208010647 dimerization interface [polypeptide binding]; other site 861208010648 Protein of unknown function (DUF535); Region: DUF535; cl01128 861208010649 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 861208010650 dimer interface [polypeptide binding]; other site 861208010651 phosphorylation site [posttranslational modification] 861208010652 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 861208010653 ATP binding site [chemical binding]; other site 861208010654 Mg2+ binding site [ion binding]; other site 861208010655 G-X-G motif; other site 861208010656 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208010657 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 861208010658 active site 861208010659 phosphorylation site [posttranslational modification] 861208010660 intermolecular recognition site; other site 861208010661 dimerization interface [polypeptide binding]; other site 861208010662 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 861208010663 DNA binding site [nucleotide binding] 861208010664 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 861208010665 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 861208010666 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 861208010667 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 861208010668 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 861208010669 nudix motif; other site 861208010670 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 861208010671 Phosphate transporter family; Region: PHO4; cl00396 861208010672 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 861208010673 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 861208010674 putative homodimer interface [polypeptide binding]; other site 861208010675 putative DNA binding site [nucleotide binding]; other site 861208010676 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 861208010677 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 861208010678 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 861208010679 active site 861208010680 DNA binding site [nucleotide binding] 861208010681 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 861208010682 DNA binding site [nucleotide binding] 861208010683 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 861208010684 nucleotide binding site [chemical binding]; other site 861208010685 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 861208010686 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 861208010687 putative DNA binding site [nucleotide binding]; other site 861208010688 putative homodimer interface [polypeptide binding]; other site 861208010689 oxidoreductase; Provisional; Region: PRK06128 861208010690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010691 NAD(P) binding site [chemical binding]; other site 861208010692 active site 861208010693 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 861208010694 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 861208010695 PAS domain S-box; Region: sensory_box; TIGR00229 861208010696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208010697 metal binding site [ion binding]; metal-binding site 861208010698 active site 861208010699 I-site; other site 861208010700 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 861208010701 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 861208010702 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208010703 D-mannonate dehydratase [Carbohydrate transport and metabolism]; Region: UxuA; COG1312 861208010704 mannonate dehydratase; Region: uxuA; TIGR00695 861208010705 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208010706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208010707 DNA-binding site [nucleotide binding]; DNA binding site 861208010708 FCD domain; Region: FCD; cl11656 861208010709 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208010710 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 861208010711 dimer interface [polypeptide binding]; other site 861208010712 conserved gate region; other site 861208010713 putative PBP binding loops; other site 861208010714 ABC-ATPase subunit interface; other site 861208010715 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208010716 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 861208010717 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 861208010718 dimer interface [polypeptide binding]; other site 861208010719 conserved gate region; other site 861208010720 putative PBP binding loops; other site 861208010721 ABC-ATPase subunit interface; other site 861208010722 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 861208010723 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 861208010724 Walker A/P-loop; other site 861208010725 ATP binding site [chemical binding]; other site 861208010726 Q-loop/lid; other site 861208010727 ABC transporter signature motif; other site 861208010728 Walker B; other site 861208010729 D-loop; other site 861208010730 H-loop/switch region; other site 861208010731 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208010732 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208010733 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 861208010734 Walker A/P-loop; other site 861208010735 ATP binding site [chemical binding]; other site 861208010736 Q-loop/lid; other site 861208010737 ABC transporter signature motif; other site 861208010738 Walker B; other site 861208010739 D-loop; other site 861208010740 H-loop/switch region; other site 861208010741 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208010742 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 861208010743 Walker A/P-loop; other site 861208010744 ATP binding site [chemical binding]; other site 861208010745 Q-loop/lid; other site 861208010746 ABC transporter signature motif; other site 861208010747 Walker B; other site 861208010748 D-loop; other site 861208010749 H-loop/switch region; other site 861208010750 TOBE domain; Region: TOBE_2; cl01440 861208010751 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 861208010752 dimer interface [polypeptide binding]; other site 861208010753 conserved gate region; other site 861208010754 putative PBP binding loops; other site 861208010755 ABC-ATPase subunit interface; other site 861208010756 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 861208010757 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208010758 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208010759 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 861208010760 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 861208010761 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208010762 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208010763 DNA binding site [nucleotide binding] 861208010764 domain linker motif; other site 861208010765 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 861208010766 ligand binding site [chemical binding]; other site 861208010767 dimerization interface [polypeptide binding]; other site 861208010768 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 861208010769 Predicted esterase [General function prediction only]; Region: COG0400 861208010770 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 861208010771 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 861208010772 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208010773 Family description; Region: UvrD_C_2; cl15862 861208010774 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 861208010775 active site 861208010776 DNA polymerase IV; Validated; Region: PRK02406 861208010777 DNA binding site [nucleotide binding] 861208010778 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 861208010779 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 861208010780 N-terminal plug; other site 861208010781 ligand-binding site [chemical binding]; other site 861208010782 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 861208010783 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 861208010784 Walker A/P-loop; other site 861208010785 ATP binding site [chemical binding]; other site 861208010786 Q-loop/lid; other site 861208010787 ABC transporter signature motif; other site 861208010788 Walker B; other site 861208010789 D-loop; other site 861208010790 H-loop/switch region; other site 861208010791 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 861208010792 ABC-ATPase subunit interface; other site 861208010793 dimer interface [polypeptide binding]; other site 861208010794 putative PBP binding regions; other site 861208010795 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 861208010796 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 861208010797 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 861208010798 ABC-ATPase subunit interface; other site 861208010799 dimer interface [polypeptide binding]; other site 861208010800 putative PBP binding regions; other site 861208010801 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 861208010802 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 861208010803 intersubunit interface [polypeptide binding]; other site 861208010804 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 861208010805 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 861208010806 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 861208010807 putative active site [active] 861208010808 Cupin domain; Region: Cupin_2; cl09118 861208010809 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 861208010810 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 861208010811 NAD binding site [chemical binding]; other site 861208010812 substrate binding site [chemical binding]; other site 861208010813 homodimer interface [polypeptide binding]; other site 861208010814 active site 861208010815 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 861208010816 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 861208010817 NADP binding site [chemical binding]; other site 861208010818 active site 861208010819 putative substrate binding site [chemical binding]; other site 861208010820 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 861208010821 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 861208010822 substrate binding site; other site 861208010823 tetramer interface; other site 861208010824 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 861208010825 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 861208010826 Probable Catalytic site; other site 861208010827 metal-binding site 861208010828 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 861208010829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010830 NAD(P) binding site [chemical binding]; other site 861208010831 active site 861208010832 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 861208010833 S-adenosylmethionine binding site [chemical binding]; other site 861208010834 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 861208010835 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 861208010836 active site 861208010837 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208010838 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 861208010839 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 861208010840 S-adenosylmethionine binding site [chemical binding]; other site 861208010841 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; cl16911 861208010842 GtrA-like protein; Region: GtrA; cl00971 861208010843 hypothetical protein; Provisional; Region: PRK07233 861208010844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010845 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 861208010846 NAD(P) binding site [chemical binding]; other site 861208010847 active site 861208010848 classical (c) SDRs; Region: SDR_c; cd05233 861208010849 short chain dehydrogenase; Provisional; Region: PRK08251 861208010850 NAD(P) binding site [chemical binding]; other site 861208010851 active site 861208010852 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 861208010853 FAD binding domain; Region: FAD_binding_4; pfam01565 861208010854 hypothetical protein; Validated; Region: PRK08238 861208010855 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208010856 UbiA prenyltransferase family; Region: UbiA; cl00337 861208010857 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 861208010858 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 861208010859 S-adenosylmethionine binding site [chemical binding]; other site 861208010860 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 861208010861 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 861208010862 TPP-binding site [chemical binding]; other site 861208010863 dimer interface [polypeptide binding]; other site 861208010864 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 861208010865 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 861208010866 PYR/PP interface [polypeptide binding]; other site 861208010867 dimer interface [polypeptide binding]; other site 861208010868 TPP binding site [chemical binding]; other site 861208010869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208010870 NAD(P) binding site [chemical binding]; other site 861208010871 active site 861208010872 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 861208010873 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 861208010874 Ligand binding site; other site 861208010875 Putative Catalytic site; other site 861208010876 DXD motif; other site 861208010877 Helix-turn-helix domains; Region: HTH; cl00088 861208010878 Transposase; Region: DEDD_Tnp_IS110; pfam01548 861208010879 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 861208010880 potential frameshift: common BLAST hit: gi|116250563|ref|YP_766401.1| transposase 861208010881 HTH-like domain; Region: HTH_21; pfam13276 861208010882 Integrase core domain; Region: rve; cl01316 861208010883 Integrase core domain; Region: rve_3; cl15866 861208010884 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 861208010885 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208010886 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 861208010887 Walker A/P-loop; other site 861208010888 ATP binding site [chemical binding]; other site 861208010889 Q-loop/lid; other site 861208010890 ABC transporter signature motif; other site 861208010891 Walker B; other site 861208010892 D-loop; other site 861208010893 H-loop/switch region; other site 861208010894 Transcriptional regulator [Transcription]; Region: IclR; COG1414 861208010895 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208010896 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 861208010897 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 861208010898 Walker A/P-loop; other site 861208010899 ATP binding site [chemical binding]; other site 861208010900 Q-loop/lid; other site 861208010901 ABC transporter signature motif; other site 861208010902 Walker B; other site 861208010903 D-loop; other site 861208010904 H-loop/switch region; other site 861208010905 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 861208010906 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 861208010907 dimer interface [polypeptide binding]; other site 861208010908 conserved gate region; other site 861208010909 ABC-ATPase subunit interface; other site 861208010910 NMT1/THI5 like; Region: NMT1; pfam09084 861208010911 NMT1-like family; Region: NMT1_2; cl15260 861208010912 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208010913 classical (c) SDRs; Region: SDR_c; cd05233 861208010914 NAD(P) binding site [chemical binding]; other site 861208010915 active site 861208010916 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 861208010917 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 861208010918 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 861208010919 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 861208010920 Membrane transport protein; Region: Mem_trans; cl09117 861208010921 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 861208010922 active site 861208010923 NTP binding site [chemical binding]; other site 861208010924 metal binding triad [ion binding]; metal-binding site 861208010925 antibiotic binding site [chemical binding]; other site 861208010926 HEPN domain; Region: HEPN; cl00824 861208010927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 861208010928 Transposase; Region: DEDD_Tnp_IS110; pfam01548 861208010929 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 861208010930 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 861208010931 MobA/MobL family; Region: MobA_MobL; pfam03389 861208010932 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208010933 Family description; Region: UvrD_C_2; cl15862 861208010934 Dtr system oriT relaxase; Provisional; Region: PRK13826 861208010935 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 861208010936 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208010937 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 861208010938 putative active site [active] 861208010939 putative NTP binding site [chemical binding]; other site 861208010940 putative nucleic acid binding site [nucleotide binding]; other site 861208010941 TIR domain; Region: TIR_2; cl15770 861208010942 WYL domain; Region: WYL; cl14852 861208010943 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 861208010944 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208010945 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 861208010946 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 861208010947 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 861208010948 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 861208010949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208010950 Walker A motif; other site 861208010951 ATP binding site [chemical binding]; other site 861208010952 Uncharacterized conserved protein [Function unknown]; Region: COG4127 861208010953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208010954 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 861208010955 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 861208010956 DEAD-like helicases superfamily; Region: DEXDc; smart00487 861208010957 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 861208010958 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; cl16911 861208010959 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; cl16911 861208010960 potential frameshift: common BLAST hit: gi|134291527|ref|YP_001115296.1| phage integrase family protein 861208010961 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 861208010962 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 861208010963 DNA binding site [nucleotide binding] 861208010964 active site 861208010965 Int/Topo IB signature motif; other site 861208010966 catalytic residues [active] 861208010967 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cl00323 861208010968 MFS transport protein AraJ; Provisional; Region: PRK10091 861208010969 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 861208010970 putative substrate translocation pore; other site 861208010971 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 861208010972 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 861208010973 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 861208010974 catalytic residues [active] 861208010975 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208010976 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 861208010977 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 861208010978 osmolarity response regulator; Provisional; Region: ompR; PRK09468 861208010979 active site 861208010980 phosphorylation site [posttranslational modification] 861208010981 intermolecular recognition site; other site 861208010982 dimerization interface [polypeptide binding]; other site 861208010983 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 861208010984 DNA binding site [nucleotide binding] 861208010985 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 861208010986 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 861208010987 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 861208010988 ATP binding site [chemical binding]; other site 861208010989 Mg2+ binding site [ion binding]; other site 861208010990 G-X-G motif; other site 861208010991 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 861208010992 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 861208010993 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 861208010994 putative active site [active] 861208010995 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 861208010996 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208010997 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208010998 Walker A/P-loop; other site 861208010999 ATP binding site [chemical binding]; other site 861208011000 Q-loop/lid; other site 861208011001 ABC transporter signature motif; other site 861208011002 Walker B; other site 861208011003 D-loop; other site 861208011004 H-loop/switch region; other site 861208011005 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 861208011006 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 861208011007 oligomeric interface; other site 861208011008 homodimer interface [polypeptide binding]; other site 861208011009 putative active site [active] 861208011010 OsmC-like protein; Region: OsmC; cl00767 861208011011 Putative cyclase; Region: Cyclase; cl00814 861208011012 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 861208011013 DctM-like transporters; Region: DctM; pfam06808 861208011014 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 861208011015 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 861208011016 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 861208011017 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208011018 classical (c) SDRs; Region: SDR_c; cd05233 861208011019 NAD(P) binding site [chemical binding]; other site 861208011020 active site 861208011021 Transcriptional regulator [Transcription]; Region: IclR; COG1414 861208011022 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208011023 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 861208011024 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 861208011025 active site 861208011026 acyl-CoA synthetase; Validated; Region: PRK07470 861208011027 AMP-binding enzyme; Region: AMP-binding; cl15778 861208011028 AMP-binding enzyme; Region: AMP-binding; cl15778 861208011029 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208011030 classical (c) SDRs; Region: SDR_c; cd05233 861208011031 NAD(P) binding site [chemical binding]; other site 861208011032 active site 861208011033 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 861208011034 trimer interface [polypeptide binding]; other site 861208011035 putative Zn binding site [ion binding]; other site 861208011036 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208011037 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 861208011038 putative DNA binding site [nucleotide binding]; other site 861208011039 putative Zn2+ binding site [ion binding]; other site 861208011040 AsnC family; Region: AsnC_trans_reg; pfam01037 861208011041 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 861208011042 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 861208011043 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 861208011044 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 861208011045 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208011046 Helix-turn-helix domains; Region: HTH; cl00088 861208011047 Transcriptional regulator [Transcription]; Region: IclR; COG1414 861208011048 Helix-turn-helix domains; Region: HTH; cl00088 861208011049 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 861208011050 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 861208011051 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 861208011052 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 861208011053 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 861208011054 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208011055 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208011056 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 861208011057 dimer interface [polypeptide binding]; other site 861208011058 conserved gate region; other site 861208011059 putative PBP binding loops; other site 861208011060 ABC-ATPase subunit interface; other site 861208011061 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 861208011062 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 861208011063 dimer interface [polypeptide binding]; other site 861208011064 conserved gate region; other site 861208011065 putative PBP binding loops; other site 861208011066 ABC-ATPase subunit interface; other site 861208011067 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208011068 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 861208011069 Walker A/P-loop; other site 861208011070 ATP binding site [chemical binding]; other site 861208011071 Q-loop/lid; other site 861208011072 ABC transporter signature motif; other site 861208011073 Walker B; other site 861208011074 D-loop; other site 861208011075 H-loop/switch region; other site 861208011076 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208011077 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 861208011078 Walker A/P-loop; other site 861208011079 ATP binding site [chemical binding]; other site 861208011080 Q-loop/lid; other site 861208011081 ABC transporter signature motif; other site 861208011082 Walker B; other site 861208011083 D-loop; other site 861208011084 H-loop/switch region; other site 861208011085 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208011086 FAD dependent oxidoreductase; Region: DAO; pfam01266 861208011087 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 861208011088 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 861208011089 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 861208011090 tetramer interface [polypeptide binding]; other site 861208011091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011092 FAD dependent oxidoreductase; Region: DAO; pfam01266 861208011093 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208011094 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 861208011095 Walker A/P-loop; other site 861208011096 ATP binding site [chemical binding]; other site 861208011097 Q-loop/lid; other site 861208011098 ABC transporter signature motif; other site 861208011099 Walker B; other site 861208011100 D-loop; other site 861208011101 H-loop/switch region; other site 861208011102 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208011103 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 861208011104 dimer interface [polypeptide binding]; other site 861208011105 conserved gate region; other site 861208011106 putative PBP binding loops; other site 861208011107 ABC-ATPase subunit interface; other site 861208011108 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 861208011109 dimer interface [polypeptide binding]; other site 861208011110 conserved gate region; other site 861208011111 putative PBP binding loops; other site 861208011112 ABC-ATPase subunit interface; other site 861208011113 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208011114 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 861208011115 substrate binding pocket [chemical binding]; other site 861208011116 membrane-bound complex binding site; other site 861208011117 hinge residues; other site 861208011118 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 861208011119 Helix-turn-helix domains; Region: HTH; cl00088 861208011120 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208011121 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 861208011122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011123 NAD(P) binding site [chemical binding]; other site 861208011124 active site 861208011125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011126 FAD dependent oxidoreductase; Region: DAO; pfam01266 861208011127 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208011128 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208011129 DNA-binding site [nucleotide binding]; DNA binding site 861208011130 FCD domain; Region: FCD; cl11656 861208011131 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208011132 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 861208011133 Walker A/P-loop; other site 861208011134 ATP binding site [chemical binding]; other site 861208011135 Q-loop/lid; other site 861208011136 ABC transporter signature motif; other site 861208011137 Walker B; other site 861208011138 D-loop; other site 861208011139 H-loop/switch region; other site 861208011140 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 861208011141 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 861208011142 dimer interface [polypeptide binding]; other site 861208011143 conserved gate region; other site 861208011144 putative PBP binding loops; other site 861208011145 ABC-ATPase subunit interface; other site 861208011146 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208011147 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 861208011148 dimer interface [polypeptide binding]; other site 861208011149 conserved gate region; other site 861208011150 putative PBP binding loops; other site 861208011151 ABC-ATPase subunit interface; other site 861208011152 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208011153 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 861208011154 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208011155 classical (c) SDRs; Region: SDR_c; cd05233 861208011156 NAD(P) binding site [chemical binding]; other site 861208011157 active site 861208011158 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 861208011159 active site 861208011160 oxyanion hole [active] 861208011161 catalytic triad [active] 861208011162 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 861208011163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011164 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 861208011165 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 861208011166 Metal-binding active site; metal-binding site 861208011167 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 861208011168 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 861208011169 active site 861208011170 tetramer interface [polypeptide binding]; other site 861208011171 Protein of unknown function (DUF982); Region: DUF982; pfam06169 861208011172 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 861208011173 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 861208011174 putative dimer interface [polypeptide binding]; other site 861208011175 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208011176 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 861208011177 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 861208011178 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 861208011179 putative ADP-binding pocket [chemical binding]; other site 861208011180 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 861208011181 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 861208011182 putative trimer interface [polypeptide binding]; other site 861208011183 putative active site [active] 861208011184 putative substrate binding site [chemical binding]; other site 861208011185 putative CoA binding site [chemical binding]; other site 861208011186 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 861208011187 putative active site [active] 861208011188 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 861208011189 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 861208011190 Mg++ binding site [ion binding]; other site 861208011191 putative catalytic motif [active] 861208011192 substrate binding site [chemical binding]; other site 861208011193 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 861208011194 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208011195 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 861208011196 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 861208011197 MatE; Region: MatE; cl10513 861208011198 colanic acid exporter; Provisional; Region: PRK10459 861208011199 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 861208011200 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 861208011201 active site 861208011202 CheB methylesterase; Region: CheB_methylest; pfam01339 861208011203 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 861208011204 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 861208011205 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; cl16911 861208011206 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 861208011207 PAS domain; Region: PAS_10; pfam13596 861208011208 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 861208011209 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 861208011210 ATP binding site [chemical binding]; other site 861208011211 Mg2+ binding site [ion binding]; other site 861208011212 G-X-G motif; other site 861208011213 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 861208011214 active site 861208011215 phosphorylation site [posttranslational modification] 861208011216 intermolecular recognition site; other site 861208011217 dimerization interface [polypeptide binding]; other site 861208011218 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 861208011219 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 861208011220 active site 861208011221 phosphorylation site [posttranslational modification] 861208011222 intermolecular recognition site; other site 861208011223 dimerization interface [polypeptide binding]; other site 861208011224 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 861208011225 DNA binding residues [nucleotide binding] 861208011226 dimerization interface [polypeptide binding]; other site 861208011227 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 861208011228 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 861208011229 active site 861208011230 phosphorylation site [posttranslational modification] 861208011231 intermolecular recognition site; other site 861208011232 dimerization interface [polypeptide binding]; other site 861208011233 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 861208011234 DNA binding residues [nucleotide binding] 861208011235 dimerization interface [polypeptide binding]; other site 861208011236 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 861208011237 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 861208011238 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208011239 catalytic residue [active] 861208011240 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 861208011241 extended (e) SDRs; Region: SDR_e; cd08946 861208011242 NAD(P) binding site [chemical binding]; other site 861208011243 active site 861208011244 substrate binding site [chemical binding]; other site 861208011245 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 861208011246 M28 Zn-Peptidases; Region: M28_like_3; cd05644 861208011247 active site 861208011248 metal binding site [ion binding]; metal-binding site 861208011249 Cupin domain; Region: Cupin_2; cl09118 861208011250 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 861208011251 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; cl16911 861208011252 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 861208011253 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 861208011254 substrate binding site; other site 861208011255 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 861208011256 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 861208011257 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 861208011258 DNA binding residues [nucleotide binding] 861208011259 dimerization interface [polypeptide binding]; other site 861208011260 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 861208011261 Chain length determinant protein; Region: Wzz; cl15801 861208011262 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 861208011263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208011264 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 861208011265 SLBB domain; Region: SLBB; pfam10531 861208011266 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 861208011267 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 861208011268 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 861208011269 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 861208011270 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 861208011271 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 861208011272 NADP binding site [chemical binding]; other site 861208011273 active site 861208011274 putative substrate binding site [chemical binding]; other site 861208011275 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 861208011276 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 861208011277 NADP-binding site; other site 861208011278 homotetramer interface [polypeptide binding]; other site 861208011279 substrate binding site [chemical binding]; other site 861208011280 homodimer interface [polypeptide binding]; other site 861208011281 active site 861208011282 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 861208011283 S-adenosylmethionine binding site [chemical binding]; other site 861208011284 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208011285 Helix-turn-helix domains; Region: HTH; cl00088 861208011286 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 861208011287 putative effector binding pocket; other site 861208011288 putative dimerization interface [polypeptide binding]; other site 861208011289 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 861208011290 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 861208011291 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 861208011292 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 861208011293 putative substrate translocation pore; other site 861208011294 Cyclophilin-like; Region: Cyclophil_like; cl00950 861208011295 Low affinity iron permease; Region: Iron_permease; cl12096 861208011296 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 861208011297 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208011298 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 861208011299 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 861208011300 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208011301 metal binding site [ion binding]; metal-binding site 861208011302 active site 861208011303 I-site; other site 861208011304 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 861208011305 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 861208011306 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 861208011307 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 861208011308 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 861208011309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011310 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 861208011311 Domain interface; other site 861208011312 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 861208011313 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 861208011314 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 861208011315 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 861208011316 N- and C-terminal domain interface [polypeptide binding]; other site 861208011317 active site 861208011318 MgATP binding site [chemical binding]; other site 861208011319 catalytic site [active] 861208011320 metal binding site [ion binding]; metal-binding site 861208011321 carbohydrate binding site [chemical binding]; other site 861208011322 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 861208011323 Predicted dehydrogenase [General function prediction only]; Region: COG0579 861208011324 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 861208011325 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 861208011326 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 861208011327 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 861208011328 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 861208011329 dimer interface [polypeptide binding]; other site 861208011330 conserved gate region; other site 861208011331 putative PBP binding loops; other site 861208011332 ABC-ATPase subunit interface; other site 861208011333 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208011334 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 861208011335 putative PBP binding loops; other site 861208011336 dimer interface [polypeptide binding]; other site 861208011337 ABC-ATPase subunit interface; other site 861208011338 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208011339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208011340 Walker A/P-loop; other site 861208011341 ATP binding site [chemical binding]; other site 861208011342 Q-loop/lid; other site 861208011343 ABC transporter signature motif; other site 861208011344 Walker B; other site 861208011345 D-loop; other site 861208011346 H-loop/switch region; other site 861208011347 TOBE domain; Region: TOBE_2; cl01440 861208011348 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 861208011349 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 861208011350 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 861208011351 Predicted amidohydrolase [General function prediction only]; Region: COG0388 861208011352 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 861208011353 putative active site [active] 861208011354 catalytic triad [active] 861208011355 dimer interface [polypeptide binding]; other site 861208011356 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208011357 Helix-turn-helix domains; Region: HTH; cl00088 861208011358 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 861208011359 dimerization interface [polypeptide binding]; other site 861208011360 Cupin domain; Region: Cupin_2; cl09118 861208011361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011362 FAD dependent oxidoreductase; Region: DAO; pfam01266 861208011363 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208011364 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 861208011365 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 861208011366 dimer interface [polypeptide binding]; other site 861208011367 conserved gate region; other site 861208011368 putative PBP binding loops; other site 861208011369 ABC-ATPase subunit interface; other site 861208011370 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208011371 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 861208011372 dimer interface [polypeptide binding]; other site 861208011373 conserved gate region; other site 861208011374 putative PBP binding loops; other site 861208011375 ABC-ATPase subunit interface; other site 861208011376 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 861208011377 peptide binding site [polypeptide binding]; other site 861208011378 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208011379 dimer interface [polypeptide binding]; other site 861208011380 FAD dependent oxidoreductase; Region: DAO; pfam01266 861208011381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011382 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 861208011383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011384 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208011385 HetN oxidoreductase-like, classical (c) SDR; Region: HetN_like_SDR_c; cd08932 861208011386 putative NAD(P) binding site [chemical binding]; other site 861208011387 active site 861208011388 Helix-turn-helix domains; Region: HTH; cl00088 861208011389 transcriptional regulator SlyA; Provisional; Region: PRK03573 861208011390 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208011391 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 861208011392 Walker A/P-loop; other site 861208011393 ATP binding site [chemical binding]; other site 861208011394 Q-loop/lid; other site 861208011395 ABC transporter signature motif; other site 861208011396 Walker B; other site 861208011397 D-loop; other site 861208011398 H-loop/switch region; other site 861208011399 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208011400 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 861208011401 Walker A/P-loop; other site 861208011402 ATP binding site [chemical binding]; other site 861208011403 Q-loop/lid; other site 861208011404 ABC transporter signature motif; other site 861208011405 Walker B; other site 861208011406 D-loop; other site 861208011407 H-loop/switch region; other site 861208011408 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208011409 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208011410 Helix-turn-helix domains; Region: HTH; cl00088 861208011411 AsnC family; Region: AsnC_trans_reg; pfam01037 861208011412 methionine gamma-lyase; Validated; Region: PRK07049 861208011413 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 861208011414 homodimer interface [polypeptide binding]; other site 861208011415 substrate-cofactor binding pocket; other site 861208011416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208011417 catalytic residue [active] 861208011418 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 861208011419 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 861208011420 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 861208011421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208011422 Helix-turn-helix domains; Region: HTH; cl00088 861208011423 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 861208011424 putative effector binding pocket; other site 861208011425 putative dimerization interface [polypeptide binding]; other site 861208011426 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208011427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011428 NAD(P) binding site [chemical binding]; other site 861208011429 active site 861208011430 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208011431 Helix-turn-helix domains; Region: HTH; cl00088 861208011432 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 861208011433 dimerization interface [polypeptide binding]; other site 861208011434 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 861208011435 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208011436 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208011437 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 861208011438 dimer interface [polypeptide binding]; other site 861208011439 conserved gate region; other site 861208011440 putative PBP binding loops; other site 861208011441 ABC-ATPase subunit interface; other site 861208011442 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 861208011443 dimer interface [polypeptide binding]; other site 861208011444 conserved gate region; other site 861208011445 putative PBP binding loops; other site 861208011446 ABC-ATPase subunit interface; other site 861208011447 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208011448 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 861208011449 Walker A/P-loop; other site 861208011450 ATP binding site [chemical binding]; other site 861208011451 Q-loop/lid; other site 861208011452 ABC transporter signature motif; other site 861208011453 Walker B; other site 861208011454 D-loop; other site 861208011455 H-loop/switch region; other site 861208011456 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 861208011457 Walker A/P-loop; other site 861208011458 ATP binding site [chemical binding]; other site 861208011459 Q-loop/lid; other site 861208011460 ABC transporter signature motif; other site 861208011461 Walker B; other site 861208011462 D-loop; other site 861208011463 H-loop/switch region; other site 861208011464 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208011465 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 861208011466 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 861208011467 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 861208011468 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 861208011469 putative active site [active] 861208011470 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 861208011471 DNA-binding site [nucleotide binding]; DNA binding site 861208011472 RNA-binding motif; other site 861208011473 Response regulator receiver domain; Region: Response_reg; pfam00072 861208011474 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 861208011475 active site 861208011476 phosphorylation site [posttranslational modification] 861208011477 intermolecular recognition site; other site 861208011478 dimerization interface [polypeptide binding]; other site 861208011479 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 861208011480 Histidine kinase; Region: HisKA_2; cl06527 861208011481 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 861208011482 ATP binding site [chemical binding]; other site 861208011483 Mg2+ binding site [ion binding]; other site 861208011484 G-X-G motif; other site 861208011485 Response regulator receiver domain; Region: Response_reg; pfam00072 861208011486 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 861208011487 active site 861208011488 phosphorylation site [posttranslational modification] 861208011489 intermolecular recognition site; other site 861208011490 dimerization interface [polypeptide binding]; other site 861208011491 CHASE3 domain; Region: CHASE3; cl05000 861208011492 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 861208011493 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 861208011494 dimer interface [polypeptide binding]; other site 861208011495 phosphorylation site [posttranslational modification] 861208011496 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 861208011497 ATP binding site [chemical binding]; other site 861208011498 Mg2+ binding site [ion binding]; other site 861208011499 G-X-G motif; other site 861208011500 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 861208011501 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 861208011502 Walker A/P-loop; other site 861208011503 ATP binding site [chemical binding]; other site 861208011504 Q-loop/lid; other site 861208011505 ABC transporter signature motif; other site 861208011506 Walker B; other site 861208011507 D-loop; other site 861208011508 H-loop/switch region; other site 861208011509 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208011510 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 861208011511 Walker A/P-loop; other site 861208011512 ATP binding site [chemical binding]; other site 861208011513 Q-loop/lid; other site 861208011514 ABC transporter signature motif; other site 861208011515 Walker B; other site 861208011516 D-loop; other site 861208011517 H-loop/switch region; other site 861208011518 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208011519 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 861208011520 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 861208011521 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208011522 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 861208011523 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 861208011524 dimer interface [polypeptide binding]; other site 861208011525 conserved gate region; other site 861208011526 putative PBP binding loops; other site 861208011527 ABC-ATPase subunit interface; other site 861208011528 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208011529 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 861208011530 dimer interface [polypeptide binding]; other site 861208011531 conserved gate region; other site 861208011532 ABC-ATPase subunit interface; other site 861208011533 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_5; cd08511 861208011534 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208011535 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208011536 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208011537 DNA-binding site [nucleotide binding]; DNA binding site 861208011538 FCD domain; Region: FCD; cl11656 861208011539 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 861208011540 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208011541 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208011542 Helix-turn-helix domains; Region: HTH; cl00088 861208011543 The C-terminal substrate domain of LysR-type transcriptional regulator AmpR that involved in control of the expression of beta-lactamase gene ampC, contains the type 2 periplasmic binding fold; Region: PBP2_AmpR; cd08488 861208011544 putative dimerization interface [polypeptide binding]; other site 861208011545 putative substrate binding pocket [chemical binding]; other site 861208011546 Chromate transporter; Region: Chromate_transp; pfam02417 861208011547 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 861208011548 Chromate transporter; Region: Chromate_transp; pfam02417 861208011549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 861208011550 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 861208011551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 861208011552 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 861208011553 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 861208011554 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 861208011555 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 861208011556 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208011557 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 861208011558 DNA binding residues [nucleotide binding] 861208011559 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 861208011560 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 861208011561 dimer interface [polypeptide binding]; other site 861208011562 conserved gate region; other site 861208011563 putative PBP binding loops; other site 861208011564 ABC-ATPase subunit interface; other site 861208011565 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 861208011566 dimer interface [polypeptide binding]; other site 861208011567 conserved gate region; other site 861208011568 putative PBP binding loops; other site 861208011569 ABC-ATPase subunit interface; other site 861208011570 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208011571 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 861208011572 TOBE domain; Region: TOBE_2; cl01440 861208011573 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208011574 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 861208011575 Walker A/P-loop; other site 861208011576 ATP binding site [chemical binding]; other site 861208011577 Q-loop/lid; other site 861208011578 ABC transporter signature motif; other site 861208011579 Walker B; other site 861208011580 D-loop; other site 861208011581 H-loop/switch region; other site 861208011582 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 861208011583 dimer interface [polypeptide binding]; other site 861208011584 conserved gate region; other site 861208011585 putative PBP binding loops; other site 861208011586 ABC-ATPase subunit interface; other site 861208011587 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208011588 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 861208011589 dimer interface [polypeptide binding]; other site 861208011590 conserved gate region; other site 861208011591 putative PBP binding loops; other site 861208011592 ABC-ATPase subunit interface; other site 861208011593 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208011594 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 861208011595 substrate binding pocket [chemical binding]; other site 861208011596 membrane-bound complex binding site; other site 861208011597 hinge residues; other site 861208011598 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208011599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208011600 DNA-binding site [nucleotide binding]; DNA binding site 861208011601 FCD domain; Region: FCD; cl11656 861208011602 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 861208011603 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 861208011604 active site 861208011605 catalytic site [active] 861208011606 substrate binding site [chemical binding]; other site 861208011607 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 861208011608 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 861208011609 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 861208011610 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 861208011611 putative NAD(P) binding site [chemical binding]; other site 861208011612 catalytic Zn binding site [ion binding]; other site 861208011613 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 861208011614 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 861208011615 Walker A motif; other site 861208011616 ATP binding site [chemical binding]; other site 861208011617 Walker B motif; other site 861208011618 arginine finger; other site 861208011619 Helix-turn-helix domains; Region: HTH; cl00088 861208011620 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 861208011621 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 861208011622 N-acetyl-D-glucosamine binding site [chemical binding]; other site 861208011623 catalytic residue [active] 861208011624 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 861208011625 PAS domain; Region: PAS_9; pfam13426 861208011626 putative active site [active] 861208011627 heme pocket [chemical binding]; other site 861208011628 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 861208011629 PAS domain; Region: PAS_9; pfam13426 861208011630 putative active site [active] 861208011631 heme pocket [chemical binding]; other site 861208011632 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208011633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208011634 dimer interface [polypeptide binding]; other site 861208011635 putative CheW interface [polypeptide binding]; other site 861208011636 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 861208011637 dimer interface [polypeptide binding]; other site 861208011638 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208011639 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 861208011640 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 861208011641 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 861208011642 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208011643 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 861208011644 dimer interface [polypeptide binding]; other site 861208011645 conserved gate region; other site 861208011646 putative PBP binding loops; other site 861208011647 ABC-ATPase subunit interface; other site 861208011648 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208011649 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 861208011650 Walker A/P-loop; other site 861208011651 ATP binding site [chemical binding]; other site 861208011652 Q-loop/lid; other site 861208011653 ABC transporter signature motif; other site 861208011654 Walker B; other site 861208011655 D-loop; other site 861208011656 H-loop/switch region; other site 861208011657 TOBE domain; Region: TOBE_2; cl01440 861208011658 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 861208011659 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 861208011660 active site 861208011661 non-prolyl cis peptide bond; other site 861208011662 NMT1/THI5 like; Region: NMT1; pfam09084 861208011663 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 861208011664 substrate binding pocket [chemical binding]; other site 861208011665 membrane-bound complex binding site; other site 861208011666 Domain of unknown function (DUF3425); Region: DUF3425; pfam11905 861208011667 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 861208011668 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 861208011669 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 861208011670 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 861208011671 Walker A/P-loop; other site 861208011672 ATP binding site [chemical binding]; other site 861208011673 Q-loop/lid; other site 861208011674 ABC transporter signature motif; other site 861208011675 Walker B; other site 861208011676 D-loop; other site 861208011677 H-loop/switch region; other site 861208011678 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208011679 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 861208011680 dimer interface [polypeptide binding]; other site 861208011681 conserved gate region; other site 861208011682 putative PBP binding loops; other site 861208011683 ABC-ATPase subunit interface; other site 861208011684 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 861208011685 dimer interface [polypeptide binding]; other site 861208011686 conserved gate region; other site 861208011687 putative PBP binding loops; other site 861208011688 ABC-ATPase subunit interface; other site 861208011689 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208011690 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 861208011691 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208011692 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 861208011693 Walker A/P-loop; other site 861208011694 ATP binding site [chemical binding]; other site 861208011695 Q-loop/lid; other site 861208011696 ABC transporter signature motif; other site 861208011697 Walker B; other site 861208011698 D-loop; other site 861208011699 H-loop/switch region; other site 861208011700 TOBE domain; Region: TOBE_2; cl01440 861208011701 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 861208011702 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 861208011703 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 861208011704 Predicted transcriptional regulator [Transcription]; Region: COG4189 861208011705 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 861208011706 dimerization interface [polypeptide binding]; other site 861208011707 putative DNA binding site [nucleotide binding]; other site 861208011708 putative Zn2+ binding site [ion binding]; other site 861208011709 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208011710 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 861208011711 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208011712 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208011713 DNA binding site [nucleotide binding] 861208011714 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 861208011715 ligand binding site [chemical binding]; other site 861208011716 dimerization interface [polypeptide binding]; other site 861208011717 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 861208011718 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 861208011719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011720 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 861208011721 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 861208011722 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208011723 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 861208011724 Walker A/P-loop; other site 861208011725 ATP binding site [chemical binding]; other site 861208011726 Q-loop/lid; other site 861208011727 ABC transporter signature motif; other site 861208011728 Walker B; other site 861208011729 D-loop; other site 861208011730 H-loop/switch region; other site 861208011731 TOBE domain; Region: TOBE_2; cl01440 861208011732 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208011733 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 861208011734 dimer interface [polypeptide binding]; other site 861208011735 conserved gate region; other site 861208011736 putative PBP binding loops; other site 861208011737 ABC-ATPase subunit interface; other site 861208011738 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 861208011739 dimer interface [polypeptide binding]; other site 861208011740 conserved gate region; other site 861208011741 putative PBP binding loops; other site 861208011742 ABC-ATPase subunit interface; other site 861208011743 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208011744 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 861208011745 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208011746 Helix-turn-helix domains; Region: HTH; cl00088 861208011747 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208011748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011749 Protein of unknown function (DUF993); Region: DUF993; pfam06187 861208011750 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208011751 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 861208011752 Metal-binding active site; metal-binding site 861208011753 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208011754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011755 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208011756 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 861208011757 DNA-binding site [nucleotide binding]; DNA binding site 861208011758 RNA-binding motif; other site 861208011759 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 861208011760 OpgC protein; Region: OpgC_C; cl00792 861208011761 Acyltransferase family; Region: Acyl_transf_3; pfam01757 861208011762 Phosphopantetheine attachment site; Region: PP-binding; cl09936 861208011763 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 861208011764 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 861208011765 Walker A/P-loop; other site 861208011766 ATP binding site [chemical binding]; other site 861208011767 Q-loop/lid; other site 861208011768 ABC transporter signature motif; other site 861208011769 Walker B; other site 861208011770 D-loop; other site 861208011771 H-loop/switch region; other site 861208011772 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 861208011773 FtsX-like permease family; Region: FtsX; cl15850 861208011774 macrolide transporter subunit MacA; Provisional; Region: PRK11578 861208011775 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 861208011776 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 861208011777 osmolarity response regulator; Provisional; Region: ompR; PRK09468 861208011778 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 861208011779 active site 861208011780 phosphorylation site [posttranslational modification] 861208011781 intermolecular recognition site; other site 861208011782 dimerization interface [polypeptide binding]; other site 861208011783 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 861208011784 DNA binding site [nucleotide binding] 861208011785 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 861208011786 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 861208011787 dimer interface [polypeptide binding]; other site 861208011788 phosphorylation site [posttranslational modification] 861208011789 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 861208011790 ATP binding site [chemical binding]; other site 861208011791 Mg2+ binding site [ion binding]; other site 861208011792 G-X-G motif; other site 861208011793 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 861208011794 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 861208011795 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 861208011796 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208011797 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 861208011798 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208011799 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 861208011800 Walker A/P-loop; other site 861208011801 ATP binding site [chemical binding]; other site 861208011802 Q-loop/lid; other site 861208011803 ABC transporter signature motif; other site 861208011804 Walker B; other site 861208011805 D-loop; other site 861208011806 H-loop/switch region; other site 861208011807 TOBE domain; Region: TOBE_2; cl01440 861208011808 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208011809 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 861208011810 dimer interface [polypeptide binding]; other site 861208011811 conserved gate region; other site 861208011812 putative PBP binding loops; other site 861208011813 ABC-ATPase subunit interface; other site 861208011814 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208011815 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 861208011816 dimer interface [polypeptide binding]; other site 861208011817 putative PBP binding loops; other site 861208011818 ABC-ATPase subunit interface; other site 861208011819 Cupin domain; Region: Cupin_2; cl09118 861208011820 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 861208011821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208011822 DctM-like transporters; Region: DctM; pfam06808 861208011823 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 861208011824 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 861208011825 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 861208011826 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 861208011827 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 861208011828 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 861208011829 active site 861208011830 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 861208011831 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 861208011832 active site pocket [active] 861208011833 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 861208011834 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 861208011835 putative active site [active] 861208011836 catalytic residue [active] 861208011837 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 861208011838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011839 NAD(P) binding site [chemical binding]; other site 861208011840 active site 861208011841 KduI/IolB family; Region: KduI; cl01508 861208011842 extended (e) SDRs; Region: SDR_e; cd08946 861208011843 NAD(P) binding site [chemical binding]; other site 861208011844 active site 861208011845 substrate binding site [chemical binding]; other site 861208011846 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208011847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208011848 DNA-binding site [nucleotide binding]; DNA binding site 861208011849 FCD domain; Region: FCD; cl11656 861208011850 Cupin domain; Region: Cupin_2; cl09118 861208011851 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 861208011852 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 861208011853 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 861208011854 active site 861208011855 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208011856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011857 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208011858 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 861208011859 active site 861208011860 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 861208011861 catalytic tetrad [active] 861208011862 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208011863 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 861208011864 Walker A/P-loop; other site 861208011865 ATP binding site [chemical binding]; other site 861208011866 Q-loop/lid; other site 861208011867 ABC transporter signature motif; other site 861208011868 Walker B; other site 861208011869 D-loop; other site 861208011870 H-loop/switch region; other site 861208011871 TOBE domain; Region: TOBE_2; cl01440 861208011872 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208011873 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 861208011874 dimer interface [polypeptide binding]; other site 861208011875 conserved gate region; other site 861208011876 putative PBP binding loops; other site 861208011877 ABC-ATPase subunit interface; other site 861208011878 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 861208011879 dimer interface [polypeptide binding]; other site 861208011880 conserved gate region; other site 861208011881 putative PBP binding loops; other site 861208011882 ABC-ATPase subunit interface; other site 861208011883 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208011884 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 861208011885 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 861208011886 Cupin domain; Region: Cupin_2; cl09118 861208011887 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208011888 Cupin domain; Region: Cupin_2; cl09118 861208011889 Helix-turn-helix domain; Region: HTH_18; pfam12833 861208011890 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 861208011891 Major Facilitator Superfamily; Region: MFS_1; pfam07690 861208011892 putative substrate translocation pore; other site 861208011893 Helix-turn-helix domains; Region: HTH; cl00088 861208011894 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 861208011895 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 861208011896 dimerization interface [polypeptide binding]; other site 861208011897 substrate binding pocket [chemical binding]; other site 861208011898 DctM-like transporters; Region: DctM; pfam06808 861208011899 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 861208011900 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 861208011901 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 861208011902 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 861208011903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011904 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 861208011905 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 861208011906 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 861208011907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011908 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 861208011909 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208011910 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208011911 DNA binding site [nucleotide binding] 861208011912 domain linker motif; other site 861208011913 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 861208011914 ligand binding site [chemical binding]; other site 861208011915 dimerization interface [polypeptide binding]; other site 861208011916 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 861208011917 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 861208011918 putative NAD(P) binding site [chemical binding]; other site 861208011919 catalytic Zn binding site [ion binding]; other site 861208011920 sorbitol dehydrogenase; Provisional; Region: PRK07067 861208011921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208011922 NAD(P) binding site [chemical binding]; other site 861208011923 active site 861208011924 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208011925 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 861208011926 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208011927 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 861208011928 substrate binding site [chemical binding]; other site 861208011929 ATP binding site [chemical binding]; other site 861208011930 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 861208011931 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 861208011932 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 861208011933 putative PBP binding loops; other site 861208011934 ABC-ATPase subunit interface; other site 861208011935 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208011936 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 861208011937 dimer interface [polypeptide binding]; other site 861208011938 conserved gate region; other site 861208011939 putative PBP binding loops; other site 861208011940 ABC-ATPase subunit interface; other site 861208011941 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208011942 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 861208011943 Walker A/P-loop; other site 861208011944 ATP binding site [chemical binding]; other site 861208011945 Q-loop/lid; other site 861208011946 ABC transporter signature motif; other site 861208011947 Walker B; other site 861208011948 D-loop; other site 861208011949 H-loop/switch region; other site 861208011950 TOBE domain; Region: TOBE_2; cl01440 861208011951 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208011952 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 861208011953 Walker A/P-loop; other site 861208011954 ATP binding site [chemical binding]; other site 861208011955 Q-loop/lid; other site 861208011956 ABC transporter signature motif; other site 861208011957 Walker B; other site 861208011958 D-loop; other site 861208011959 H-loop/switch region; other site 861208011960 TOBE domain; Region: TOBE_2; cl01440 861208011961 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208011962 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 861208011963 dimer interface [polypeptide binding]; other site 861208011964 conserved gate region; other site 861208011965 putative PBP binding loops; other site 861208011966 ABC-ATPase subunit interface; other site 861208011967 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 861208011968 dimer interface [polypeptide binding]; other site 861208011969 conserved gate region; other site 861208011970 putative PBP binding loops; other site 861208011971 ABC-ATPase subunit interface; other site 861208011972 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208011973 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 861208011974 hypothetical protein; Provisional; Region: PRK05968 861208011975 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 861208011976 homodimer interface [polypeptide binding]; other site 861208011977 substrate-cofactor binding pocket; other site 861208011978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208011979 catalytic residue [active] 861208011980 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208011981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208011982 DNA-binding site [nucleotide binding]; DNA binding site 861208011983 FCD domain; Region: FCD; cl11656 861208011984 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 861208011985 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 861208011986 metal binding site [ion binding]; metal-binding site 861208011987 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 861208011988 ABC-ATPase subunit interface; other site 861208011989 dimer interface [polypeptide binding]; other site 861208011990 putative PBP binding regions; other site 861208011991 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 861208011992 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 861208011993 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 861208011994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208011995 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 861208011996 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 861208011997 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 861208011998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208011999 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 861208012000 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 861208012001 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208012002 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 861208012003 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 861208012004 dimer interface [polypeptide binding]; other site 861208012005 conserved gate region; other site 861208012006 putative PBP binding loops; other site 861208012007 ABC-ATPase subunit interface; other site 861208012008 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208012009 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 861208012010 dimer interface [polypeptide binding]; other site 861208012011 conserved gate region; other site 861208012012 ABC-ATPase subunit interface; other site 861208012013 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208012014 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 861208012015 Walker A/P-loop; other site 861208012016 ATP binding site [chemical binding]; other site 861208012017 Q-loop/lid; other site 861208012018 ABC transporter signature motif; other site 861208012019 Walker B; other site 861208012020 D-loop; other site 861208012021 H-loop/switch region; other site 861208012022 TOBE domain; Region: TOBE_2; cl01440 861208012023 OpgC protein; Region: OpgC_C; cl00792 861208012024 Acyltransferase family; Region: Acyl_transf_3; pfam01757 861208012025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208012026 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; cl01155 861208012027 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 861208012028 putative substrate translocation pore; other site 861208012029 Major Facilitator Superfamily; Region: MFS_1; pfam07690 861208012030 Transcriptional regulators [Transcription]; Region: MarR; COG1846 861208012031 Helix-turn-helix domains; Region: HTH; cl00088 861208012032 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 861208012033 nudix motif; other site 861208012034 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 861208012035 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 861208012036 G1 box; other site 861208012037 putative GEF interaction site [polypeptide binding]; other site 861208012038 GTP/Mg2+ binding site [chemical binding]; other site 861208012039 Switch I region; other site 861208012040 G2 box; other site 861208012041 G3 box; other site 861208012042 Switch II region; other site 861208012043 G4 box; other site 861208012044 G5 box; other site 861208012045 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 861208012046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012047 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 861208012048 nudix motif; other site 861208012049 Predicted kinase [General function prediction only]; Region: COG0645 861208012050 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208012051 P-loop motif; other site 861208012052 ATP binding site [chemical binding]; other site 861208012053 Chloramphenicol (Cm) binding site [chemical binding]; other site 861208012054 catalytic residue [active] 861208012055 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 861208012056 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208012057 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 861208012058 S-adenosylmethionine binding site [chemical binding]; other site 861208012059 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208012060 Coenzyme A binding pocket [chemical binding]; other site 861208012061 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 861208012062 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 861208012063 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 861208012064 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 861208012065 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 861208012066 Dimer interface [polypeptide binding]; other site 861208012067 anticodon binding site; other site 861208012068 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 861208012069 motif 1; other site 861208012070 dimer interface [polypeptide binding]; other site 861208012071 active site 861208012072 motif 2; other site 861208012073 motif 3; other site 861208012074 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 861208012075 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 861208012076 Bacterial SH3 domain; Region: SH3_3; cl02551 861208012077 Helix-turn-helix domains; Region: HTH; cl00088 861208012078 Predicted acetyltransferase [General function prediction only]; Region: COG3153 861208012079 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208012080 Coenzyme A binding pocket [chemical binding]; other site 861208012081 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 861208012082 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 861208012083 dimer interface [polypeptide binding]; other site 861208012084 active site 861208012085 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 861208012086 catalytic residues [active] 861208012087 substrate binding site [chemical binding]; other site 861208012088 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208012089 Helix-turn-helix domains; Region: HTH; cl00088 861208012090 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208012091 putative effector binding pocket; other site 861208012092 dimerization interface [polypeptide binding]; other site 861208012093 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 861208012094 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 861208012095 putative ligand binding site [chemical binding]; other site 861208012096 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 861208012097 TM-ABC transporter signature motif; other site 861208012098 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208012099 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 861208012100 Walker A/P-loop; other site 861208012101 ATP binding site [chemical binding]; other site 861208012102 Q-loop/lid; other site 861208012103 ABC transporter signature motif; other site 861208012104 Walker B; other site 861208012105 D-loop; other site 861208012106 H-loop/switch region; other site 861208012107 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 861208012108 PAS domain; Region: PAS_9; pfam13426 861208012109 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 861208012110 PAS domain; Region: PAS_9; pfam13426 861208012111 putative active site [active] 861208012112 heme pocket [chemical binding]; other site 861208012113 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208012114 metal binding site [ion binding]; metal-binding site 861208012115 active site 861208012116 I-site; other site 861208012117 hypothetical protein; Provisional; Region: PRK11171 861208012118 Cupin domain; Region: Cupin_2; cl09118 861208012119 Cupin domain; Region: Cupin_2; cl09118 861208012120 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; cl16911 861208012121 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208012122 metal binding site [ion binding]; metal-binding site 861208012123 active site 861208012124 I-site; other site 861208012125 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 861208012126 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 861208012127 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 861208012128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208012129 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 861208012130 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 861208012131 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208012132 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208012133 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 861208012134 dimer interface [polypeptide binding]; other site 861208012135 conserved gate region; other site 861208012136 putative PBP binding loops; other site 861208012137 ABC-ATPase subunit interface; other site 861208012138 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 861208012139 dimer interface [polypeptide binding]; other site 861208012140 conserved gate region; other site 861208012141 putative PBP binding loops; other site 861208012142 ABC-ATPase subunit interface; other site 861208012143 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 861208012144 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208012145 Walker A/P-loop; other site 861208012146 ATP binding site [chemical binding]; other site 861208012147 Q-loop/lid; other site 861208012148 ABC transporter signature motif; other site 861208012149 Walker B; other site 861208012150 D-loop; other site 861208012151 H-loop/switch region; other site 861208012152 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208012153 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208012154 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 861208012155 Walker A/P-loop; other site 861208012156 ATP binding site [chemical binding]; other site 861208012157 Q-loop/lid; other site 861208012158 ABC transporter signature motif; other site 861208012159 Walker B; other site 861208012160 D-loop; other site 861208012161 H-loop/switch region; other site 861208012162 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 861208012163 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208012164 catalytic residue [active] 861208012165 Dehydratase family; Region: ILVD_EDD; cl00340 861208012166 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 861208012167 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208012168 putative ligand binding site [chemical binding]; other site 861208012169 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208012170 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 861208012171 Walker A/P-loop; other site 861208012172 ATP binding site [chemical binding]; other site 861208012173 Q-loop/lid; other site 861208012174 ABC transporter signature motif; other site 861208012175 Walker B; other site 861208012176 D-loop; other site 861208012177 H-loop/switch region; other site 861208012178 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 861208012179 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 861208012180 TM-ABC transporter signature motif; other site 861208012181 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 861208012182 TM-ABC transporter signature motif; other site 861208012183 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208012184 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208012185 DNA-binding site [nucleotide binding]; DNA binding site 861208012186 FCD domain; Region: FCD; cl11656 861208012187 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 861208012188 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 861208012189 putative substrate translocation pore; other site 861208012190 Cupin domain; Region: Cupin_2; cl09118 861208012191 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 861208012192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208012193 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208012194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208012195 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 861208012196 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 861208012197 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 861208012198 generic binding surface I; other site 861208012199 generic binding surface II; other site 861208012200 DNA Polymerase Y-family; Region: PolY_like; cd03468 861208012201 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 861208012202 DNA binding site [nucleotide binding] 861208012203 Cell division inhibitor SulA; Region: SulA; cl01880 861208012204 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 861208012205 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 861208012206 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 861208012207 MOFRL family; Region: MOFRL; pfam05161 861208012208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012209 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208012210 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208012211 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208012212 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 861208012213 AP (apurinic/apyrimidinic) site pocket; other site 861208012214 DNA interaction; other site 861208012215 Metal-binding active site; metal-binding site 861208012216 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 861208012217 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208012218 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 861208012219 Walker A/P-loop; other site 861208012220 ATP binding site [chemical binding]; other site 861208012221 Q-loop/lid; other site 861208012222 ABC transporter signature motif; other site 861208012223 Walker B; other site 861208012224 D-loop; other site 861208012225 H-loop/switch region; other site 861208012226 TOBE domain; Region: TOBE_2; cl01440 861208012227 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 861208012228 dimer interface [polypeptide binding]; other site 861208012229 conserved gate region; other site 861208012230 putative PBP binding loops; other site 861208012231 ABC-ATPase subunit interface; other site 861208012232 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 861208012233 dimer interface [polypeptide binding]; other site 861208012234 conserved gate region; other site 861208012235 putative PBP binding loops; other site 861208012236 ABC-ATPase subunit interface; other site 861208012237 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208012238 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 861208012239 Helix-turn-helix domains; Region: HTH; cl00088 861208012240 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 861208012241 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208012242 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208012243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012244 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 861208012245 hypothetical protein; Provisional; Region: PRK06102 861208012246 Amidase; Region: Amidase; cl11426 861208012247 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 861208012248 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208012249 metal binding site [ion binding]; metal-binding site 861208012250 active site 861208012251 I-site; other site 861208012252 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 861208012253 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 861208012254 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 861208012255 substrate binding pocket [chemical binding]; other site 861208012256 membrane-bound complex binding site; other site 861208012257 hinge residues; other site 861208012258 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 861208012259 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 861208012260 substrate binding pocket [chemical binding]; other site 861208012261 membrane-bound complex binding site; other site 861208012262 hinge residues; other site 861208012263 Septum formation topological specificity factor MinE; Region: MinE; cl00538 861208012264 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 861208012265 Switch I; other site 861208012266 Switch II; other site 861208012267 septum formation inhibitor; Reviewed; Region: minC; PRK05177 861208012268 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 861208012269 putative phosphatase; Provisional; Region: PRK11587 861208012270 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 861208012271 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208012272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208012273 DNA-binding site [nucleotide binding]; DNA binding site 861208012274 FCD domain; Region: FCD; cl11656 861208012275 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 861208012276 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 861208012277 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 861208012278 DctM-like transporters; Region: DctM; pfam06808 861208012279 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 861208012280 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 861208012281 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 861208012282 putative NAD(P) binding site [chemical binding]; other site 861208012283 catalytic Zn binding site [ion binding]; other site 861208012284 mannonate dehydratase; Provisional; Region: PRK03906 861208012285 mannonate dehydratase; Region: uxuA; TIGR00695 861208012286 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208012287 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 861208012288 dimer interface [polypeptide binding]; other site 861208012289 NADP binding site [chemical binding]; other site 861208012290 catalytic residues [active] 861208012291 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 861208012292 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 861208012293 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 861208012294 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 861208012295 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 861208012296 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 861208012297 dimer interface [polypeptide binding]; other site 861208012298 non-prolyl cis peptide bond; other site 861208012299 active site 861208012300 insertion regions; other site 861208012301 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 861208012302 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 861208012303 membrane-bound complex binding site; other site 861208012304 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 861208012305 dimerization interface [polypeptide binding]; other site 861208012306 putative DNA binding site [nucleotide binding]; other site 861208012307 putative Zn2+ binding site [ion binding]; other site 861208012308 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 861208012309 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 861208012310 C-terminal domain interface [polypeptide binding]; other site 861208012311 GSH binding site (G-site) [chemical binding]; other site 861208012312 dimer interface [polypeptide binding]; other site 861208012313 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 861208012314 N-terminal domain interface [polypeptide binding]; other site 861208012315 dimer interface [polypeptide binding]; other site 861208012316 substrate binding pocket (H-site) [chemical binding]; other site 861208012317 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 861208012318 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 861208012319 Walker A/P-loop; other site 861208012320 ATP binding site [chemical binding]; other site 861208012321 Q-loop/lid; other site 861208012322 ABC transporter signature motif; other site 861208012323 Walker B; other site 861208012324 D-loop; other site 861208012325 H-loop/switch region; other site 861208012326 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208012327 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 861208012328 Walker A/P-loop; other site 861208012329 ATP binding site [chemical binding]; other site 861208012330 Q-loop/lid; other site 861208012331 ABC transporter signature motif; other site 861208012332 Walker B; other site 861208012333 D-loop; other site 861208012334 H-loop/switch region; other site 861208012335 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208012336 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 861208012337 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208012338 catalytic residue [active] 861208012339 Transcriptional regulator [Transcription]; Region: IclR; COG1414 861208012340 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208012341 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 861208012342 homotrimer interaction site [polypeptide binding]; other site 861208012343 putative active site [active] 861208012344 Predicted amidohydrolase [General function prediction only]; Region: COG3964 861208012345 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 861208012346 active site 861208012347 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 861208012348 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 861208012349 putative PBP binding loops; other site 861208012350 dimer interface [polypeptide binding]; other site 861208012351 ABC-ATPase subunit interface; other site 861208012352 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208012353 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 861208012354 dimer interface [polypeptide binding]; other site 861208012355 conserved gate region; other site 861208012356 putative PBP binding loops; other site 861208012357 ABC-ATPase subunit interface; other site 861208012358 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 861208012359 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208012360 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208012361 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 861208012362 putative ADP-binding pocket [chemical binding]; other site 861208012363 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 861208012364 non-specific DNA binding site [nucleotide binding]; other site 861208012365 salt bridge; other site 861208012366 sequence-specific DNA binding site [nucleotide binding]; other site 861208012367 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 861208012368 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 861208012369 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 861208012370 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 861208012371 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 861208012372 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 861208012373 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 861208012374 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 861208012375 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 861208012376 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; cl01155 861208012377 Flavin Reductases; Region: FlaRed; cl00801 861208012378 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 861208012379 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 861208012380 active site 861208012381 catalytic tetrad [active] 861208012382 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 861208012383 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 861208012384 active site 861208012385 dimer interface [polypeptide binding]; other site 861208012386 non-prolyl cis peptide bond; other site 861208012387 insertion regions; other site 861208012388 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 861208012389 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208012390 DNA-binding site [nucleotide binding]; DNA binding site 861208012391 UTRA domain; Region: UTRA; cl01230 861208012392 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208012393 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 861208012394 Walker A/P-loop; other site 861208012395 ATP binding site [chemical binding]; other site 861208012396 Q-loop/lid; other site 861208012397 ABC transporter signature motif; other site 861208012398 Walker B; other site 861208012399 D-loop; other site 861208012400 H-loop/switch region; other site 861208012401 TOBE domain; Region: TOBE_2; cl01440 861208012402 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208012403 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 861208012404 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 861208012405 dimer interface [polypeptide binding]; other site 861208012406 conserved gate region; other site 861208012407 putative PBP binding loops; other site 861208012408 ABC-ATPase subunit interface; other site 861208012409 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208012410 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 861208012411 dimer interface [polypeptide binding]; other site 861208012412 conserved gate region; other site 861208012413 putative PBP binding loops; other site 861208012414 ABC-ATPase subunit interface; other site 861208012415 alpha-glucosidase; Provisional; Region: PRK10426 861208012416 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 861208012417 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 861208012418 putative active site [active] 861208012419 putative catalytic site [active] 861208012420 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 861208012421 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 861208012422 dimer interface [polypeptide binding]; other site 861208012423 conserved gate region; other site 861208012424 putative PBP binding loops; other site 861208012425 ABC-ATPase subunit interface; other site 861208012426 NMT1/THI5 like; Region: NMT1; pfam09084 861208012427 NMT1-like family; Region: NMT1_2; cl15260 861208012428 NMT1-like family; Region: NMT1_2; cl15260 861208012429 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 861208012430 substrate binding site [chemical binding]; other site 861208012431 multimerization interface [polypeptide binding]; other site 861208012432 ATP binding site [chemical binding]; other site 861208012433 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 861208012434 active site 861208012435 thiamine phosphate binding site [chemical binding]; other site 861208012436 pyrophosphate binding site [ion binding]; other site 861208012437 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 861208012438 dimer interface [polypeptide binding]; other site 861208012439 substrate binding site [chemical binding]; other site 861208012440 ATP binding site [chemical binding]; other site 861208012441 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208012442 Helix-turn-helix domains; Region: HTH; cl00088 861208012443 AsnC family; Region: AsnC_trans_reg; pfam01037 861208012444 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 861208012445 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 861208012446 active site 861208012447 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 861208012448 dimer interface [polypeptide binding]; other site 861208012449 substrate binding site [chemical binding]; other site 861208012450 catalytic residues [active] 861208012451 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 861208012452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012454 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208012455 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208012456 DNA-binding site [nucleotide binding]; DNA binding site 861208012457 FCD domain; Region: FCD; cl11656 861208012458 BA14K-like protein; Region: BA14K; pfam07886 861208012459 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 861208012460 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 861208012461 active site 861208012462 phosphorylation site [posttranslational modification] 861208012463 intermolecular recognition site; other site 861208012464 dimerization interface [polypeptide binding]; other site 861208012465 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 861208012466 Walker A motif; other site 861208012467 ATP binding site [chemical binding]; other site 861208012468 Walker B motif; other site 861208012469 arginine finger; other site 861208012470 Helix-turn-helix domains; Region: HTH; cl00088 861208012471 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 861208012472 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 861208012473 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 861208012474 ATP binding site [chemical binding]; other site 861208012475 Mg2+ binding site [ion binding]; other site 861208012476 G-X-G motif; other site 861208012477 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 861208012478 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 861208012479 EamA-like transporter family; Region: EamA; cl01037 861208012480 aminotransferase; Provisional; Region: PRK06105 861208012481 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 861208012482 inhibitor-cofactor binding pocket; inhibition site 861208012483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208012484 catalytic residue [active] 861208012485 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208012486 classical (c) SDRs; Region: SDR_c; cd05233 861208012487 NAD(P) binding site [chemical binding]; other site 861208012488 active site 861208012489 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 861208012490 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208012491 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 861208012492 binding surface 861208012493 TPR motif; other site 861208012494 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 861208012495 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 861208012496 metal binding site [ion binding]; metal-binding site 861208012497 putative dimer interface [polypeptide binding]; other site 861208012498 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 861208012499 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 861208012500 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 861208012501 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 861208012502 DXD motif; other site 861208012503 PilZ domain; Region: PilZ; cl01260 861208012504 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 861208012505 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; cd00249 861208012506 dimerization interface [polypeptide binding]; other site 861208012507 putative active cleft [active] 861208012508 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 861208012509 Protein of unknown function (DUF995); Region: DUF995; pfam06191 861208012510 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 861208012511 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 861208012512 active site 861208012513 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 861208012514 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 861208012515 NAD binding site [chemical binding]; other site 861208012516 homodimer interface [polypeptide binding]; other site 861208012517 active site 861208012518 substrate binding site [chemical binding]; other site 861208012519 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 861208012520 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 861208012521 NAD binding site [chemical binding]; other site 861208012522 putative substrate binding site 2 [chemical binding]; other site 861208012523 putative substrate binding site 1 [chemical binding]; other site 861208012524 active site 861208012525 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 861208012526 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 861208012527 DNA binding residues [nucleotide binding] 861208012528 dimerization interface [polypeptide binding]; other site 861208012529 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 861208012530 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 861208012531 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208012532 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 861208012533 Walker A/P-loop; other site 861208012534 ATP binding site [chemical binding]; other site 861208012535 Q-loop/lid; other site 861208012536 ABC transporter signature motif; other site 861208012537 Walker B; other site 861208012538 D-loop; other site 861208012539 H-loop/switch region; other site 861208012540 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 861208012541 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 861208012542 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 861208012543 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 861208012544 O-Antigen ligase; Region: Wzy_C; cl04850 861208012545 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 861208012546 Bacterial sugar transferase; Region: Bac_transf; cl00939 861208012547 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 861208012548 sequence-specific DNA binding site [nucleotide binding]; other site 861208012549 salt bridge; other site 861208012550 Cupin domain; Region: Cupin_2; cl09118 861208012551 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 861208012552 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 861208012553 inhibitor-cofactor binding pocket; inhibition site 861208012554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208012555 catalytic residue [active] 861208012556 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 861208012557 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208012558 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208012559 dimer interface [polypeptide binding]; other site 861208012560 putative CheW interface [polypeptide binding]; other site 861208012561 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 861208012562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 861208012563 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208012564 classical (c) SDRs; Region: SDR_c; cd05233 861208012565 NAD(P) binding site [chemical binding]; other site 861208012566 active site 861208012567 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 861208012568 active site 861208012569 DNA binding site [nucleotide binding] 861208012570 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208012571 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208012572 DNA binding site [nucleotide binding] 861208012573 domain linker motif; other site 861208012574 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 861208012575 ligand binding site [chemical binding]; other site 861208012576 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 861208012577 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208012578 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208012579 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 861208012580 dimer interface [polypeptide binding]; other site 861208012581 conserved gate region; other site 861208012582 putative PBP binding loops; other site 861208012583 ABC-ATPase subunit interface; other site 861208012584 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208012585 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 861208012586 dimer interface [polypeptide binding]; other site 861208012587 conserved gate region; other site 861208012588 putative PBP binding loops; other site 861208012589 ABC-ATPase subunit interface; other site 861208012590 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208012591 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 861208012592 Walker A/P-loop; other site 861208012593 ATP binding site [chemical binding]; other site 861208012594 Q-loop/lid; other site 861208012595 ABC transporter signature motif; other site 861208012596 Walker B; other site 861208012597 D-loop; other site 861208012598 H-loop/switch region; other site 861208012599 TOBE domain; Region: TOBE_2; cl01440 861208012600 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 861208012601 conserved cys residue [active] 861208012602 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208012603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012604 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208012605 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 861208012606 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 861208012607 active site 861208012608 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 861208012609 Ligand Binding Site [chemical binding]; other site 861208012610 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208012611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012612 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208012613 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208012614 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 861208012615 Walker A/P-loop; other site 861208012616 ATP binding site [chemical binding]; other site 861208012617 Q-loop/lid; other site 861208012618 ABC transporter signature motif; other site 861208012619 Walker B; other site 861208012620 D-loop; other site 861208012621 H-loop/switch region; other site 861208012622 TOBE domain; Region: TOBE_2; cl01440 861208012623 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208012624 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 861208012625 dimer interface [polypeptide binding]; other site 861208012626 conserved gate region; other site 861208012627 putative PBP binding loops; other site 861208012628 ABC-ATPase subunit interface; other site 861208012629 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208012630 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 861208012631 dimer interface [polypeptide binding]; other site 861208012632 conserved gate region; other site 861208012633 putative PBP binding loops; other site 861208012634 ABC-ATPase subunit interface; other site 861208012635 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208012636 CAAX protease self-immunity; Region: Abi; cl00558 861208012637 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 861208012638 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 861208012639 Substrate binding site; other site 861208012640 Cupin domain; Region: Cupin_2; cl09118 861208012641 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 861208012642 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 861208012643 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 861208012644 Trp docking motif [polypeptide binding]; other site 861208012645 putative active site [active] 861208012646 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 861208012647 Helix-turn-helix domains; Region: HTH; cl00088 861208012648 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 861208012649 dimerization interface [polypeptide binding]; other site 861208012650 substrate binding pocket [chemical binding]; other site 861208012651 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 861208012652 Malic enzyme, N-terminal domain; Region: malic; pfam00390 861208012653 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 861208012654 putative NAD(P) binding site [chemical binding]; other site 861208012655 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 861208012656 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 861208012657 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208012658 substrate binding pocket [chemical binding]; other site 861208012659 membrane-bound complex binding site; other site 861208012660 hinge residues; other site 861208012661 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208012662 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 861208012663 dimer interface [polypeptide binding]; other site 861208012664 conserved gate region; other site 861208012665 putative PBP binding loops; other site 861208012666 ABC-ATPase subunit interface; other site 861208012667 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 861208012668 dimer interface [polypeptide binding]; other site 861208012669 conserved gate region; other site 861208012670 putative PBP binding loops; other site 861208012671 ABC-ATPase subunit interface; other site 861208012672 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208012673 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 861208012674 Walker A/P-loop; other site 861208012675 ATP binding site [chemical binding]; other site 861208012676 Q-loop/lid; other site 861208012677 ABC transporter signature motif; other site 861208012678 Walker B; other site 861208012679 D-loop; other site 861208012680 H-loop/switch region; other site 861208012681 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 861208012682 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 861208012683 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 861208012684 active site 861208012685 non-prolyl cis peptide bond; other site 861208012686 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 861208012687 PAS domain; Region: PAS_9; pfam13426 861208012688 putative active site [active] 861208012689 heme pocket [chemical binding]; other site 861208012690 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 861208012691 PAS domain; Region: PAS_9; pfam13426 861208012692 putative active site [active] 861208012693 heme pocket [chemical binding]; other site 861208012694 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208012695 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208012696 dimer interface [polypeptide binding]; other site 861208012697 putative CheW interface [polypeptide binding]; other site 861208012698 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208012699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012700 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 861208012701 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 861208012702 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 861208012703 DctM-like transporters; Region: DctM; pfam06808 861208012704 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 861208012705 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 861208012706 Peptidase C26; Region: Peptidase_C26; pfam07722 861208012707 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 861208012708 catalytic triad [active] 861208012709 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 861208012710 TM-ABC transporter signature motif; other site 861208012711 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208012712 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 861208012713 Walker A/P-loop; other site 861208012714 ATP binding site [chemical binding]; other site 861208012715 Q-loop/lid; other site 861208012716 ABC transporter signature motif; other site 861208012717 Walker B; other site 861208012718 D-loop; other site 861208012719 H-loop/switch region; other site 861208012720 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 861208012721 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 861208012722 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 861208012723 putative ligand binding site [chemical binding]; other site 861208012724 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 861208012725 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 861208012726 putative metal binding site [ion binding]; other site 861208012727 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 861208012728 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208012729 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208012730 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208012731 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 861208012732 Walker A/P-loop; other site 861208012733 ATP binding site [chemical binding]; other site 861208012734 Q-loop/lid; other site 861208012735 ABC transporter signature motif; other site 861208012736 Walker B; other site 861208012737 D-loop; other site 861208012738 H-loop/switch region; other site 861208012739 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208012740 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 861208012741 Walker A/P-loop; other site 861208012742 ATP binding site [chemical binding]; other site 861208012743 Q-loop/lid; other site 861208012744 ABC transporter signature motif; other site 861208012745 Walker B; other site 861208012746 D-loop; other site 861208012747 H-loop/switch region; other site 861208012748 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208012749 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 861208012750 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 861208012751 dimer interface [polypeptide binding]; other site 861208012752 conserved gate region; other site 861208012753 putative PBP binding loops; other site 861208012754 ABC-ATPase subunit interface; other site 861208012755 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208012756 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 861208012757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208012758 Helix-turn-helix domains; Region: HTH; cl00088 861208012759 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 861208012760 putative dimerization interface [polypeptide binding]; other site 861208012761 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 861208012762 catalytic nucleophile [active] 861208012763 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 861208012764 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 861208012765 Uncharacterized conserved protein [Function unknown]; Region: COG3535 861208012766 Protein of unknown function (DUF917); Region: DUF917; pfam06032 861208012767 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 861208012768 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208012769 Uncharacterized conserved protein [Function unknown]; Region: COG3535 861208012770 Protein of unknown function (DUF917); Region: DUF917; pfam06032 861208012771 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 861208012772 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 861208012773 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208012774 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 861208012775 Walker A/P-loop; other site 861208012776 ATP binding site [chemical binding]; other site 861208012777 Q-loop/lid; other site 861208012778 ABC transporter signature motif; other site 861208012779 Walker B; other site 861208012780 D-loop; other site 861208012781 H-loop/switch region; other site 861208012782 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208012783 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 861208012784 Walker A/P-loop; other site 861208012785 ATP binding site [chemical binding]; other site 861208012786 Q-loop/lid; other site 861208012787 ABC transporter signature motif; other site 861208012788 Walker B; other site 861208012789 D-loop; other site 861208012790 H-loop/switch region; other site 861208012791 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208012792 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208012793 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 861208012794 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 861208012795 dimer interface [polypeptide binding]; other site 861208012796 conserved gate region; other site 861208012797 putative PBP binding loops; other site 861208012798 ABC-ATPase subunit interface; other site 861208012799 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208012800 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 861208012801 dimer interface [polypeptide binding]; other site 861208012802 conserved gate region; other site 861208012803 putative PBP binding loops; other site 861208012804 ABC-ATPase subunit interface; other site 861208012805 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 861208012806 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 861208012807 DNA binding residues [nucleotide binding] 861208012808 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 861208012809 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 861208012810 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 861208012811 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 861208012812 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208012813 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 861208012814 Walker A/P-loop; other site 861208012815 ATP binding site [chemical binding]; other site 861208012816 Q-loop/lid; other site 861208012817 ABC transporter signature motif; other site 861208012818 Walker B; other site 861208012819 D-loop; other site 861208012820 H-loop/switch region; other site 861208012821 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 861208012822 Secretin and TonB N terminus short domain; Region: STN; cl06624 861208012823 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 861208012824 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; cl01155 861208012825 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; cl01155 861208012826 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 861208012827 FecR protein; Region: FecR; pfam04773 861208012828 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 861208012829 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208012830 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208012831 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 861208012832 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 861208012833 Walker A/P-loop; other site 861208012834 ATP binding site [chemical binding]; other site 861208012835 Q-loop/lid; other site 861208012836 ABC transporter signature motif; other site 861208012837 Walker B; other site 861208012838 D-loop; other site 861208012839 H-loop/switch region; other site 861208012840 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 861208012841 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 861208012842 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 861208012843 ABC-ATPase subunit interface; other site 861208012844 dimer interface [polypeptide binding]; other site 861208012845 putative PBP binding regions; other site 861208012846 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 861208012847 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 861208012848 putative ligand binding residues [chemical binding]; other site 861208012849 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 861208012850 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 861208012851 putative ligand binding residues [chemical binding]; other site 861208012852 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 861208012853 S-adenosylmethionine binding site [chemical binding]; other site 861208012854 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 861208012855 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 861208012856 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 861208012857 Walker A/P-loop; other site 861208012858 ATP binding site [chemical binding]; other site 861208012859 Q-loop/lid; other site 861208012860 ABC transporter signature motif; other site 861208012861 Walker B; other site 861208012862 D-loop; other site 861208012863 H-loop/switch region; other site 861208012864 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 861208012865 ABC-ATPase subunit interface; other site 861208012866 dimer interface [polypeptide binding]; other site 861208012867 putative PBP binding regions; other site 861208012868 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 861208012869 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 861208012870 putative ligand binding residues [chemical binding]; other site 861208012871 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208012872 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 861208012873 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 861208012874 metal binding site [ion binding]; metal-binding site 861208012875 putative dimer interface [polypeptide binding]; other site 861208012876 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 861208012877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012878 Cupin domain; Region: Cupin_2; cl09118 861208012879 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 861208012880 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208012881 NAD(P) binding site [chemical binding]; other site 861208012882 catalytic residues [active] 861208012883 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 861208012884 tartrate dehydrogenase; Provisional; Region: PRK08194 861208012885 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208012886 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 861208012887 tetramerization interface [polypeptide binding]; other site 861208012888 NAD(P) binding site [chemical binding]; other site 861208012889 catalytic residues [active] 861208012890 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208012891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012892 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 861208012893 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208012894 Predicted acetyltransferase [General function prediction only]; Region: COG3153 861208012895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208012896 Coenzyme A binding pocket [chemical binding]; other site 861208012897 hypothetical protein; Provisional; Region: PRK05965 861208012898 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 861208012899 inhibitor-cofactor binding pocket; inhibition site 861208012900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208012901 catalytic residue [active] 861208012902 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 861208012903 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208012904 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 861208012905 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208012906 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208012907 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 861208012908 dimer interface [polypeptide binding]; other site 861208012909 conserved gate region; other site 861208012910 putative PBP binding loops; other site 861208012911 ABC-ATPase subunit interface; other site 861208012912 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 861208012913 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 861208012914 dimer interface [polypeptide binding]; other site 861208012915 conserved gate region; other site 861208012916 ABC-ATPase subunit interface; other site 861208012917 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208012918 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 861208012919 Walker A/P-loop; other site 861208012920 ATP binding site [chemical binding]; other site 861208012921 Q-loop/lid; other site 861208012922 ABC transporter signature motif; other site 861208012923 Walker B; other site 861208012924 D-loop; other site 861208012925 H-loop/switch region; other site 861208012926 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208012927 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 861208012928 Walker A/P-loop; other site 861208012929 ATP binding site [chemical binding]; other site 861208012930 Q-loop/lid; other site 861208012931 ABC transporter signature motif; other site 861208012932 Walker B; other site 861208012933 D-loop; other site 861208012934 H-loop/switch region; other site 861208012935 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208012936 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208012937 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 861208012938 putative DNA binding site [nucleotide binding]; other site 861208012939 putative Zn2+ binding site [ion binding]; other site 861208012940 AsnC family; Region: AsnC_trans_reg; pfam01037 861208012941 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208012942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208012943 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 861208012944 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208012945 substrate binding pocket [chemical binding]; other site 861208012946 membrane-bound complex binding site; other site 861208012947 hinge residues; other site 861208012948 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208012949 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 861208012950 substrate binding pocket [chemical binding]; other site 861208012951 membrane-bound complex binding site; other site 861208012952 hinge residues; other site 861208012953 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 861208012954 dimer interface [polypeptide binding]; other site 861208012955 conserved gate region; other site 861208012956 putative PBP binding loops; other site 861208012957 ABC-ATPase subunit interface; other site 861208012958 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208012959 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 861208012960 Walker A/P-loop; other site 861208012961 ATP binding site [chemical binding]; other site 861208012962 Q-loop/lid; other site 861208012963 ABC transporter signature motif; other site 861208012964 Walker B; other site 861208012965 D-loop; other site 861208012966 H-loop/switch region; other site 861208012967 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208012968 Coenzyme A binding pocket [chemical binding]; other site 861208012969 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 861208012970 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 861208012971 metal binding site [ion binding]; metal-binding site 861208012972 putative dimer interface [polypeptide binding]; other site 861208012973 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 861208012974 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 861208012975 active site 861208012976 non-prolyl cis peptide bond; other site 861208012977 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 861208012978 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 861208012979 Predicted transcriptional regulator [Transcription]; Region: COG1959 861208012980 Helix-turn-helix domains; Region: HTH; cl00088 861208012981 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 861208012982 active site 861208012983 Flavin Reductases; Region: FlaRed; cl00801 861208012984 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 861208012985 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 861208012986 active site 861208012987 dimer interface [polypeptide binding]; other site 861208012988 non-prolyl cis peptide bond; other site 861208012989 insertion regions; other site 861208012990 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 861208012991 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 861208012992 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 861208012993 active site 861208012994 dimer interface [polypeptide binding]; other site 861208012995 non-prolyl cis peptide bond; other site 861208012996 insertion regions; other site 861208012997 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 861208012998 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 861208012999 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 861208013000 active site 861208013001 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 861208013002 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 861208013003 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208013004 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208013005 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 861208013006 dimer interface [polypeptide binding]; other site 861208013007 conserved gate region; other site 861208013008 putative PBP binding loops; other site 861208013009 ABC-ATPase subunit interface; other site 861208013010 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208013011 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 861208013012 dimer interface [polypeptide binding]; other site 861208013013 conserved gate region; other site 861208013014 putative PBP binding loops; other site 861208013015 ABC-ATPase subunit interface; other site 861208013016 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 861208013017 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 861208013018 Walker A/P-loop; other site 861208013019 ATP binding site [chemical binding]; other site 861208013020 Q-loop/lid; other site 861208013021 ABC transporter signature motif; other site 861208013022 Walker B; other site 861208013023 D-loop; other site 861208013024 H-loop/switch region; other site 861208013025 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208013026 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 861208013027 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 861208013028 Walker A/P-loop; other site 861208013029 ATP binding site [chemical binding]; other site 861208013030 Q-loop/lid; other site 861208013031 ABC transporter signature motif; other site 861208013032 Walker B; other site 861208013033 D-loop; other site 861208013034 H-loop/switch region; other site 861208013035 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208013036 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 861208013037 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 861208013038 active site 861208013039 catalytic tetrad [active] 861208013040 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 861208013041 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 861208013042 Flavin binding site [chemical binding]; other site 861208013043 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208013044 Helix-turn-helix domains; Region: HTH; cl00088 861208013045 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 861208013046 dimerization interface [polypeptide binding]; other site 861208013047 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 861208013048 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 861208013049 active site 861208013050 non-prolyl cis peptide bond; other site 861208013051 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 861208013052 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208013053 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 861208013054 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 861208013055 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208013056 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 861208013057 amidohydrolase; Region: amidohydrolases; TIGR01891 861208013058 metal binding site [ion binding]; metal-binding site 861208013059 putative dimer interface [polypeptide binding]; other site 861208013060 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 861208013061 active site 861208013062 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 861208013063 dimer interface [polypeptide binding]; other site 861208013064 non-prolyl cis peptide bond; other site 861208013065 insertion regions; other site 861208013066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208013067 NAD(P) binding site [chemical binding]; other site 861208013068 active site 861208013069 NMT1-like family; Region: NMT1_2; cl15260 861208013070 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 861208013071 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 861208013072 active site 861208013073 non-prolyl cis peptide bond; other site 861208013074 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 861208013075 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 861208013076 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. 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...; Region: MR_like_4; cd03329 861208013077 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 861208013078 putative active site pocket [active] 861208013079 metal binding site [ion binding]; metal-binding site 861208013080 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 861208013081 active site 861208013082 catalytic triad [active] 861208013083 oxyanion hole [active] 861208013084 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 861208013085 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208013086 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208013087 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 861208013088 Walker A/P-loop; other site 861208013089 ATP binding site [chemical binding]; other site 861208013090 Q-loop/lid; other site 861208013091 ABC transporter signature motif; other site 861208013092 Walker B; other site 861208013093 D-loop; other site 861208013094 H-loop/switch region; other site 861208013095 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208013096 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 861208013097 Walker A/P-loop; other site 861208013098 ATP binding site [chemical binding]; other site 861208013099 Q-loop/lid; other site 861208013100 ABC transporter signature motif; other site 861208013101 Walker B; other site 861208013102 D-loop; other site 861208013103 H-loop/switch region; other site 861208013104 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208013105 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208013106 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 861208013107 dimer interface [polypeptide binding]; other site 861208013108 conserved gate region; other site 861208013109 ABC-ATPase subunit interface; other site 861208013110 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208013111 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 861208013112 dimer interface [polypeptide binding]; other site 861208013113 conserved gate region; other site 861208013114 putative PBP binding loops; other site 861208013115 ABC-ATPase subunit interface; other site 861208013116 LysE type translocator; Region: LysE; cl00565 861208013117 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208013118 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208013119 DNA-binding site [nucleotide binding]; DNA binding site 861208013120 FCD domain; Region: FCD; cl11656 861208013121 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 861208013122 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 861208013123 conserved cys residue [active] 861208013124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208013125 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208013126 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 861208013127 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208013128 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 861208013129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208013130 NAD(P) binding site [chemical binding]; other site 861208013131 active site 861208013132 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 861208013133 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 861208013134 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208013135 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 861208013136 dimerization interface [polypeptide binding]; other site 861208013137 putative DNA binding site [nucleotide binding]; other site 861208013138 putative Zn2+ binding site [ion binding]; other site 861208013139 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 861208013140 Predicted transporter component [General function prediction only]; Region: COG2391 861208013141 Sulfatase; Region: Sulfatase; cl10460 861208013142 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 861208013143 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 861208013144 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 861208013145 E3 interaction surface; other site 861208013146 lipoyl attachment site [posttranslational modification]; other site 861208013147 e3 binding domain; Region: E3_binding; pfam02817 861208013148 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 861208013149 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 861208013150 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 861208013151 alpha subunit interface [polypeptide binding]; other site 861208013152 TPP binding site [chemical binding]; other site 861208013153 heterodimer interface [polypeptide binding]; other site 861208013154 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 861208013155 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 861208013156 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 861208013157 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 861208013158 tetramer interface [polypeptide binding]; other site 861208013159 TPP-binding site [chemical binding]; other site 861208013160 heterodimer interface [polypeptide binding]; other site 861208013161 phosphorylation loop region [posttranslational modification] 861208013162 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 861208013163 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 861208013164 FAD binding site [chemical binding]; other site 861208013165 homotetramer interface [polypeptide binding]; other site 861208013166 substrate binding pocket [chemical binding]; other site 861208013167 catalytic base [active] 861208013168 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 861208013169 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 861208013170 dimer interface [polypeptide binding]; other site 861208013171 active site 861208013172 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208013173 Helix-turn-helix domains; Region: HTH; cl00088 861208013174 AsnC family; Region: AsnC_trans_reg; pfam01037 861208013175 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 861208013176 isovaleryl-CoA dehydrogenase; Region: PLN02519 861208013177 substrate binding site [chemical binding]; other site 861208013178 FAD binding site [chemical binding]; other site 861208013179 catalytic base [active] 861208013180 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 861208013181 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 861208013182 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 861208013183 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 861208013184 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 861208013185 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208013186 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 861208013187 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 861208013188 carboxyltransferase (CT) interaction site; other site 861208013189 biotinylation site [posttranslational modification]; other site 861208013190 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 861208013191 active site 861208013192 catalytic residues [active] 861208013193 metal binding site [ion binding]; metal-binding site 861208013194 enoyl-CoA hydratase; Provisional; Region: PRK05995 861208013195 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 861208013196 substrate binding site [chemical binding]; other site 861208013197 oxyanion hole (OAH) forming residues; other site 861208013198 trimer interface [polypeptide binding]; other site 861208013199 pantoate--beta-alanine ligase; Region: panC; TIGR00018 861208013200 Pantoate-beta-alanine ligase; Region: PanC; cd00560 861208013201 active site 861208013202 ATP-binding site [chemical binding]; other site 861208013203 pantoate-binding site; other site 861208013204 HXXH motif; other site 861208013205 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 861208013206 oligomerization interface [polypeptide binding]; other site 861208013207 active site 861208013208 metal binding site [ion binding]; metal-binding site 861208013209 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 861208013210 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 861208013211 short chain dehydrogenase; Validated; Region: PRK08324 861208013212 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 861208013213 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 861208013214 putative NAD(P) binding site [chemical binding]; other site 861208013215 active site 861208013216 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 861208013217 Helix-turn-helix domains; Region: HTH; cl00088 861208013218 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 861208013219 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 861208013220 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 861208013221 ligand binding site [chemical binding]; other site 861208013222 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208013223 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 861208013224 Walker A/P-loop; other site 861208013225 ATP binding site [chemical binding]; other site 861208013226 Q-loop/lid; other site 861208013227 ABC transporter signature motif; other site 861208013228 Walker B; other site 861208013229 D-loop; other site 861208013230 H-loop/switch region; other site 861208013231 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 861208013232 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 861208013233 TM-ABC transporter signature motif; other site 861208013234 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 861208013235 TM-ABC transporter signature motif; other site 861208013236 Domain of unknown function (DUF718); Region: DUF718; cl01281 861208013237 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 861208013238 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 861208013239 N- and C-terminal domain interface [polypeptide binding]; other site 861208013240 putative active site [active] 861208013241 putative MgATP binding site [chemical binding]; other site 861208013242 catalytic site [active] 861208013243 metal binding site [ion binding]; metal-binding site 861208013244 putative carbohydrate binding site [chemical binding]; other site 861208013245 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 861208013246 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 861208013247 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 861208013248 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; cl16911 861208013249 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208013250 metal binding site [ion binding]; metal-binding site 861208013251 active site 861208013252 I-site; other site 861208013253 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 861208013254 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 861208013255 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208013256 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 861208013257 tetramerization interface [polypeptide binding]; other site 861208013258 NAD(P) binding site [chemical binding]; other site 861208013259 catalytic residues [active] 861208013260 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 861208013261 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 861208013262 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 861208013263 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 861208013264 Walker A/P-loop; other site 861208013265 ATP binding site [chemical binding]; other site 861208013266 Q-loop/lid; other site 861208013267 ABC transporter signature motif; other site 861208013268 Walker B; other site 861208013269 D-loop; other site 861208013270 H-loop/switch region; other site 861208013271 sulfate transport protein; Provisional; Region: cysT; CHL00187 861208013272 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 861208013273 dimer interface [polypeptide binding]; other site 861208013274 conserved gate region; other site 861208013275 putative PBP binding loops; other site 861208013276 ABC-ATPase subunit interface; other site 861208013277 sulfate transport protein; Provisional; Region: cysT; CHL00187 861208013278 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 861208013279 dimer interface [polypeptide binding]; other site 861208013280 conserved gate region; other site 861208013281 putative PBP binding loops; other site 861208013282 ABC-ATPase subunit interface; other site 861208013283 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 861208013284 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 861208013285 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 861208013286 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 861208013287 substrate binding site [chemical binding]; other site 861208013288 oxyanion hole (OAH) forming residues; other site 861208013289 trimer interface [polypeptide binding]; other site 861208013290 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 861208013291 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 861208013292 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 861208013293 Bacterial SH3 domain; Region: SH3_3; cl02551 861208013294 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 861208013295 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 861208013296 S-adenosylmethionine binding site [chemical binding]; other site 861208013297 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 861208013298 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 861208013299 Predicted amidohydrolase [General function prediction only]; Region: COG0388 861208013300 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 861208013301 putative active site [active] 861208013302 catalytic triad [active] 861208013303 dimer interface [polypeptide binding]; other site 861208013304 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 861208013305 GSH binding site [chemical binding]; other site 861208013306 catalytic residues [active] 861208013307 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; cl16911 861208013308 Flp/Fap pilin component; Region: Flp_Fap; cl01585 861208013309 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 861208013310 active site 861208013311 8-oxo-dGMP binding site [chemical binding]; other site 861208013312 nudix motif; other site 861208013313 metal binding site [ion binding]; metal-binding site 861208013314 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208013315 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 861208013316 heterotetramer interface [polypeptide binding]; other site 861208013317 active site pocket [active] 861208013318 cleavage site 861208013319 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 861208013320 PPIC-type PPIASE domain; Region: Rotamase; cl08278 861208013321 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 861208013322 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208013323 ATP binding site [chemical binding]; other site 861208013324 putative Mg++ binding site [ion binding]; other site 861208013325 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 861208013326 SEC-C motif; Region: SEC-C; pfam02810 861208013327 EamA-like transporter family; Region: EamA; cl01037 861208013328 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 861208013329 OpgC protein; Region: OpgC_C; cl00792 861208013330 Acyltransferase family; Region: Acyl_transf_3; pfam01757 861208013331 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 861208013332 MatE; Region: MatE; cl10513 861208013333 MatE; Region: MatE; cl10513 861208013334 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208013335 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 861208013336 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 861208013337 active site 861208013338 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208013339 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 861208013340 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 861208013341 active site 861208013342 metal binding site [ion binding]; metal-binding site 861208013343 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 861208013344 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 861208013345 MatE; Region: MatE; cl10513 861208013346 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208013347 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 861208013348 OpgC protein; Region: OpgC_C; cl00792 861208013349 Acyltransferase family; Region: Acyl_transf_3; pfam01757 861208013350 Chain length determinant protein; Region: Wzz; cl15801 861208013351 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 861208013352 Chain length determinant protein; Region: Wzz; cl15801 861208013353 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208013354 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208013355 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 861208013356 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 861208013357 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 861208013358 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 861208013359 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 861208013360 O-Antigen ligase; Region: Wzy_C; cl04850 861208013361 transcription elongation factor regulatory protein; Validated; Region: PRK06342 861208013362 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 861208013363 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 861208013364 active site 861208013365 catalytic residues [active] 861208013366 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208013367 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 861208013368 AP (apurinic/apyrimidinic) site pocket; other site 861208013369 DNA interaction; other site 861208013370 Metal-binding active site; metal-binding site 861208013371 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 861208013372 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 861208013373 putative active site [active] 861208013374 catalytic site [active] 861208013375 putative metal binding site [ion binding]; other site 861208013376 oligomer interface [polypeptide binding]; other site 861208013377 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 861208013378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208013379 Walker A/P-loop; other site 861208013380 ATP binding site [chemical binding]; other site 861208013381 Q-loop/lid; other site 861208013382 ABC transporter signature motif; other site 861208013383 Walker B; other site 861208013384 D-loop; other site 861208013385 H-loop/switch region; other site 861208013386 TOBE domain; Region: TOBE_2; cl01440 861208013387 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 861208013388 dimer interface [polypeptide binding]; other site 861208013389 conserved gate region; other site 861208013390 putative PBP binding loops; other site 861208013391 ABC-ATPase subunit interface; other site 861208013392 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 861208013393 dimer interface [polypeptide binding]; other site 861208013394 conserved gate region; other site 861208013395 putative PBP binding loops; other site 861208013396 ABC-ATPase subunit interface; other site 861208013397 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 861208013398 Helix-turn-helix domains; Region: HTH; cl00088 861208013399 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 861208013400 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208013401 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 861208013402 Uncharacterized conserved protein [Function unknown]; Region: COG1944 861208013403 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 861208013404 Uncharacterized conserved protein [Function unknown]; Region: COG3482 861208013405 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 861208013406 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 861208013407 non-specific DNA binding site [nucleotide binding]; other site 861208013408 salt bridge; other site 861208013409 sequence-specific DNA binding site [nucleotide binding]; other site 861208013410 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 861208013411 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 861208013412 Walker A/P-loop; other site 861208013413 ATP binding site [chemical binding]; other site 861208013414 Q-loop/lid; other site 861208013415 ABC transporter signature motif; other site 861208013416 Walker B; other site 861208013417 D-loop; other site 861208013418 H-loop/switch region; other site 861208013419 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 861208013420 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 861208013421 TM-ABC transporter signature motif; other site 861208013422 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 861208013423 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 861208013424 putative ligand binding site [chemical binding]; other site 861208013425 Helix-turn-helix domains; Region: HTH; cl00088 861208013426 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 861208013427 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208013428 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 861208013429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208013430 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208013431 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 861208013432 dimer interface [polypeptide binding]; other site 861208013433 substrate binding site [chemical binding]; other site 861208013434 metal binding site [ion binding]; metal-binding site 861208013435 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 861208013436 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 861208013437 active site 861208013438 substrate binding site [chemical binding]; other site 861208013439 coenzyme B12 binding site [chemical binding]; other site 861208013440 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 861208013441 B12 binding site [chemical binding]; other site 861208013442 cobalt ligand [ion binding]; other site 861208013443 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 861208013444 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 861208013445 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208013446 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 861208013447 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 861208013448 carboxyltransferase (CT) interaction site; other site 861208013449 biotinylation site [posttranslational modification]; other site 861208013450 putative S-transferase; Provisional; Region: PRK11752 861208013451 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 861208013452 C-terminal domain interface [polypeptide binding]; other site 861208013453 GSH binding site (G-site) [chemical binding]; other site 861208013454 dimer interface [polypeptide binding]; other site 861208013455 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 861208013456 dimer interface [polypeptide binding]; other site 861208013457 N-terminal domain interface [polypeptide binding]; other site 861208013458 active site 861208013459 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 861208013460 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 861208013461 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 861208013462 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 861208013463 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 861208013464 non-specific DNA binding site [nucleotide binding]; other site 861208013465 salt bridge; other site 861208013466 sequence-specific DNA binding site [nucleotide binding]; other site 861208013467 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 861208013468 Domain of unknown function (DUF955); Region: DUF955; cl01076 861208013469 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 861208013470 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 861208013471 endonuclease III; Region: ENDO3c; smart00478 861208013472 minor groove reading motif; other site 861208013473 helix-hairpin-helix signature motif; other site 861208013474 substrate binding pocket [chemical binding]; other site 861208013475 active site 861208013476 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 861208013477 active site 861208013478 HIGH motif; other site 861208013479 nucleotide binding site [chemical binding]; other site 861208013480 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 861208013481 active site 861208013482 KMSKS motif; other site 861208013483 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 861208013484 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 861208013485 short chain dehydrogenase; Provisional; Region: PRK08703 861208013486 NADP binding site [chemical binding]; other site 861208013487 active site 861208013488 steroid binding site; other site 861208013489 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 861208013490 Rhomboid family; Region: Rhomboid; cl11446 861208013491 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 861208013492 Ligand binding site [chemical binding]; other site 861208013493 Electron transfer flavoprotein domain; Region: ETF; pfam01012 861208013494 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 861208013495 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 861208013496 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 861208013497 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 861208013498 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208013499 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 861208013500 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 861208013501 catalytic residues [active] 861208013502 argininosuccinate lyase; Provisional; Region: PRK00855 861208013503 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 861208013504 active sites [active] 861208013505 tetramer interface [polypeptide binding]; other site 861208013506 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 861208013507 diaminopimelate decarboxylase; Region: lysA; TIGR01048 861208013508 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 861208013509 active site 861208013510 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 861208013511 substrate binding site [chemical binding]; other site 861208013512 catalytic residues [active] 861208013513 dimer interface [polypeptide binding]; other site 861208013514 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 861208013515 Response regulator receiver domain; Region: Response_reg; pfam00072 861208013516 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 861208013517 active site 861208013518 phosphorylation site [posttranslational modification] 861208013519 intermolecular recognition site; other site 861208013520 dimerization interface [polypeptide binding]; other site 861208013521 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 861208013522 active site 861208013523 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 861208013524 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 861208013525 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 861208013526 Walker A/P-loop; other site 861208013527 ATP binding site [chemical binding]; other site 861208013528 Q-loop/lid; other site 861208013529 ABC transporter signature motif; other site 861208013530 Walker B; other site 861208013531 D-loop; other site 861208013532 H-loop/switch region; other site 861208013533 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 861208013534 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 861208013535 putative active site [active] 861208013536 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 861208013537 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 861208013538 putative acyl-acceptor binding pocket; other site 861208013539 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 861208013540 putative active site pocket [active] 861208013541 dimerization interface [polypeptide binding]; other site 861208013542 putative catalytic residue [active] 861208013543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 861208013544 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 861208013545 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208013546 Coenzyme A binding pocket [chemical binding]; other site 861208013547 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 861208013548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208013549 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 861208013550 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 861208013551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208013552 homodimer interface [polypeptide binding]; other site 861208013553 catalytic residue [active] 861208013554 hypothetical protein; Provisional; Region: PRK08317 861208013555 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; cl16911 861208013556 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 861208013557 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208013558 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 861208013559 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 861208013560 G5 domain; Region: G5; pfam07501 861208013561 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 861208013562 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 861208013563 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 861208013564 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 861208013565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 861208013566 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 861208013567 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 861208013568 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 861208013569 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 861208013570 metal ion-dependent adhesion site (MIDAS); other site 861208013571 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 861208013572 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 861208013573 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208013574 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 861208013575 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 861208013576 HSP70 interaction site [polypeptide binding]; other site 861208013577 BolA-like protein; Region: BolA; cl00386 861208013578 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 861208013579 active site 861208013580 dimer interface [polypeptide binding]; other site 861208013581 metal binding site [ion binding]; metal-binding site 861208013582 shikimate kinase; Provisional; Region: PRK13946 861208013583 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 861208013584 ADP binding site [chemical binding]; other site 861208013585 magnesium binding site [ion binding]; other site 861208013586 putative shikimate binding site; other site 861208013587 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 861208013588 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 861208013589 active site 861208013590 DNA binding site [nucleotide binding] 861208013591 Int/Topo IB signature motif; other site 861208013592 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 861208013593 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 861208013594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 861208013595 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 861208013596 CPxP motif; other site 861208013597 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 861208013598 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208013599 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 861208013600 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 861208013601 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208013602 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 861208013603 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 861208013604 metal binding site [ion binding]; metal-binding site 861208013605 putative dimer interface [polypeptide binding]; other site 861208013606 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 861208013607 Transglycosylase; Region: Transgly; cl07896 861208013608 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208013609 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 861208013610 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 861208013611 putative binding site; other site 861208013612 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 861208013613 MG2 domain; Region: A2M_N; pfam01835 861208013614 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 861208013615 Alpha-2-macroglobulin family; Region: A2M; pfam00207 861208013616 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 861208013617 surface patch; other site 861208013618 thioester region; other site 861208013619 specificity defining residues; other site 861208013620 Trm112p-like protein; Region: Trm112p; cl01066 861208013621 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 861208013622 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 861208013623 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 861208013624 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 861208013625 binding surface 861208013626 TPR motif; other site 861208013627 Uncharacterized conserved protein [Function unknown]; Region: COG3760 861208013628 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 861208013629 putative deacylase active site [active] 861208013630 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 861208013631 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 861208013632 Ligand Binding Site [chemical binding]; other site 861208013633 OpgC protein; Region: OpgC_C; cl00792 861208013634 Tim44-like domain; Region: Tim44; cl09208 861208013635 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 861208013636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208013637 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 861208013638 putative L-serine binding site [chemical binding]; other site 861208013639 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 861208013640 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208013641 catalytic residue [active] 861208013642 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; cl01155 861208013643 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 861208013644 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 861208013645 active site 861208013646 substrate binding site [chemical binding]; other site 861208013647 metal binding site [ion binding]; metal-binding site 861208013648 FtsH Extracellular; Region: FtsH_ext; pfam06480 861208013649 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 861208013650 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 861208013651 Walker A motif; other site 861208013652 ATP binding site [chemical binding]; other site 861208013653 Walker B motif; other site 861208013654 arginine finger; other site 861208013655 Peptidase family M41; Region: Peptidase_M41; pfam01434 861208013656 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 861208013657 Ligand Binding Site [chemical binding]; other site 861208013658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 861208013659 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 861208013660 Tetratricopeptide repeat; Region: TPR_6; pfam13174 861208013661 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 861208013662 ligand binding site [chemical binding]; other site 861208013663 translocation protein TolB; Provisional; Region: tolB; PRK05137 861208013664 TolB amino-terminal domain; Region: TolB_N; cl00639 861208013665 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 861208013666 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 861208013667 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 861208013668 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 861208013669 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 861208013670 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 861208013671 active site 861208013672 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 861208013673 nudix motif; other site 861208013674 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 861208013675 nudix motif; other site 861208013676 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 861208013677 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 861208013678 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 861208013679 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 861208013680 Walker A motif; other site 861208013681 ATP binding site [chemical binding]; other site 861208013682 Walker B motif; other site 861208013683 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 861208013684 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 861208013685 RuvA N terminal domain; Region: RuvA_N; pfam01330 861208013686 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 861208013687 active site 861208013688 putative DNA-binding cleft [nucleotide binding]; other site 861208013689 dimer interface [polypeptide binding]; other site 861208013690 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 861208013691 dimerization interface [polypeptide binding]; other site 861208013692 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 861208013693 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208013694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208013695 dimer interface [polypeptide binding]; other site 861208013696 putative CheW interface [polypeptide binding]; other site 861208013697 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 861208013698 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 861208013699 Transcriptional regulator; Region: Transcrip_reg; cl00361 861208013700 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 861208013701 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 861208013702 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 861208013703 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 861208013704 putative active site [active] 861208013705 metal binding site [ion binding]; metal-binding site 861208013706 homodimer binding site [polypeptide binding]; other site 861208013707 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 861208013708 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 861208013709 Domain of unknown function DUF21; Region: DUF21; pfam01595 861208013710 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 861208013711 Transporter associated domain; Region: CorC_HlyC; cl08393 861208013712 Cell division protein ZapA; Region: ZapA; cl01146 861208013713 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 861208013714 transketolase; Reviewed; Region: PRK05899 861208013715 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 861208013716 TPP-binding site [chemical binding]; other site 861208013717 dimer interface [polypeptide binding]; other site 861208013718 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 861208013719 PYR/PP interface [polypeptide binding]; other site 861208013720 dimer interface [polypeptide binding]; other site 861208013721 TPP binding site [chemical binding]; other site 861208013722 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 861208013723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208013724 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 861208013725 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 861208013726 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 861208013727 Phosphoglycerate kinase; Region: PGK; pfam00162 861208013728 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 861208013729 substrate binding site [chemical binding]; other site 861208013730 hinge regions; other site 861208013731 ADP binding site [chemical binding]; other site 861208013732 catalytic site [active] 861208013733 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 861208013734 active site 861208013735 intersubunit interface [polypeptide binding]; other site 861208013736 catalytic residue [active] 861208013737 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 861208013738 putative substrate translocation pore; other site 861208013739 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 861208013740 putative substrate translocation pore; other site 861208013741 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 861208013742 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 861208013743 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 861208013744 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 861208013745 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208013746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208013747 Walker A/P-loop; other site 861208013748 ATP binding site [chemical binding]; other site 861208013749 Q-loop/lid; other site 861208013750 ABC transporter signature motif; other site 861208013751 Walker B; other site 861208013752 D-loop; other site 861208013753 H-loop/switch region; other site 861208013754 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 861208013755 hypothetical protein; Validated; Region: PRK09039 861208013756 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 861208013757 ligand binding site [chemical binding]; other site 861208013758 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 861208013759 active site 861208013760 dimerization interface [polypeptide binding]; other site 861208013761 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 861208013762 Sel1 repeat; Region: Sel1; cl02723 861208013763 Sel1 repeat; Region: Sel1; cl02723 861208013764 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 861208013765 thiamine phosphate binding site [chemical binding]; other site 861208013766 active site 861208013767 pyrophosphate binding site [ion binding]; other site 861208013768 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 861208013769 Protein of unknown function (DUF465); Region: DUF465; cl01070 861208013770 AIR carboxylase; Region: AIRC; cl00310 861208013771 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 861208013772 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208013773 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 861208013774 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 861208013775 binding surface 861208013776 TPR repeat; Region: TPR_11; pfam13414 861208013777 TPR motif; other site 861208013778 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 861208013779 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 861208013780 N-formylglutamate amidohydrolase; Region: FGase; cl01522 861208013781 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 861208013782 pyruvate kinase; Provisional; Region: PRK06247 861208013783 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 861208013784 domain interfaces; other site 861208013785 active site 861208013786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 861208013787 Peptidase M15; Region: Peptidase_M15_3; cl01194 861208013788 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 861208013789 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 861208013790 active site 861208013791 phosphorylation site [posttranslational modification] 861208013792 intermolecular recognition site; other site 861208013793 dimerization interface [polypeptide binding]; other site 861208013794 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 861208013795 Walker A motif; other site 861208013796 ATP binding site [chemical binding]; other site 861208013797 Walker B motif; other site 861208013798 arginine finger; other site 861208013799 Helix-turn-helix domains; Region: HTH; cl00088 861208013800 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 861208013801 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 861208013802 active site 861208013803 Zn binding site [ion binding]; other site 861208013804 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 861208013805 substrate-cofactor binding pocket; other site 861208013806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208013807 homodimer interface [polypeptide binding]; other site 861208013808 catalytic residue [active] 861208013809 PAS fold; Region: PAS_7; pfam12860 861208013810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208013811 metal binding site [ion binding]; metal-binding site 861208013812 active site 861208013813 I-site; other site 861208013814 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 861208013815 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 861208013816 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 861208013817 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 861208013818 active site 861208013819 metal binding site [ion binding]; metal-binding site 861208013820 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 861208013821 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 861208013822 ferrochelatase; Reviewed; Region: hemH; PRK00035 861208013823 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 861208013824 C-terminal domain interface [polypeptide binding]; other site 861208013825 active site 861208013826 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 861208013827 active site 861208013828 N-terminal domain interface [polypeptide binding]; other site 861208013829 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 861208013830 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 861208013831 KpsF/GutQ family protein; Region: kpsF; TIGR00393 861208013832 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 861208013833 putative active site [active] 861208013834 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 861208013835 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 861208013836 putative active site [active] 861208013837 heme pocket [chemical binding]; other site 861208013838 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; cl01155 861208013839 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 861208013840 active site 861208013841 tetramer interface; other site 861208013842 Transglycosylase SLT domain; Region: SLT_2; pfam13406 861208013843 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 861208013844 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 861208013845 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, 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...; Region: SGNH_hydrolase_peri2; cd01829 861208013846 active site 861208013847 catalytic triad [active] 861208013848 oxyanion hole [active] 861208013849 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208013850 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 861208013851 active site 861208013852 phosphorylation site [posttranslational modification] 861208013853 intermolecular recognition site; other site 861208013854 dimerization interface [polypeptide binding]; other site 861208013855 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 861208013856 DNA binding site [nucleotide binding] 861208013857 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 861208013858 dimer interface [polypeptide binding]; other site 861208013859 phosphorylation site [posttranslational modification] 861208013860 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 861208013861 ATP binding site [chemical binding]; other site 861208013862 Mg2+ binding site [ion binding]; other site 861208013863 G-X-G motif; other site 861208013864 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 861208013865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208013866 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 861208013867 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 861208013868 active site 861208013869 dimer interface [polypeptide binding]; other site 861208013870 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 861208013871 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 861208013872 active site 861208013873 FMN binding site [chemical binding]; other site 861208013874 substrate binding site [chemical binding]; other site 861208013875 3Fe-4S cluster binding site [ion binding]; other site 861208013876 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 861208013877 domain interface; other site 861208013878 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 861208013879 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 861208013880 tetramer interface [polypeptide binding]; other site 861208013881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208013882 catalytic residue [active] 861208013883 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208013884 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 861208013885 active site 861208013886 phosphorylation site [posttranslational modification] 861208013887 intermolecular recognition site; other site 861208013888 dimerization interface [polypeptide binding]; other site 861208013889 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 861208013890 DNA binding site [nucleotide binding] 861208013891 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 861208013892 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 861208013893 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 861208013894 Ligand Binding Site [chemical binding]; other site 861208013895 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 861208013896 GAF domain; Region: GAF; cl15785 861208013897 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 861208013898 dimer interface [polypeptide binding]; other site 861208013899 phosphorylation site [posttranslational modification] 861208013900 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 861208013901 ATP binding site [chemical binding]; other site 861208013902 Mg2+ binding site [ion binding]; other site 861208013903 G-X-G motif; other site 861208013904 K+-transporting ATPase, c chain; Region: KdpC; cl00944 861208013905 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 861208013906 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 861208013907 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 861208013908 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 861208013909 potassium-transporting ATPase subunit F; Provisional; Region: PRK14759 861208013910 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 861208013911 active site 861208013912 homotetramer interface [polypeptide binding]; other site 861208013913 homodimer interface [polypeptide binding]; other site 861208013914 L-asparagine permease; Provisional; Region: PRK15049 861208013915 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 861208013916 Aspartase; Region: Aspartase; cd01357 861208013917 active sites [active] 861208013918 tetramer interface [polypeptide binding]; other site 861208013919 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208013920 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208013921 DNA-binding site [nucleotide binding]; DNA binding site 861208013922 FCD domain; Region: FCD; cl11656 861208013923 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 861208013924 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 861208013925 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 861208013926 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 861208013927 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 861208013928 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 861208013929 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 861208013930 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 861208013931 Helix-turn-helix domains; Region: HTH; cl00088 861208013932 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 861208013933 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 861208013934 putative di-iron ligands [ion binding]; other site 861208013935 Cupin domain; Region: Cupin_2; cl09118 861208013936 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 861208013937 Helix-turn-helix domains; Region: HTH; cl00088 861208013938 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 861208013939 dimerization interface [polypeptide binding]; other site 861208013940 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208013941 Helix-turn-helix domains; Region: HTH; cl00088 861208013942 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 861208013943 AsnC family; Region: AsnC_trans_reg; pfam01037 861208013944 LysE type translocator; Region: LysE; cl00565 861208013945 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 861208013946 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208013947 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208013948 Walker A/P-loop; other site 861208013949 ATP binding site [chemical binding]; other site 861208013950 Q-loop/lid; other site 861208013951 ABC transporter signature motif; other site 861208013952 Walker B; other site 861208013953 D-loop; other site 861208013954 H-loop/switch region; other site 861208013955 TOBE domain; Region: TOBE_2; cl01440 861208013956 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 861208013957 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 861208013958 dimer interface [polypeptide binding]; other site 861208013959 conserved gate region; other site 861208013960 putative PBP binding loops; other site 861208013961 ABC-ATPase subunit interface; other site 861208013962 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 861208013963 dimer interface [polypeptide binding]; other site 861208013964 conserved gate region; other site 861208013965 putative PBP binding loops; other site 861208013966 ABC-ATPase subunit interface; other site 861208013967 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 861208013968 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 861208013969 NIPSNAP; Region: NIPSNAP; pfam07978 861208013970 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208013971 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 861208013972 NAD(P) binding site [chemical binding]; other site 861208013973 catalytic residues [active] 861208013974 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 861208013975 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 861208013976 Flavin Reductases; Region: FlaRed; cl00801 861208013977 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 861208013978 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208013979 Amino acid synthesis; Region: AA_synth; pfam06684 861208013980 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 861208013981 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 861208013982 active site 861208013983 NAD binding site [chemical binding]; other site 861208013984 metal binding site [ion binding]; metal-binding site 861208013985 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208013986 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 861208013987 Walker A/P-loop; other site 861208013988 ATP binding site [chemical binding]; other site 861208013989 Q-loop/lid; other site 861208013990 ABC transporter signature motif; other site 861208013991 Walker B; other site 861208013992 D-loop; other site 861208013993 H-loop/switch region; other site 861208013994 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208013995 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 861208013996 dimer interface [polypeptide binding]; other site 861208013997 conserved gate region; other site 861208013998 putative PBP binding loops; other site 861208013999 ABC-ATPase subunit interface; other site 861208014000 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 861208014001 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208014002 substrate binding pocket [chemical binding]; other site 861208014003 membrane-bound complex binding site; other site 861208014004 hinge residues; other site 861208014005 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208014006 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208014007 DNA-binding site [nucleotide binding]; DNA binding site 861208014008 FCD domain; Region: FCD; cl11656 861208014009 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 861208014010 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 861208014011 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 861208014012 putative active site [active] 861208014013 putative substrate binding site [chemical binding]; other site 861208014014 putative cosubstrate binding site; other site 861208014015 catalytic site [active] 861208014016 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 861208014017 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 861208014018 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 861208014019 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 861208014020 active site 861208014021 FMN binding site [chemical binding]; other site 861208014022 substrate binding site [chemical binding]; other site 861208014023 3Fe-4S cluster binding site [ion binding]; other site 861208014024 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 861208014025 domain_subunit interface; other site 861208014026 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 861208014027 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 861208014028 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 861208014029 putative active site [active] 861208014030 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 861208014031 non-specific DNA binding site [nucleotide binding]; other site 861208014032 salt bridge; other site 861208014033 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 861208014034 sequence-specific DNA binding site [nucleotide binding]; other site 861208014035 Cupin domain; Region: Cupin_2; cl09118 861208014036 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 861208014037 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 861208014038 inhibitor site; inhibition site 861208014039 active site 861208014040 dimer interface [polypeptide binding]; other site 861208014041 catalytic residue [active] 861208014042 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208014043 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 861208014044 Walker A/P-loop; other site 861208014045 ATP binding site [chemical binding]; other site 861208014046 Q-loop/lid; other site 861208014047 ABC transporter signature motif; other site 861208014048 Walker B; other site 861208014049 D-loop; other site 861208014050 H-loop/switch region; other site 861208014051 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208014052 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 861208014053 Walker A/P-loop; other site 861208014054 ATP binding site [chemical binding]; other site 861208014055 Q-loop/lid; other site 861208014056 ABC transporter signature motif; other site 861208014057 Walker B; other site 861208014058 D-loop; other site 861208014059 H-loop/switch region; other site 861208014060 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208014061 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 861208014062 dimer interface [polypeptide binding]; other site 861208014063 conserved gate region; other site 861208014064 putative PBP binding loops; other site 861208014065 ABC-ATPase subunit interface; other site 861208014066 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208014067 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 861208014068 dimer interface [polypeptide binding]; other site 861208014069 conserved gate region; other site 861208014070 putative PBP binding loops; other site 861208014071 ABC-ATPase subunit interface; other site 861208014072 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_12; cd08491 861208014073 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208014074 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 861208014075 BNR repeat-like domain; Region: BNR_2; pfam13088 861208014076 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 861208014077 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 861208014078 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 861208014079 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 861208014080 putative active site [active] 861208014081 metal binding site [ion binding]; metal-binding site 861208014082 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208014083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208014084 DNA-binding site [nucleotide binding]; DNA binding site 861208014085 FCD domain; Region: FCD; cl11656 861208014086 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 861208014087 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 861208014088 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 861208014089 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 861208014090 putative active site [active] 861208014091 putative metal binding site [ion binding]; other site 861208014092 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 861208014093 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208014094 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 861208014095 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 861208014096 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208014097 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 861208014098 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 861208014099 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 861208014100 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208014101 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 861208014102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 861208014103 Uncharacterized conserved protein [Function unknown]; Region: COG2308 861208014104 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 861208014105 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 861208014106 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 861208014107 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208014108 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 861208014109 TadE-like protein; Region: TadE; cl10688 861208014110 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 861208014111 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 861208014112 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 861208014113 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 861208014114 ABC transporter; Region: ABC_tran_2; pfam12848 861208014115 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 861208014116 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 861208014117 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 861208014118 phosphate binding site [ion binding]; other site 861208014119 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208014120 Helix-turn-helix domains; Region: HTH; cl00088 861208014121 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208014122 Cache domain; Region: Cache_1; pfam02743 861208014123 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 861208014124 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208014125 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208014126 dimer interface [polypeptide binding]; other site 861208014127 putative CheW interface [polypeptide binding]; other site 861208014128 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 861208014129 L-xylulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 861208014130 putative N- and C-terminal domain interface [polypeptide binding]; other site 861208014131 putative active site [active] 861208014132 putative MgATP binding site [chemical binding]; other site 861208014133 catalytic site [active] 861208014134 metal binding site [ion binding]; metal-binding site 861208014135 putative xylulose binding site [chemical binding]; other site 861208014136 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 861208014137 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 861208014138 putative active site; other site 861208014139 catalytic residue [active] 861208014140 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 861208014141 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 861208014142 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 861208014143 active site 861208014144 catalytic tetrad [active] 861208014145 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 861208014146 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208014147 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 861208014148 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 861208014149 TM-ABC transporter signature motif; other site 861208014150 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208014151 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 861208014152 Walker A/P-loop; other site 861208014153 ATP binding site [chemical binding]; other site 861208014154 Q-loop/lid; other site 861208014155 ABC transporter signature motif; other site 861208014156 Walker B; other site 861208014157 D-loop; other site 861208014158 H-loop/switch region; other site 861208014159 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 861208014160 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 861208014161 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208014162 ligand binding site [chemical binding]; other site 861208014163 Response regulator receiver domain; Region: Response_reg; pfam00072 861208014164 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 861208014165 active site 861208014166 phosphorylation site [posttranslational modification] 861208014167 intermolecular recognition site; other site 861208014168 dimerization interface [polypeptide binding]; other site 861208014169 N-formylglutamate amidohydrolase; Region: FGase; cl01522 861208014170 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 861208014171 active site 861208014172 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 861208014173 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 861208014174 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 861208014175 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 861208014176 putative dimer interface [polypeptide binding]; other site 861208014177 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 861208014178 Membrane transport protein; Region: Mem_trans; cl09117 861208014179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208014180 Helix-turn-helix domains; Region: HTH; cl00088 861208014181 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 861208014182 dimerization interface [polypeptide binding]; other site 861208014183 glycerol kinase; Provisional; Region: glpK; PRK00047 861208014184 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 861208014185 N- and C-terminal domain interface [polypeptide binding]; other site 861208014186 active site 861208014187 MgATP binding site [chemical binding]; other site 861208014188 catalytic site [active] 861208014189 metal binding site [ion binding]; metal-binding site 861208014190 glycerol binding site [chemical binding]; other site 861208014191 homotetramer interface [polypeptide binding]; other site 861208014192 homodimer interface [polypeptide binding]; other site 861208014193 FBP binding site [chemical binding]; other site 861208014194 protein IIAGlc interface [polypeptide binding]; other site 861208014195 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208014196 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 861208014197 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208014198 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 861208014199 dimer interface [polypeptide binding]; other site 861208014200 conserved gate region; other site 861208014201 putative PBP binding loops; other site 861208014202 ABC-ATPase subunit interface; other site 861208014203 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 861208014204 dimer interface [polypeptide binding]; other site 861208014205 conserved gate region; other site 861208014206 putative PBP binding loops; other site 861208014207 ABC-ATPase subunit interface; other site 861208014208 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 861208014209 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 861208014210 Walker A/P-loop; other site 861208014211 ATP binding site [chemical binding]; other site 861208014212 Q-loop/lid; other site 861208014213 ABC transporter signature motif; other site 861208014214 Walker B; other site 861208014215 D-loop; other site 861208014216 H-loop/switch region; other site 861208014217 TOBE domain; Region: TOBE_2; cl01440 861208014218 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 861208014219 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 861208014220 Walker A/P-loop; other site 861208014221 ATP binding site [chemical binding]; other site 861208014222 Q-loop/lid; other site 861208014223 ABC transporter signature motif; other site 861208014224 Walker B; other site 861208014225 D-loop; other site 861208014226 H-loop/switch region; other site 861208014227 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 861208014228 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 861208014229 Helix-turn-helix domains; Region: HTH; cl00088 861208014230 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 861208014231 siroheme synthase; Provisional; Region: cysG; PRK10637 861208014232 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014233 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 861208014234 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 861208014235 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 861208014236 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 861208014237 [4Fe-4S] binding site [ion binding]; other site 861208014238 molybdopterin cofactor binding site; other site 861208014239 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 861208014240 molybdopterin cofactor binding site; other site 861208014241 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 861208014242 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 861208014243 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 861208014244 [2Fe-2S] cluster binding site [ion binding]; other site 861208014245 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 861208014246 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 861208014247 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 861208014248 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 861208014249 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 861208014250 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 861208014251 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 861208014252 Walker A/P-loop; other site 861208014253 ATP binding site [chemical binding]; other site 861208014254 Q-loop/lid; other site 861208014255 ABC transporter signature motif; other site 861208014256 Walker B; other site 861208014257 D-loop; other site 861208014258 H-loop/switch region; other site 861208014259 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 861208014260 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 861208014261 putative PBP binding loops; other site 861208014262 dimer interface [polypeptide binding]; other site 861208014263 ABC-ATPase subunit interface; other site 861208014264 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 861208014265 NMT1-like family; Region: NMT1_2; cl15260 861208014266 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 861208014267 NMT1-like family; Region: NMT1_2; cl15260 861208014268 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 861208014269 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 861208014270 active site 861208014271 phosphorylation site [posttranslational modification] 861208014272 intermolecular recognition site; other site 861208014273 ANTAR domain; Region: ANTAR; cl04297 861208014274 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208014275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208014276 DNA-binding site [nucleotide binding]; DNA binding site 861208014277 FCD domain; Region: FCD; cl11656 861208014278 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 861208014279 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 861208014280 putative active site [active] 861208014281 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 861208014282 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 861208014283 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 861208014284 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 861208014285 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 861208014286 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 861208014287 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208014288 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 861208014289 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 861208014290 carboxyltransferase (CT) interaction site; other site 861208014291 biotinylation site [posttranslational modification]; other site 861208014292 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 861208014293 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 861208014294 active site 861208014295 Na/Ca binding site [ion binding]; other site 861208014296 catalytic site [active] 861208014297 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 861208014298 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 861208014299 DNA binding residues [nucleotide binding] 861208014300 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 861208014301 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 861208014302 N-terminal plug; other site 861208014303 ligand-binding site [chemical binding]; other site 861208014304 Helix-turn-helix domains; Region: HTH; cl00088 861208014305 hypothetical protein; Validated; Region: PRK09071 861208014306 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 861208014307 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 861208014308 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 861208014309 replication initiation protein RepC; Provisional; Region: PRK13824 861208014310 Helix-turn-helix domains; Region: HTH; cl00088 861208014311 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 861208014312 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 861208014313 ParB-like nuclease domain; Region: ParBc; cl02129 861208014314 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 861208014315 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 861208014316 P-loop; other site 861208014317 Magnesium ion binding site [ion binding]; other site 861208014318 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 861208014319 Magnesium ion binding site [ion binding]; other site 861208014320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 861208014321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014322 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 861208014323 homotrimer interaction site [polypeptide binding]; other site 861208014324 putative active site [active] 861208014325 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 861208014326 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 861208014327 dimer interface [polypeptide binding]; other site 861208014328 active site 861208014329 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 861208014330 substrate binding site [chemical binding]; other site 861208014331 catalytic residue [active] 861208014332 Uncharacterized conserved protein [Function unknown]; Region: COG5476 861208014333 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 861208014334 MlrC C-terminus; Region: MlrC_C; pfam07171 861208014335 HutD; Region: HutD; cl01532 861208014336 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208014337 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 861208014338 urocanate hydratase; Provisional; Region: PRK05414 861208014339 N-formylglutamate amidohydrolase; Region: FGase; cl01522 861208014340 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 861208014341 active sites [active] 861208014342 tetramer interface [polypeptide binding]; other site 861208014343 imidazolonepropionase; Validated; Region: PRK09356 861208014344 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 861208014345 active site 861208014346 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 861208014347 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 861208014348 active site 861208014349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208014350 DNA-binding site [nucleotide binding]; DNA binding site 861208014351 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 861208014352 UTRA domain; Region: UTRA; cl01230 861208014353 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 861208014354 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 861208014355 carboxyltransferase (CT) interaction site; other site 861208014356 biotinylation site [posttranslational modification]; other site 861208014357 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 861208014358 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 861208014359 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208014360 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 861208014361 dihydrolipoamide succinyltransferase; Provisional; Region: PTZ00144 861208014362 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 861208014363 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 861208014364 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 861208014365 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 861208014366 putative active site [active] 861208014367 aspartate aminotransferase; Provisional; Region: PRK05764 861208014368 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 861208014369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208014370 homodimer interface [polypeptide binding]; other site 861208014371 catalytic residue [active] 861208014372 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 861208014373 Helix-turn-helix domains; Region: HTH; cl00088 861208014374 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 861208014375 putative dimerization interface [polypeptide binding]; other site 861208014376 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 861208014377 classical (c) SDRs; Region: SDR_c; cd05233 861208014378 NAD(P) binding site [chemical binding]; other site 861208014379 active site 861208014380 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208014381 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 861208014382 dimer interface [polypeptide binding]; other site 861208014383 conserved gate region; other site 861208014384 putative PBP binding loops; other site 861208014385 ABC-ATPase subunit interface; other site 861208014386 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 861208014387 dimer interface [polypeptide binding]; other site 861208014388 conserved gate region; other site 861208014389 putative PBP binding loops; other site 861208014390 ABC-ATPase subunit interface; other site 861208014391 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208014392 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 861208014393 Walker A/P-loop; other site 861208014394 ATP binding site [chemical binding]; other site 861208014395 Q-loop/lid; other site 861208014396 ABC transporter signature motif; other site 861208014397 Walker B; other site 861208014398 D-loop; other site 861208014399 H-loop/switch region; other site 861208014400 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208014401 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 861208014402 substrate binding pocket [chemical binding]; other site 861208014403 membrane-bound complex binding site; other site 861208014404 hinge residues; other site 861208014405 hypothetical protein; Validated; Region: PRK06201 861208014406 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 861208014407 Arginase family; Region: Arginase; cl00306 861208014408 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208014409 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 861208014410 Walker A/P-loop; other site 861208014411 ATP binding site [chemical binding]; other site 861208014412 Q-loop/lid; other site 861208014413 ABC transporter signature motif; other site 861208014414 Walker B; other site 861208014415 D-loop; other site 861208014416 H-loop/switch region; other site 861208014417 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 861208014418 dimer interface [polypeptide binding]; other site 861208014419 conserved gate region; other site 861208014420 putative PBP binding loops; other site 861208014421 ABC-ATPase subunit interface; other site 861208014422 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 861208014423 dimer interface [polypeptide binding]; other site 861208014424 conserved gate region; other site 861208014425 putative PBP binding loops; other site 861208014426 ABC-ATPase subunit interface; other site 861208014427 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208014428 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 861208014429 substrate binding pocket [chemical binding]; other site 861208014430 membrane-bound complex binding site; other site 861208014431 hinge residues; other site 861208014432 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208014433 Helix-turn-helix domains; Region: HTH; cl00088 861208014434 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 861208014435 dimerization interface [polypeptide binding]; other site 861208014436 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 861208014437 dimerization interface [polypeptide binding]; other site 861208014438 putative DNA binding site [nucleotide binding]; other site 861208014439 putative Zn2+ binding site [ion binding]; other site 861208014440 Major Facilitator Superfamily; Region: MFS_1; pfam07690 861208014441 ATP P2X receptor; Region: P2X_receptor; cl02993 861208014442 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 861208014443 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 861208014444 ArsC family; Region: ArsC; pfam03960 861208014445 catalytic residues [active] 861208014446 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 861208014447 Membrane transport protein; Region: Mem_trans; cl09117 861208014448 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 861208014449 putative DNA binding site [nucleotide binding]; other site 861208014450 putative Zn2+ binding site [ion binding]; other site 861208014451 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 861208014452 extended (e) SDRs; Region: SDR_e; cd08946 861208014453 NAD(P) binding site [chemical binding]; other site 861208014454 active site 861208014455 substrate binding site [chemical binding]; other site 861208014456 Dehydratase family; Region: ILVD_EDD; cl00340 861208014457 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208014458 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 861208014459 Walker A/P-loop; other site 861208014460 ATP binding site [chemical binding]; other site 861208014461 Q-loop/lid; other site 861208014462 ABC transporter signature motif; other site 861208014463 Walker B; other site 861208014464 D-loop; other site 861208014465 H-loop/switch region; other site 861208014466 TOBE domain; Region: TOBE_2; cl01440 861208014467 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208014468 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 861208014469 dimer interface [polypeptide binding]; other site 861208014470 conserved gate region; other site 861208014471 putative PBP binding loops; other site 861208014472 ABC-ATPase subunit interface; other site 861208014473 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 861208014474 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 861208014475 putative PBP binding loops; other site 861208014476 ABC-ATPase subunit interface; other site 861208014477 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208014478 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 861208014479 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208014480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014481 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208014482 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208014483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014484 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208014485 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208014486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014487 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208014488 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208014489 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208014490 DNA-binding site [nucleotide binding]; DNA binding site 861208014491 FCD domain; Region: FCD; cl11656 861208014492 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 861208014493 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 861208014494 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 861208014495 dimer interface [polypeptide binding]; other site 861208014496 ADP-ribose binding site [chemical binding]; other site 861208014497 active site 861208014498 nudix motif; other site 861208014499 metal binding site [ion binding]; metal-binding site 861208014500 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 861208014501 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 861208014502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014503 hypothetical protein; Provisional; Region: PRK06834 861208014504 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 861208014505 Helix-turn-helix domains; Region: HTH; cl00088 861208014506 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 861208014507 dimerization interface [polypeptide binding]; other site 861208014508 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 861208014509 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 861208014510 putative substrate translocation pore; other site 861208014511 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 861208014512 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 861208014513 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 861208014514 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 861208014515 active site 861208014516 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 861208014517 dimer interface [polypeptide binding]; other site 861208014518 non-prolyl cis peptide bond; other site 861208014519 insertion regions; other site 861208014520 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 861208014521 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 861208014522 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 861208014523 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 861208014524 Walker A/P-loop; other site 861208014525 ATP binding site [chemical binding]; other site 861208014526 Q-loop/lid; other site 861208014527 ABC transporter signature motif; other site 861208014528 Walker B; other site 861208014529 D-loop; other site 861208014530 H-loop/switch region; other site 861208014531 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 861208014532 Walker A/P-loop; other site 861208014533 ATP binding site [chemical binding]; other site 861208014534 Q-loop/lid; other site 861208014535 ABC transporter signature motif; other site 861208014536 Walker B; other site 861208014537 D-loop; other site 861208014538 H-loop/switch region; other site 861208014539 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208014540 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208014541 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 861208014542 dimer interface [polypeptide binding]; other site 861208014543 conserved gate region; other site 861208014544 putative PBP binding loops; other site 861208014545 ABC-ATPase subunit interface; other site 861208014546 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208014547 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 861208014548 dimer interface [polypeptide binding]; other site 861208014549 conserved gate region; other site 861208014550 putative PBP binding loops; other site 861208014551 ABC-ATPase subunit interface; other site 861208014552 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 861208014553 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208014554 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 861208014555 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 861208014556 molybdopterin cofactor binding site [chemical binding]; other site 861208014557 substrate binding site [chemical binding]; other site 861208014558 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 861208014559 molybdopterin cofactor binding site; other site 861208014560 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 861208014561 FAD binding domain; Region: FAD_binding_4; pfam01565 861208014562 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 861208014563 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 861208014564 putative catalytic residue [active] 861208014565 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208014566 Helix-turn-helix domains; Region: HTH; cl00088 861208014567 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 861208014568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014569 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 861208014570 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 861208014571 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 861208014572 dimer interface [polypeptide binding]; other site 861208014573 phosphorylation site [posttranslational modification] 861208014574 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 861208014575 ATP binding site [chemical binding]; other site 861208014576 Mg2+ binding site [ion binding]; other site 861208014577 G-X-G motif; other site 861208014578 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 861208014579 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 861208014580 active site 861208014581 phosphorylation site [posttranslational modification] 861208014582 intermolecular recognition site; other site 861208014583 dimerization interface [polypeptide binding]; other site 861208014584 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 861208014585 DNA binding site [nucleotide binding] 861208014586 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 861208014587 active site 861208014588 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 861208014589 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 861208014590 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 861208014591 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 861208014592 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 861208014593 Cupin domain; Region: Cupin_2; cl09118 861208014594 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 861208014595 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208014596 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 861208014597 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 861208014598 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208014599 Coenzyme A binding pocket [chemical binding]; other site 861208014600 biotin synthase; Region: bioB; TIGR00433 861208014601 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 861208014602 FeS/SAM binding site; other site 861208014603 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 861208014604 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 861208014605 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 861208014606 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 861208014607 catalytic residue [active] 861208014608 AAA domain; Region: AAA_26; pfam13500 861208014609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208014610 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 861208014611 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 861208014612 inhibitor-cofactor binding pocket; inhibition site 861208014613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 861208014614 catalytic residue [active] 861208014615 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 861208014616 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 861208014617 dimer interface [polypeptide binding]; other site 861208014618 active site 861208014619 CoA binding pocket [chemical binding]; other site 861208014620 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 861208014621 Helix-turn-helix domains; Region: HTH; cl00088 861208014622 AsnC family; Region: AsnC_trans_reg; pfam01037 861208014623 Arginase family; Region: Arginase; cl00306 861208014624 ornithine cyclodeaminase; Validated; Region: PRK07589 861208014625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014626 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 861208014627 EamA-like transporter family; Region: EamA; cl01037 861208014628 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208014629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014630 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208014631 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 861208014632 cyclase homology domain; Region: CHD; cd07302 861208014633 nucleotidyl binding site; other site 861208014634 metal binding site [ion binding]; metal-binding site 861208014635 dimer interface [polypeptide binding]; other site 861208014636 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208014637 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 861208014638 HTH DNA binding domain; Region: HTH_13; pfam11972 861208014639 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 861208014640 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 861208014641 putative substrate translocation pore; other site 861208014642 sensor protein QseC; Provisional; Region: PRK10337 861208014643 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 861208014644 dimer interface [polypeptide binding]; other site 861208014645 phosphorylation site [posttranslational modification] 861208014646 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 861208014647 ATP binding site [chemical binding]; other site 861208014648 Mg2+ binding site [ion binding]; other site 861208014649 G-X-G motif; other site 861208014650 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 861208014651 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 861208014652 active site 861208014653 phosphorylation site [posttranslational modification] 861208014654 intermolecular recognition site; other site 861208014655 dimerization interface [polypeptide binding]; other site 861208014656 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 861208014657 DNA binding site [nucleotide binding] 861208014658 putative metal dependent hydrolase; Provisional; Region: PRK11598 861208014659 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 861208014660 Sulfatase; Region: Sulfatase; cl10460 861208014661 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 861208014662 Helix-turn-helix domains; Region: HTH; cl00088 861208014663 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 861208014664 dimerization interface [polypeptide binding]; other site 861208014665 substrate binding pocket [chemical binding]; other site 861208014666 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 861208014667 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 861208014668 N-terminal plug; other site 861208014669 ligand-binding site [chemical binding]; other site 861208014670 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 861208014671 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 861208014672 siderophore binding site; other site 861208014673 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 861208014674 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 861208014675 ABC-ATPase subunit interface; other site 861208014676 dimer interface [polypeptide binding]; other site 861208014677 putative PBP binding regions; other site 861208014678 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 861208014679 ABC-ATPase subunit interface; other site 861208014680 dimer interface [polypeptide binding]; other site 861208014681 putative PBP binding regions; other site 861208014682 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 861208014683 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 861208014684 Walker A/P-loop; other site 861208014685 ATP binding site [chemical binding]; other site 861208014686 Q-loop/lid; other site 861208014687 ABC transporter signature motif; other site 861208014688 Walker B; other site 861208014689 D-loop; other site 861208014690 H-loop/switch region; other site 861208014691 Protein of unknown function (DUF992); Region: DUF992; pfam06186 861208014692 Cytochrome c; Region: Cytochrom_C; cl11414 861208014693 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 861208014694 RecX family; Region: RecX; cl00936 861208014695 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 861208014696 Strictosidine synthase; Region: Str_synth; pfam03088 861208014697 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 861208014698 TM-ABC transporter signature motif; other site 861208014699 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 861208014700 TM-ABC transporter signature motif; other site 861208014701 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208014702 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208014703 Walker A/P-loop; other site 861208014704 ATP binding site [chemical binding]; other site 861208014705 Q-loop/lid; other site 861208014706 ABC transporter signature motif; other site 861208014707 Walker B; other site 861208014708 D-loop; other site 861208014709 H-loop/switch region; other site 861208014710 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 861208014711 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 861208014712 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208014713 GAF domain; Region: GAF; cl15785 861208014714 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 861208014715 Histidine kinase; Region: HisKA_3; pfam07730 861208014716 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 861208014717 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 861208014718 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 861208014719 active site 861208014720 phosphorylation site [posttranslational modification] 861208014721 intermolecular recognition site; other site 861208014722 dimerization interface [polypeptide binding]; other site 861208014723 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 861208014724 DNA binding residues [nucleotide binding] 861208014725 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 861208014726 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 861208014727 active site 861208014728 DNA binding site [nucleotide binding] 861208014729 Int/Topo IB signature motif; other site 861208014730 catalytic residues [active] 861208014731 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 861208014732 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 861208014733 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; cl16911 861208014734 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 861208014735 active site 861208014736 Uncharacterized conserved protein [Function unknown]; Region: COG1739 861208014737 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 861208014738 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 861208014739 Predicted flavoproteins [General function prediction only]; Region: COG2081 861208014740 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 861208014741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014742 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 861208014743 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 861208014744 Walker A/P-loop; other site 861208014745 ATP binding site [chemical binding]; other site 861208014746 Q-loop/lid; other site 861208014747 ABC transporter signature motif; other site 861208014748 Walker B; other site 861208014749 D-loop; other site 861208014750 H-loop/switch region; other site 861208014751 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 861208014752 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 861208014753 dimer interface [polypeptide binding]; other site 861208014754 conserved gate region; other site 861208014755 putative PBP binding loops; other site 861208014756 ABC-ATPase subunit interface; other site 861208014757 NMT1-like family; Region: NMT1_2; cl15260 861208014758 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 861208014759 PAS fold; Region: PAS_4; pfam08448 861208014760 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 861208014761 putative active site [active] 861208014762 heme pocket [chemical binding]; other site 861208014763 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 861208014764 PAS fold; Region: PAS_3; pfam08447 861208014765 putative active site [active] 861208014766 heme pocket [chemical binding]; other site 861208014767 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 861208014768 dimer interface [polypeptide binding]; other site 861208014769 phosphorylation site [posttranslational modification] 861208014770 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 861208014771 ATP binding site [chemical binding]; other site 861208014772 Mg2+ binding site [ion binding]; other site 861208014773 G-X-G motif; other site 861208014774 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 861208014775 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 861208014776 active site 861208014777 phosphorylation site [posttranslational modification] 861208014778 intermolecular recognition site; other site 861208014779 dimerization interface [polypeptide binding]; other site 861208014780 Response regulator receiver domain; Region: Response_reg; pfam00072 861208014781 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 861208014782 active site 861208014783 phosphorylation site [posttranslational modification] 861208014784 intermolecular recognition site; other site 861208014785 dimerization interface [polypeptide binding]; other site 861208014786 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 861208014787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014788 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 861208014789 Chain length determinant protein; Region: Wzz; cl15801 861208014790 Chain length determinant protein; Region: Wzz; cl15801 861208014791 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208014792 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 861208014793 active site 861208014794 tetramer interface; other site 861208014795 putative glycosyl transferase; Provisional; Region: PRK10073 861208014796 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 861208014797 active site 861208014798 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 861208014799 active site 861208014800 mycofactocin system glycosyltransferase; Region: mycofact_glyco; TIGR03965 861208014801 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 861208014802 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 861208014803 Ligand binding site; other site 861208014804 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 861208014805 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 861208014806 active site 861208014807 active site 861208014808 catalytic residues [active] 861208014809 Acyltransferase family; Region: Acyl_transf_3; pfam01757 861208014810 OpgC protein; Region: OpgC_C; cl00792 861208014811 colanic acid exporter; Provisional; Region: PRK10459 861208014812 MatE; Region: MatE; cl10513 861208014813 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 861208014814 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 861208014815 active site 861208014816 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 861208014817 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 861208014818 active site 861208014819 Exopolysaccharide production repressor; Region: SyrA; pfam11089 861208014820 TPR repeat; Region: TPR_11; pfam13414 861208014821 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 861208014822 binding surface 861208014823 TPR motif; other site 861208014824 TPR repeat; Region: TPR_11; pfam13414 861208014825 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 861208014826 binding surface 861208014827 TPR motif; other site 861208014828 TPR repeat; Region: TPR_11; pfam13414 861208014829 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 861208014830 TPR repeat; Region: TPR_11; pfam13414 861208014831 binding surface 861208014832 TPR motif; other site 861208014833 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 861208014834 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 861208014835 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 861208014836 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 861208014837 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 861208014838 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 861208014839 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 861208014840 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 861208014841 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 861208014842 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 861208014843 substrate binding pocket [chemical binding]; other site 861208014844 membrane-bound complex binding site; other site 861208014845 hinge residues; other site 861208014846 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 861208014847 putative active site [active] 861208014848 putative catalytic site [active] 861208014849 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 861208014850 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 861208014851 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 861208014852 active site 861208014853 catalytic site [active] 861208014854 phosphoglucomutase; Region: PLN02307 861208014855 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 861208014856 substrate binding site [chemical binding]; other site 861208014857 dimer interface [polypeptide binding]; other site 861208014858 active site 861208014859 metal binding site [ion binding]; metal-binding site 861208014860 glycogen synthase; Provisional; Region: glgA; PRK00654 861208014861 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 861208014862 ADP-binding pocket [chemical binding]; other site 861208014863 homodimer interface [polypeptide binding]; other site 861208014864 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 861208014865 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 861208014866 ligand binding site; other site 861208014867 oligomer interface; other site 861208014868 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 861208014869 dimer interface [polypeptide binding]; other site 861208014870 N-terminal domain interface [polypeptide binding]; other site 861208014871 sulfate 1 binding site; other site 861208014872 glycogen branching enzyme; Provisional; Region: PRK05402 861208014873 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 861208014874 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 861208014875 active site 861208014876 catalytic site [active] 861208014877 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 861208014878 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 861208014879 homodimer interface [polypeptide binding]; other site 861208014880 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 861208014881 active site pocket [active] 861208014882 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 861208014883 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 861208014884 putative active site [active] 861208014885 putative dimer interface [polypeptide binding]; other site 861208014886 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 861208014887 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 861208014888 Helix-turn-helix domains; Region: HTH; cl00088 861208014889 AsnC family; Region: AsnC_trans_reg; pfam01037 861208014890 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 861208014891 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 861208014892 active site 861208014893 catalytic residues [active] 861208014894 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 861208014895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014896 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 861208014897 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 861208014898 NADP binding site [chemical binding]; other site 861208014899 homodimer interface [polypeptide binding]; other site 861208014900 active site 861208014901 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 861208014902 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 861208014903 putative NAD(P) binding site [chemical binding]; other site 861208014904 catalytic Zn binding site [ion binding]; other site 861208014905 Predicted transcriptional regulators [Transcription]; Region: COG1510 861208014906 Helix-turn-helix domains; Region: HTH; cl00088 861208014907 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 861208014908 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 861208014909 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 861208014910 Walker A/P-loop; other site 861208014911 ATP binding site [chemical binding]; other site 861208014912 Q-loop/lid; other site 861208014913 ABC transporter signature motif; other site 861208014914 Walker B; other site 861208014915 D-loop; other site 861208014916 H-loop/switch region; other site 861208014917 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 861208014918 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208014919 Walker A/P-loop; other site 861208014920 ATP binding site [chemical binding]; other site 861208014921 Q-loop/lid; other site 861208014922 ABC transporter signature motif; other site 861208014923 Walker B; other site 861208014924 D-loop; other site 861208014925 H-loop/switch region; other site 861208014926 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 861208014927 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 861208014928 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 861208014929 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 861208014930 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 861208014931 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 861208014932 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 861208014933 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 861208014934 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 861208014935 dimerization interface [polypeptide binding]; other site 861208014936 active site 861208014937 L-aspartate oxidase; Provisional; Region: PRK07512 861208014938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208014939 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 861208014940 Quinolinate synthetase A protein; Region: NadA; cl00420 861208014941 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 861208014942 putative diguanylate cyclase; Provisional; Region: PRK09776 861208014943 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 861208014944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 861208014945 cytidylate kinase; Provisional; Region: cmk; PRK00023 861208014946 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 861208014947 CMP-binding site; other site 861208014948 The sites determining sugar specificity; other site 861208014949 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 861208014950 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 861208014951 RNA binding site [nucleotide binding]; other site 861208014952 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 861208014953 RNA binding site [nucleotide binding]; other site 861208014954 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 861208014955 RNA binding site [nucleotide binding]; other site 861208014956 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 861208014957 RNA binding site [nucleotide binding]; other site 861208014958 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 861208014959 RNA binding site [nucleotide binding]; other site 861208014960 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 861208014961 RNA binding site [nucleotide binding]; other site 861208014962 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 861208014963 catalytic site [active] 861208014964 putative active site [active] 861208014965 putative substrate binding site [chemical binding]; other site 861208014966 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 861208014967 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 861208014968 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 861208014969 putative NAD(P) binding site [chemical binding]; other site 861208014970 homodimer interface [polypeptide binding]; other site 861208014971 homotetramer interface [polypeptide binding]; other site 861208014972 active site 861208014973 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 861208014974 active site 861208014975 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 861208014976 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208014977 peptide binding site [polypeptide binding]; other site 861208014978 potential frameshift: common BLAST hit: gi|15890860|ref|NP_356532.1| ABC transporter, membrane spanning protein (dipeptide) 861208014979 dipeptide transporter permease DppB; Provisional; Region: PRK10914 861208014980 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 861208014981 dimer interface [polypeptide binding]; other site 861208014982 conserved gate region; other site 861208014983 putative PBP binding loops; other site 861208014984 ABC-ATPase subunit interface; other site 861208014985 dipeptide transporter; Provisional; Region: PRK10913 861208014986 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 861208014987 putative PBP binding loops; other site 861208014988 dimer interface [polypeptide binding]; other site 861208014989 ABC-ATPase subunit interface; other site 861208014990 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 861208014991 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 861208014992 Walker A/P-loop; other site 861208014993 ATP binding site [chemical binding]; other site 861208014994 Q-loop/lid; other site 861208014995 ABC transporter signature motif; other site 861208014996 Walker B; other site 861208014997 D-loop; other site 861208014998 H-loop/switch region; other site 861208014999 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208015000 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 861208015001 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208015002 Walker A/P-loop; other site 861208015003 ATP binding site [chemical binding]; other site 861208015004 Q-loop/lid; other site 861208015005 ABC transporter signature motif; other site 861208015006 Walker B; other site 861208015007 D-loop; other site 861208015008 H-loop/switch region; other site 861208015009 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208015010 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208015011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208015012 DNA-binding site [nucleotide binding]; DNA binding site 861208015013 FCD domain; Region: FCD; cl11656 861208015014 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 861208015015 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 861208015016 active site pocket [active] 861208015017 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 861208015018 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 861208015019 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208015020 Helix-turn-helix domains; Region: HTH; cl00088 861208015021 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 861208015022 dimerization interface [polypeptide binding]; other site 861208015023 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 861208015024 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 861208015025 putative ligand binding site [chemical binding]; other site 861208015026 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 861208015027 Walker A/P-loop; other site 861208015028 ATP binding site [chemical binding]; other site 861208015029 ABC transporter; Region: ABC_tran; pfam00005 861208015030 Q-loop/lid; other site 861208015031 ABC transporter signature motif; other site 861208015032 Walker B; other site 861208015033 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 861208015034 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 861208015035 Walker A/P-loop; other site 861208015036 ATP binding site [chemical binding]; other site 861208015037 Q-loop/lid; other site 861208015038 ABC transporter signature motif; other site 861208015039 Walker B; other site 861208015040 D-loop; other site 861208015041 H-loop/switch region; other site 861208015042 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 861208015043 TM-ABC transporter signature motif; other site 861208015044 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 861208015045 TM-ABC transporter signature motif; other site 861208015046 choline dehydrogenase; Validated; Region: PRK02106 861208015047 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 861208015048 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015049 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 861208015050 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 861208015051 AMP-binding enzyme; Region: AMP-binding; cl15778 861208015052 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 861208015053 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 861208015054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015055 NAD(P) binding site [chemical binding]; other site 861208015056 active site 861208015057 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 861208015058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208015059 Membrane-associating domain; Region: MARVEL; pfam01284 861208015060 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 861208015061 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 861208015062 Trp docking motif [polypeptide binding]; other site 861208015063 putative active site [active] 861208015064 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 861208015065 dimerization interface [polypeptide binding]; other site 861208015066 metal binding site [ion binding]; metal-binding site 861208015067 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 861208015068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015069 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 861208015070 intracellular protease, PfpI family; Region: PfpI; TIGR01382 861208015071 proposed catalytic triad [active] 861208015072 conserved cys residue [active] 861208015073 N-formylglutamate amidohydrolase; Region: FGase; cl01522 861208015074 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 861208015075 conserved hypothetical protein; Region: QEGLA; TIGR02421 861208015076 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 861208015077 glutathione synthetase; Provisional; Region: PRK12458 861208015078 ATP-grasp domain; Region: ATP-grasp_4; cl03087 861208015079 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 861208015080 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 861208015081 putative NAD(P) binding site [chemical binding]; other site 861208015082 active site 861208015083 putative substrate binding site [chemical binding]; other site 861208015084 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 861208015085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015086 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 861208015087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015088 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 861208015089 EamA-like transporter family; Region: EamA; cl01037 861208015090 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 861208015091 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 861208015092 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 861208015093 putative dimer interface [polypeptide binding]; other site 861208015094 N-terminal domain interface [polypeptide binding]; other site 861208015095 putative substrate binding pocket (H-site) [chemical binding]; other site 861208015096 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208015097 Helix-turn-helix domains; Region: HTH; cl00088 861208015098 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 861208015099 dimerization interface [polypeptide binding]; other site 861208015100 substrate binding pocket [chemical binding]; other site 861208015101 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208015102 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 861208015103 tetrameric interface [polypeptide binding]; other site 861208015104 NAD binding site [chemical binding]; other site 861208015105 catalytic residues [active] 861208015106 NMT1-like family; Region: NMT1_2; cl15260 861208015107 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 861208015108 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 861208015109 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 861208015110 dimer interface [polypeptide binding]; other site 861208015111 conserved gate region; other site 861208015112 ABC-ATPase subunit interface; other site 861208015113 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 861208015114 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 861208015115 Walker A/P-loop; other site 861208015116 ATP binding site [chemical binding]; other site 861208015117 Q-loop/lid; other site 861208015118 ABC transporter signature motif; other site 861208015119 Walker B; other site 861208015120 D-loop; other site 861208015121 H-loop/switch region; other site 861208015122 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 861208015123 Proline dehydrogenase; Region: Pro_dh; cl03282 861208015124 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 861208015125 Glutamate binding site [chemical binding]; other site 861208015126 NAD binding site [chemical binding]; other site 861208015127 catalytic residues [active] 861208015128 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 861208015129 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 861208015130 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 861208015131 putative DNA binding site [nucleotide binding]; other site 861208015132 putative Zn2+ binding site [ion binding]; other site 861208015133 AsnC family; Region: AsnC_trans_reg; pfam01037 861208015134 RNA polymerase sigma factor; Provisional; Region: PRK12547 861208015135 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208015136 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 861208015137 DNA binding residues [nucleotide binding] 861208015138 two-component response regulator; Provisional; Region: PRK09191 861208015139 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 861208015140 active site 861208015141 phosphorylation site [posttranslational modification] 861208015142 intermolecular recognition site; other site 861208015143 dimerization interface [polypeptide binding]; other site 861208015144 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 861208015145 Histidine kinase; Region: HisKA_2; cl06527 861208015146 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 861208015147 Histidine kinase; Region: HisKA_2; cl06527 861208015148 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 861208015149 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 861208015150 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 861208015151 NAD binding site [chemical binding]; other site 861208015152 homodimer interface [polypeptide binding]; other site 861208015153 active site 861208015154 substrate binding site [chemical binding]; other site 861208015155 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 861208015156 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 861208015157 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 861208015158 dimer interface [polypeptide binding]; other site 861208015159 active site 861208015160 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 861208015161 catalytic residues [active] 861208015162 substrate binding site [chemical binding]; other site 861208015163 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 861208015164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015165 NAD(P) binding pocket [chemical binding]; other site 861208015166 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 861208015167 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 861208015168 ATP binding site [chemical binding]; other site 861208015169 Mg++ binding site [ion binding]; other site 861208015170 motif III; other site 861208015171 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 861208015172 nucleotide binding region [chemical binding]; other site 861208015173 ATP-binding site [chemical binding]; other site 861208015174 DbpA RNA binding domain; Region: DbpA; pfam03880 861208015175 aspartate kinase; Reviewed; Region: PRK06635 861208015176 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 861208015177 putative nucleotide binding site [chemical binding]; other site 861208015178 putative catalytic residues [active] 861208015179 putative Mg ion binding site [ion binding]; other site 861208015180 putative aspartate binding site [chemical binding]; other site 861208015181 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 861208015182 putative allosteric regulatory site; other site 861208015183 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 861208015184 putative allosteric regulatory residue; other site 861208015185 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 861208015186 GAF domain; Region: GAF; cl15785 861208015187 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 861208015188 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 861208015189 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 861208015190 peptide chain release factor 1; Validated; Region: prfA; PRK00591 861208015191 RF-1 domain; Region: RF-1; cl02875 861208015192 RF-1 domain; Region: RF-1; cl02875 861208015193 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 861208015194 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 861208015195 S-adenosylmethionine binding site [chemical binding]; other site 861208015196 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 861208015197 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 861208015198 Clp amino terminal domain; Region: Clp_N; pfam02861 861208015199 Clp amino terminal domain; Region: Clp_N; pfam02861 861208015200 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 861208015201 Walker A motif; other site 861208015202 ATP binding site [chemical binding]; other site 861208015203 Walker B motif; other site 861208015204 arginine finger; other site 861208015205 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 861208015206 Walker A motif; other site 861208015207 ATP binding site [chemical binding]; other site 861208015208 Walker B motif; other site 861208015209 arginine finger; other site 861208015210 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 861208015211 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 861208015212 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 861208015213 nucleotide binding site [chemical binding]; other site 861208015214 SulA interaction site; other site 861208015215 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 861208015216 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 861208015217 dimer interface [polypeptide binding]; other site 861208015218 active site 861208015219 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208015220 Helix-turn-helix domains; Region: HTH; cl00088 861208015221 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 861208015222 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 861208015223 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 861208015224 Helix-turn-helix domains; Region: HTH; cl00088 861208015225 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 861208015226 classical (c) SDRs; Region: SDR_c; cd05233 861208015227 NAD(P) binding site [chemical binding]; other site 861208015228 active site 861208015229 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 861208015230 FMN binding site [chemical binding]; other site 861208015231 active site 861208015232 substrate binding site [chemical binding]; other site 861208015233 catalytic residue [active] 861208015234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015235 NAD(P) binding site [chemical binding]; other site 861208015236 active site 861208015237 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 861208015238 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 861208015239 putative NAD(P) binding site [chemical binding]; other site 861208015240 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208015241 Helix-turn-helix domains; Region: HTH; cl00088 861208015242 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 861208015243 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 861208015244 putative molybdopterin cofactor binding site [chemical binding]; other site 861208015245 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 861208015246 putative molybdopterin cofactor binding site; other site 861208015247 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 861208015248 putative substrate translocation pore; other site 861208015249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015250 FAD binding domain; Region: FAD_binding_3; pfam01494 861208015251 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 861208015252 ligand binding site [chemical binding]; other site 861208015253 flexible hinge region; other site 861208015254 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 861208015255 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; cl09957 861208015256 Response regulator receiver domain; Region: Response_reg; pfam00072 861208015257 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 861208015258 active site 861208015259 phosphorylation site [posttranslational modification] 861208015260 intermolecular recognition site; other site 861208015261 dimerization interface [polypeptide binding]; other site 861208015262 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 861208015263 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 861208015264 active site 861208015265 phosphorylation site [posttranslational modification] 861208015266 intermolecular recognition site; other site 861208015267 dimerization interface [polypeptide binding]; other site 861208015268 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 861208015269 DNA binding residues [nucleotide binding] 861208015270 dimerization interface [polypeptide binding]; other site 861208015271 PAS domain; Region: PAS_9; pfam13426 861208015272 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 861208015273 dimer interface [polypeptide binding]; other site 861208015274 phosphorylation site [posttranslational modification] 861208015275 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 861208015276 ATP binding site [chemical binding]; other site 861208015277 Mg2+ binding site [ion binding]; other site 861208015278 G-X-G motif; other site 861208015279 Cupin domain; Region: Cupin_2; cl09118 861208015280 Cupin domain; Region: Cupin_2; cl09118 861208015281 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 861208015282 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 861208015283 dimerization interface [polypeptide binding]; other site 861208015284 DPS ferroxidase diiron center [ion binding]; other site 861208015285 ion pore; other site 861208015286 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 861208015287 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 861208015288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208015289 Helix-turn-helix domains; Region: HTH; cl00088 861208015290 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 861208015291 putative effector binding pocket; other site 861208015292 putative dimerization interface [polypeptide binding]; other site 861208015293 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 861208015294 short chain dehydrogenase; Provisional; Region: PRK06523 861208015295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015296 NAD(P) binding site [chemical binding]; other site 861208015297 active site 861208015298 Helix-turn-helix domains; Region: HTH; cl00088 861208015299 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 861208015300 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 861208015301 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 861208015302 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 861208015303 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 861208015304 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; cl15777 861208015305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208015306 Helix-turn-helix domains; Region: HTH; cl00088 861208015307 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 861208015308 putative effector binding pocket; other site 861208015309 dimerization interface [polypeptide binding]; other site 861208015310 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 861208015311 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 861208015312 Zn binding site [ion binding]; other site 861208015313 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 861208015314 Zn binding site [ion binding]; other site 861208015315 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208015316 Helix-turn-helix domains; Region: HTH; cl00088 861208015317 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 861208015318 putative effector binding pocket; other site 861208015319 putative dimerization interface [polypeptide binding]; other site 861208015320 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 861208015321 Isochorismatase family; Region: Isochorismatase; pfam00857 861208015322 catalytic triad [active] 861208015323 dimer interface [polypeptide binding]; other site 861208015324 conserved cis-peptide bond; other site 861208015325 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 861208015326 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 861208015327 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 861208015328 active site 861208015329 DoxX; Region: DoxX; cl00976 861208015330 Transmembrane secretion effector; Region: MFS_3; pfam05977 861208015331 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 861208015332 putative substrate translocation pore; other site 861208015333 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 861208015334 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 861208015335 catalytic loop [active] 861208015336 iron binding site [ion binding]; other site 861208015337 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 861208015338 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 861208015339 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 861208015340 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 861208015341 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 861208015342 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 861208015343 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 861208015344 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 861208015345 XdhC Rossmann domain; Region: XdhC_C; pfam13478 861208015346 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 861208015347 metal-binding site 861208015348 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 861208015349 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 861208015350 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 861208015351 conserved cys residue [active] 861208015352 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208015353 bacterio-opsin activator; Provisional; Region: PRK13558 861208015354 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 861208015355 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208015356 metal binding site [ion binding]; metal-binding site 861208015357 active site 861208015358 I-site; other site 861208015359 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 861208015360 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 861208015361 DNA-binding site [nucleotide binding]; DNA binding site 861208015362 RNA-binding motif; other site 861208015363 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 861208015364 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 861208015365 Walker A/P-loop; other site 861208015366 ATP binding site [chemical binding]; other site 861208015367 Q-loop/lid; other site 861208015368 ABC transporter signature motif; other site 861208015369 Walker B; other site 861208015370 D-loop; other site 861208015371 H-loop/switch region; other site 861208015372 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 861208015373 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 861208015374 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 861208015375 NMT1-like family; Region: NMT1_2; cl15260 861208015376 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 861208015377 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 861208015378 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208015379 DNA-binding site [nucleotide binding]; DNA binding site 861208015380 UTRA domain; Region: UTRA; cl01230 861208015381 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 861208015382 active sites [active] 861208015383 tetramer interface [polypeptide binding]; other site 861208015384 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 861208015385 NMT1-like family; Region: NMT1_2; cl15260 861208015386 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 861208015387 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 861208015388 putative di-iron ligands [ion binding]; other site 861208015389 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208015390 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 861208015391 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 861208015392 Walker A/P-loop; other site 861208015393 ATP binding site [chemical binding]; other site 861208015394 Q-loop/lid; other site 861208015395 ABC transporter signature motif; other site 861208015396 Walker B; other site 861208015397 D-loop; other site 861208015398 H-loop/switch region; other site 861208015399 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208015400 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 861208015401 Walker A/P-loop; other site 861208015402 ATP binding site [chemical binding]; other site 861208015403 Q-loop/lid; other site 861208015404 ABC transporter signature motif; other site 861208015405 Walker B; other site 861208015406 D-loop; other site 861208015407 H-loop/switch region; other site 861208015408 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208015409 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 861208015410 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 861208015411 dimer interface [polypeptide binding]; other site 861208015412 conserved gate region; other site 861208015413 ABC-ATPase subunit interface; other site 861208015414 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 861208015415 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 861208015416 dimer interface [polypeptide binding]; other site 861208015417 conserved gate region; other site 861208015418 putative PBP binding loops; other site 861208015419 ABC-ATPase subunit interface; other site 861208015420 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 861208015421 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 861208015422 peptide binding site [polypeptide binding]; other site 861208015423 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 861208015424 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 861208015425 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 861208015426 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 861208015427 dimer interface [polypeptide binding]; other site 861208015428 putative CheW interface [polypeptide binding]; other site 861208015429 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 861208015430 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 861208015431 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 861208015432 NAD(P) binding site [chemical binding]; other site 861208015433 catalytic residues [active] 861208015434 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 861208015435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015436 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208015437 Helix-turn-helix domains; Region: HTH; cl00088 861208015438 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 861208015439 dimerization interface [polypeptide binding]; other site 861208015440 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 861208015441 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 861208015442 metal binding site [ion binding]; metal-binding site 861208015443 putative dimer interface [polypeptide binding]; other site 861208015444 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 861208015445 Transcriptional regulators [Transcription]; Region: FadR; COG2186 861208015446 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208015447 DNA-binding site [nucleotide binding]; DNA binding site 861208015448 FCD domain; Region: FCD; cl11656 861208015449 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 861208015450 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 861208015451 dimer interface [polypeptide binding]; other site 861208015452 conserved gate region; other site 861208015453 putative PBP binding loops; other site 861208015454 ABC-ATPase subunit interface; other site 861208015455 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208015456 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 861208015457 dimer interface [polypeptide binding]; other site 861208015458 conserved gate region; other site 861208015459 putative PBP binding loops; other site 861208015460 ABC-ATPase subunit interface; other site 861208015461 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 861208015462 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208015463 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 861208015464 Walker A/P-loop; other site 861208015465 ATP binding site [chemical binding]; other site 861208015466 Q-loop/lid; other site 861208015467 ABC transporter signature motif; other site 861208015468 Walker B; other site 861208015469 D-loop; other site 861208015470 H-loop/switch region; other site 861208015471 TOBE domain; Region: TOBE_2; cl01440 861208015472 Protein of unknown function, DUF624; Region: DUF624; cl02369 861208015473 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208015474 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 861208015475 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 861208015476 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 861208015477 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 861208015478 trimer interface [polypeptide binding]; other site 861208015479 active site 861208015480 substrate binding site [chemical binding]; other site 861208015481 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 861208015482 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208015483 metal binding site [ion binding]; metal-binding site 861208015484 active site 861208015485 I-site; other site 861208015486 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 861208015487 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 861208015488 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208015489 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208015490 DNA binding site [nucleotide binding] 861208015491 domain linker motif; other site 861208015492 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_11; cd06293 861208015493 putative dimerization interface [polypeptide binding]; other site 861208015494 putative ligand binding site [chemical binding]; other site 861208015495 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 861208015496 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208015497 ligand binding site [chemical binding]; other site 861208015498 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 861208015499 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 861208015500 Walker A/P-loop; other site 861208015501 ATP binding site [chemical binding]; other site 861208015502 Q-loop/lid; other site 861208015503 ABC transporter signature motif; other site 861208015504 Walker B; other site 861208015505 D-loop; other site 861208015506 H-loop/switch region; other site 861208015507 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 861208015508 TM-ABC transporter signature motif; other site 861208015509 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 861208015510 active site 861208015511 substrate binding pocket [chemical binding]; other site 861208015512 homodimer interaction site [polypeptide binding]; other site 861208015513 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 861208015514 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 861208015515 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208015516 substrate binding site [chemical binding]; other site 861208015517 dimer interface [polypeptide binding]; other site 861208015518 ATP binding site [chemical binding]; other site 861208015519 BtpA family; Region: BtpA; cl00440 861208015520 allantoate amidohydrolase; Reviewed; Region: PRK12893 861208015521 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 861208015522 active site 861208015523 metal binding site [ion binding]; metal-binding site 861208015524 dimer interface [polypeptide binding]; other site 861208015525 Fasciclin domain; Region: Fasciclin; cl02663 861208015526 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 861208015527 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 861208015528 substrate binding site [chemical binding]; other site 861208015529 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 861208015530 substrate binding site [chemical binding]; other site 861208015531 ligand binding site [chemical binding]; other site 861208015532 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 861208015533 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 861208015534 active site 861208015535 dimer interface [polypeptide binding]; other site 861208015536 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 861208015537 Ligand Binding Site [chemical binding]; other site 861208015538 Molecular Tunnel; other site 861208015539 Phosphopantetheine attachment site; Region: PP-binding; cl09936 861208015540 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 861208015541 AMP-binding enzyme; Region: AMP-binding; cl15778 861208015542 AMP-binding enzyme; Region: AMP-binding; cl15778 861208015543 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 861208015544 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 861208015545 homodimer interface [polypeptide binding]; other site 861208015546 NAD binding pocket [chemical binding]; other site 861208015547 ATP binding pocket [chemical binding]; other site 861208015548 Mg binding site [ion binding]; other site 861208015549 active-site loop [active] 861208015550 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 861208015551 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 861208015552 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 861208015553 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 861208015554 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 861208015555 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 861208015556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015557 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 861208015558 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 861208015559 conserved cys residue [active] 861208015560 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208015561 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 861208015562 Walker A/P-loop; other site 861208015563 ATP binding site [chemical binding]; other site 861208015564 Q-loop/lid; other site 861208015565 ABC transporter signature motif; other site 861208015566 Walker B; other site 861208015567 D-loop; other site 861208015568 H-loop/switch region; other site 861208015569 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 861208015570 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 861208015571 TM-ABC transporter signature motif; other site 861208015572 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 861208015573 TM-ABC transporter signature motif; other site 861208015574 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 861208015575 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208015576 ligand binding site [chemical binding]; other site 861208015577 Transcriptional regulators [Transcription]; Region: GntR; COG1802 861208015578 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 861208015579 DNA-binding site [nucleotide binding]; DNA binding site 861208015580 FCD domain; Region: FCD; cl11656 861208015581 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208015582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015583 NAD(P) binding site [chemical binding]; other site 861208015584 active site 861208015585 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 861208015586 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 861208015587 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 861208015588 mannonate dehydratase; Provisional; Region: PRK03906 861208015589 mannonate dehydratase; Region: uxuA; TIGR00695 861208015590 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 861208015591 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 861208015592 active site 861208015593 catalytic tetrad [active] 861208015594 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 861208015595 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 861208015596 active site 861208015597 Major Facilitator Superfamily; Region: MFS_1; pfam07690 861208015598 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 861208015599 putative substrate translocation pore; other site 861208015600 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208015601 Helix-turn-helix domains; Region: HTH; cl00088 861208015602 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 861208015603 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 861208015604 inhibitor binding site; inhibition site 861208015605 catalytic Zn binding site [ion binding]; other site 861208015606 structural Zn binding site [ion binding]; other site 861208015607 NADP binding site [chemical binding]; other site 861208015608 tetramer interface [polypeptide binding]; other site 861208015609 Cupin domain; Region: Cupin_2; cl09118 861208015610 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208015611 Helix-turn-helix domain; Region: HTH_18; pfam12833 861208015612 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208015613 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 861208015614 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208015615 putative ligand binding site [chemical binding]; other site 861208015616 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 861208015617 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 861208015618 Walker A/P-loop; other site 861208015619 ATP binding site [chemical binding]; other site 861208015620 Q-loop/lid; other site 861208015621 ABC transporter signature motif; other site 861208015622 Walker B; other site 861208015623 D-loop; other site 861208015624 H-loop/switch region; other site 861208015625 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 861208015626 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 861208015627 TM-ABC transporter signature motif; other site 861208015628 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 861208015629 classical (c) SDRs; Region: SDR_c; cd05233 861208015630 NAD(P) binding site [chemical binding]; other site 861208015631 active site 861208015632 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 861208015633 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 861208015634 N- and C-terminal domain interface [polypeptide binding]; other site 861208015635 putative active site [active] 861208015636 putative MgATP binding site [chemical binding]; other site 861208015637 catalytic site [active] 861208015638 metal binding site [ion binding]; metal-binding site 861208015639 carbohydrate binding site [chemical binding]; other site 861208015640 putative homodimer interface [polypeptide binding]; other site 861208015641 short chain dehydrogenase; Provisional; Region: PRK07060 861208015642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015643 NAD(P) binding site [chemical binding]; other site 861208015644 active site 861208015645 proline/glycine betaine transporter; Provisional; Region: PRK10642 861208015646 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 861208015647 putative substrate translocation pore; other site 861208015648 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 861208015649 active site 861208015650 dimerization interface [polypeptide binding]; other site 861208015651 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 861208015652 active site 861208015653 catalytic residues [active] 861208015654 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 861208015655 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 861208015656 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 861208015657 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 861208015658 PhoU domain; Region: PhoU; pfam01895 861208015659 PhoU domain; Region: PhoU; pfam01895 861208015660 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208015661 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208015662 DNA binding site [nucleotide binding] 861208015663 domain linker motif; other site 861208015664 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 861208015665 putative dimerization interface [polypeptide binding]; other site 861208015666 putative ligand binding site [chemical binding]; other site 861208015667 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 861208015668 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 861208015669 dimer interface [polypeptide binding]; other site 861208015670 conserved gate region; other site 861208015671 putative PBP binding loops; other site 861208015672 ABC-ATPase subunit interface; other site 861208015673 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 861208015674 dimer interface [polypeptide binding]; other site 861208015675 conserved gate region; other site 861208015676 putative PBP binding loops; other site 861208015677 ABC-ATPase subunit interface; other site 861208015678 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208015679 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208015680 Walker A/P-loop; other site 861208015681 ATP binding site [chemical binding]; other site 861208015682 Q-loop/lid; other site 861208015683 ABC transporter signature motif; other site 861208015684 Walker B; other site 861208015685 D-loop; other site 861208015686 H-loop/switch region; other site 861208015687 TOBE domain; Region: TOBE_2; cl01440 861208015688 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208015689 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 861208015690 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 861208015691 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 861208015692 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 861208015693 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 861208015694 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 861208015695 active site 861208015696 dimerization interface [polypeptide binding]; other site 861208015697 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 861208015698 active site 861208015699 catalytic residues [active] 861208015700 Integral membrane protein TerC family; Region: TerC; cl10468 861208015701 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 861208015702 Transporter associated domain; Region: CorC_HlyC; cl08393 861208015703 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 861208015704 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 861208015705 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208015706 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 861208015707 Walker A/P-loop; other site 861208015708 ATP binding site [chemical binding]; other site 861208015709 Q-loop/lid; other site 861208015710 ABC transporter signature motif; other site 861208015711 Walker B; other site 861208015712 D-loop; other site 861208015713 H-loop/switch region; other site 861208015714 TOBE domain; Region: TOBE_2; cl01440 861208015715 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208015716 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 861208015717 dimer interface [polypeptide binding]; other site 861208015718 conserved gate region; other site 861208015719 ABC-ATPase subunit interface; other site 861208015720 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 861208015721 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 861208015722 dimer interface [polypeptide binding]; other site 861208015723 conserved gate region; other site 861208015724 putative PBP binding loops; other site 861208015725 ABC-ATPase subunit interface; other site 861208015726 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208015727 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 861208015728 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 861208015729 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 861208015730 DNA interaction; other site 861208015731 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208015732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015733 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208015734 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208015735 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208015736 DNA binding site [nucleotide binding] 861208015737 domain linker motif; other site 861208015738 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 861208015739 ligand binding site [chemical binding]; other site 861208015740 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 861208015741 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 861208015742 conserved cys residue [active] 861208015743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208015744 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 861208015745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015746 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 861208015747 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 861208015748 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 861208015749 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 861208015750 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 861208015751 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 861208015752 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 861208015753 dimer interface [polypeptide binding]; other site 861208015754 active site 861208015755 glycine-pyridoxal phosphate binding site [chemical binding]; other site 861208015756 folate binding site [chemical binding]; other site 861208015757 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 861208015758 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 861208015759 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 861208015760 putative active site [active] 861208015761 putative substrate binding site [chemical binding]; other site 861208015762 putative cosubstrate binding site; other site 861208015763 catalytic site [active] 861208015764 Mechanosensitive ion channel; Region: MS_channel; pfam00924 861208015765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 861208015766 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 861208015767 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 861208015768 Sulfate transporter family; Region: Sulfate_transp; cl15842 861208015769 Sulfate transporter family; Region: Sulfate_transp; cl15842 861208015770 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 861208015771 Cupin domain; Region: Cupin_2; cl09118 861208015772 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 861208015773 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 861208015774 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 861208015775 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208015776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208015777 NAD(P) binding site [chemical binding]; other site 861208015778 active site 861208015779 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 861208015780 hydrophobic substrate binding pocket; other site 861208015781 Isochorismatase family; Region: Isochorismatase; pfam00857 861208015782 active site 861208015783 conserved cis-peptide bond; other site 861208015784 Phosphopantetheine attachment site; Region: PP-binding; cl09936 861208015785 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 861208015786 AMP-binding enzyme; Region: AMP-binding; cl15778 861208015787 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 861208015788 isochorismate synthase DhbC; Validated; Region: PRK06923 861208015789 chorismate binding enzyme; Region: Chorismate_bind; cl10555 861208015790 Condensation domain; Region: Condensation; pfam00668 861208015791 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 861208015792 Nonribosomal peptide synthase; Region: NRPS; pfam08415 861208015793 Condensation domain; Region: Condensation; pfam00668 861208015794 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 861208015795 Nonribosomal peptide synthase; Region: NRPS; pfam08415 861208015796 AMP-binding enzyme; Region: AMP-binding; cl15778 861208015797 AMP-binding enzyme; Region: AMP-binding; cl15778 861208015798 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 861208015799 peptide synthase; Validated; Region: PRK05691 861208015800 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 861208015801 Phosphopantetheine attachment site; Region: PP-binding; cl09936 861208015802 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 861208015803 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 861208015804 FAD binding pocket [chemical binding]; other site 861208015805 FAD binding motif [chemical binding]; other site 861208015806 phosphate binding motif [ion binding]; other site 861208015807 NAD binding pocket [chemical binding]; other site 861208015808 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 861208015809 intersubunit interface [polypeptide binding]; other site 861208015810 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 861208015811 ABC-ATPase subunit interface; other site 861208015812 dimer interface [polypeptide binding]; other site 861208015813 putative PBP binding regions; other site 861208015814 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 861208015815 ABC-ATPase subunit interface; other site 861208015816 dimer interface [polypeptide binding]; other site 861208015817 putative PBP binding regions; other site 861208015818 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 861208015819 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 861208015820 Walker A/P-loop; other site 861208015821 ATP binding site [chemical binding]; other site 861208015822 Q-loop/lid; other site 861208015823 ABC transporter signature motif; other site 861208015824 Walker B; other site 861208015825 D-loop; other site 861208015826 H-loop/switch region; other site 861208015827 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 861208015828 active site 861208015829 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 861208015830 non-prolyl cis peptide bond; other site 861208015831 Transcriptional regulator [Transcription]; Region: IclR; COG1414 861208015832 Helix-turn-helix domains; Region: HTH; cl00088 861208015833 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208015834 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 861208015835 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 861208015836 N-terminal plug; other site 861208015837 ligand-binding site [chemical binding]; other site 861208015838 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 861208015839 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 861208015840 FAD binding site [chemical binding]; other site 861208015841 substrate binding pocket [chemical binding]; other site 861208015842 catalytic base [active] 861208015843 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 861208015844 Helix-turn-helix domains; Region: HTH; cl00088 861208015845 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 861208015846 dimerization interface [polypeptide binding]; other site 861208015847 substrate binding pocket [chemical binding]; other site 861208015848 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208015849 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208015850 DNA binding site [nucleotide binding] 861208015851 domain linker motif; other site 861208015852 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 861208015853 dimerization interface [polypeptide binding]; other site 861208015854 ligand binding site [chemical binding]; other site 861208015855 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 861208015856 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 861208015857 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 861208015858 dimer interface [polypeptide binding]; other site 861208015859 conserved gate region; other site 861208015860 putative PBP binding loops; other site 861208015861 ABC-ATPase subunit interface; other site 861208015862 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 861208015863 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 861208015864 dimer interface [polypeptide binding]; other site 861208015865 conserved gate region; other site 861208015866 putative PBP binding loops; other site 861208015867 ABC-ATPase subunit interface; other site 861208015868 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208015869 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208015870 Walker A/P-loop; other site 861208015871 ATP binding site [chemical binding]; other site 861208015872 Q-loop/lid; other site 861208015873 ABC transporter signature motif; other site 861208015874 Walker B; other site 861208015875 D-loop; other site 861208015876 H-loop/switch region; other site 861208015877 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 861208015878 active site 861208015879 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 861208015880 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 861208015881 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 861208015882 active site 861208015883 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 861208015884 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 861208015885 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 861208015886 putative substrate translocation pore; other site 861208015887 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 861208015888 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 861208015889 metal binding site [ion binding]; metal-binding site 861208015890 putative dimer interface [polypeptide binding]; other site 861208015891 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 861208015892 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 861208015893 active site 861208015894 dimer interface [polypeptide binding]; other site 861208015895 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 861208015896 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208015897 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208015898 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 861208015899 dimer interface [polypeptide binding]; other site 861208015900 conserved gate region; other site 861208015901 putative PBP binding loops; other site 861208015902 ABC-ATPase subunit interface; other site 861208015903 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 861208015904 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 861208015905 dimer interface [polypeptide binding]; other site 861208015906 conserved gate region; other site 861208015907 putative PBP binding loops; other site 861208015908 ABC-ATPase subunit interface; other site 861208015909 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208015910 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 861208015911 Walker A/P-loop; other site 861208015912 ATP binding site [chemical binding]; other site 861208015913 Q-loop/lid; other site 861208015914 ABC transporter signature motif; other site 861208015915 Walker B; other site 861208015916 D-loop; other site 861208015917 H-loop/switch region; other site 861208015918 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208015919 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 861208015920 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 861208015921 Walker A/P-loop; other site 861208015922 ATP binding site [chemical binding]; other site 861208015923 Q-loop/lid; other site 861208015924 ABC transporter signature motif; other site 861208015925 Walker B; other site 861208015926 D-loop; other site 861208015927 H-loop/switch region; other site 861208015928 Transcriptional regulator [Transcription]; Region: LysR; COG0583 861208015929 Helix-turn-helix domains; Region: HTH; cl00088 861208015930 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 861208015931 dimerization interface [polypeptide binding]; other site 861208015932 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 861208015933 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208015934 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208015935 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 861208015936 dimer interface [polypeptide binding]; other site 861208015937 conserved gate region; other site 861208015938 putative PBP binding loops; other site 861208015939 ABC-ATPase subunit interface; other site 861208015940 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 861208015941 dimer interface [polypeptide binding]; other site 861208015942 conserved gate region; other site 861208015943 putative PBP binding loops; other site 861208015944 ABC-ATPase subunit interface; other site 861208015945 amidase; Provisional; Region: PRK07042 861208015946 Amidase; Region: Amidase; cl11426 861208015947 intracellular protease, PfpI family; Region: PfpI; TIGR01382 861208015948 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 861208015949 conserved cys residue [active] 861208015950 Ribbon-helix-helix domain; Region: RHH_4; cl01775 861208015951 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208015952 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 861208015953 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 861208015954 dimer interface [polypeptide binding]; other site 861208015955 conserved gate region; other site 861208015956 putative PBP binding loops; other site 861208015957 ABC-ATPase subunit interface; other site 861208015958 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208015959 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 861208015960 dimer interface [polypeptide binding]; other site 861208015961 conserved gate region; other site 861208015962 putative PBP binding loops; other site 861208015963 ABC-ATPase subunit interface; other site 861208015964 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 861208015965 peptide binding site [polypeptide binding]; other site 861208015966 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208015967 dimer interface [polypeptide binding]; other site 861208015968 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 861208015969 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 861208015970 metal binding site [ion binding]; metal-binding site 861208015971 putative dimer interface [polypeptide binding]; other site 861208015972 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 861208015973 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 861208015974 Walker A/P-loop; other site 861208015975 ATP binding site [chemical binding]; other site 861208015976 Q-loop/lid; other site 861208015977 ABC transporter signature motif; other site 861208015978 Walker B; other site 861208015979 D-loop; other site 861208015980 H-loop/switch region; other site 861208015981 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208015982 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 861208015983 Walker A/P-loop; other site 861208015984 ATP binding site [chemical binding]; other site 861208015985 Q-loop/lid; other site 861208015986 ABC transporter signature motif; other site 861208015987 Walker B; other site 861208015988 D-loop; other site 861208015989 H-loop/switch region; other site 861208015990 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208015991 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 861208015992 Helix-turn-helix domains; Region: HTH; cl00088 861208015993 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 861208015994 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208015995 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 861208015996 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 861208015997 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 861208015998 putative PBP binding loops; other site 861208015999 ABC-ATPase subunit interface; other site 861208016000 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208016001 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 861208016002 dimer interface [polypeptide binding]; other site 861208016003 conserved gate region; other site 861208016004 putative PBP binding loops; other site 861208016005 ABC-ATPase subunit interface; other site 861208016006 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208016007 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 861208016008 Walker A/P-loop; other site 861208016009 ATP binding site [chemical binding]; other site 861208016010 Q-loop/lid; other site 861208016011 ABC transporter signature motif; other site 861208016012 Walker B; other site 861208016013 D-loop; other site 861208016014 H-loop/switch region; other site 861208016015 TOBE domain; Region: TOBE_2; cl01440 861208016016 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 861208016017 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 861208016018 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 861208016019 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 861208016020 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 861208016021 motif II; other site 861208016022 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 861208016023 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 861208016024 N- and C-terminal domain interface [polypeptide binding]; other site 861208016025 putative active site [active] 861208016026 putative MgATP binding site [chemical binding]; other site 861208016027 catalytic site [active] 861208016028 metal binding site [ion binding]; metal-binding site 861208016029 carbohydrate binding site [chemical binding]; other site 861208016030 putative homodimer interface [polypeptide binding]; other site 861208016031 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 861208016032 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 861208016033 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 861208016034 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 861208016035 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 861208016036 minor groove reading motif; other site 861208016037 helix-hairpin-helix signature motif; other site 861208016038 substrate binding pocket [chemical binding]; other site 861208016039 active site 861208016040 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 861208016041 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 861208016042 Helix-turn-helix domain; Region: HTH_18; pfam12833 861208016043 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 861208016044 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 861208016045 DNA binding site [nucleotide binding] 861208016046 active site 861208016047 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 861208016048 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208016049 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 861208016050 transaldolase-like protein; Provisional; Region: PTZ00411 861208016051 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 861208016052 active site 861208016053 dimer interface [polypeptide binding]; other site 861208016054 catalytic residue [active] 861208016055 Transcriptional regulator [Transcription]; Region: IclR; COG1414 861208016056 Helix-turn-helix domains; Region: HTH; cl00088 861208016057 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208016058 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 861208016059 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 861208016060 NAD binding site [chemical binding]; other site 861208016061 homotetramer interface [polypeptide binding]; other site 861208016062 homodimer interface [polypeptide binding]; other site 861208016063 active site 861208016064 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 861208016065 ABC-ATPase subunit interface; other site 861208016066 dimer interface [polypeptide binding]; other site 861208016067 putative PBP binding regions; other site 861208016068 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 861208016069 ABC-ATPase subunit interface; other site 861208016070 dimer interface [polypeptide binding]; other site 861208016071 putative PBP binding regions; other site 861208016072 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 861208016073 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 861208016074 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 861208016075 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 861208016076 metal binding site [ion binding]; metal-binding site 861208016077 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 861208016078 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 861208016079 dimer interface [polypeptide binding]; other site 861208016080 putative anticodon binding site; other site 861208016081 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 861208016082 motif 1; other site 861208016083 active site 861208016084 motif 2; other site 861208016085 motif 3; other site 861208016086 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 861208016087 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 861208016088 HIGH motif; other site 861208016089 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 861208016090 active site 861208016091 KMSKS motif; other site 861208016092 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 861208016093 transmembrane helices; other site 861208016094 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 861208016095 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 861208016096 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 861208016097 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 861208016098 Integral membrane protein TerC family; Region: TerC; cl10468 861208016099 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208016100 Helix-turn-helix domains; Region: HTH; cl00088 861208016101 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 861208016102 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 861208016103 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 861208016104 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 861208016105 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 861208016106 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 861208016107 putative substrate translocation pore; other site 861208016108 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 861208016109 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 861208016110 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208016111 DNA binding site [nucleotide binding] 861208016112 domain linker motif; other site 861208016113 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 861208016114 putative ligand binding site [chemical binding]; other site 861208016115 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 861208016116 N- and C-terminal domain interface [polypeptide binding]; other site 861208016117 D-xylulose kinase; Region: XylB; TIGR01312 861208016118 active site 861208016119 catalytic site [active] 861208016120 metal binding site [ion binding]; metal-binding site 861208016121 xylulose binding site [chemical binding]; other site 861208016122 putative ATP binding site [chemical binding]; other site 861208016123 homodimer interface [polypeptide binding]; other site 861208016124 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 861208016125 deubiquitinase; Provisional; Region: PRK11836; cl08202 861208016126 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 861208016127 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 861208016128 dimer interface [polypeptide binding]; other site 861208016129 FMN binding site [chemical binding]; other site 861208016130 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 861208016131 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 861208016132 Walker A/P-loop; other site 861208016133 ATP binding site [chemical binding]; other site 861208016134 Q-loop/lid; other site 861208016135 ABC transporter signature motif; other site 861208016136 Walker B; other site 861208016137 D-loop; other site 861208016138 H-loop/switch region; other site 861208016139 NIL domain; Region: NIL; cl09633 861208016140 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 861208016141 dimer interface [polypeptide binding]; other site 861208016142 conserved gate region; other site 861208016143 ABC-ATPase subunit interface; other site 861208016144 NMT1-like family; Region: NMT1_2; cl15260 861208016145 CHASE4 domain; Region: CHASE4; cl01308 861208016146 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 861208016147 metal binding site [ion binding]; metal-binding site 861208016148 active site 861208016149 I-site; other site 861208016150 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 861208016151 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 861208016152 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 861208016153 active site residue [active] 861208016154 CHAD domain; Region: CHAD; cl10506 861208016155 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 861208016156 putative active site [active] 861208016157 putative metal binding residues [ion binding]; other site 861208016158 signature motif; other site 861208016159 putative dimer interface [polypeptide binding]; other site 861208016160 putative phosphate binding site [ion binding]; other site 861208016161 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 861208016162 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 861208016163 active site 861208016164 intersubunit interface [polypeptide binding]; other site 861208016165 catalytic residue [active] 861208016166 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 861208016167 putative metal binding site [ion binding]; other site 861208016168 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 861208016169 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208016170 High-affinity nickel-transport protein; Region: NicO; cl00964 861208016171 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 861208016172 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; cl01155 861208016173 sugar efflux transporter; Region: 2A0120; TIGR00899 861208016174 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 861208016175 structural tetrad; other site 861208016176 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 861208016177 structural tetrad; other site 861208016178 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 861208016179 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 861208016180 P-loop, Walker A motif; other site 861208016181 Base recognition motif; other site 861208016182 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 861208016183 Creatinine amidohydrolase; Region: Creatininase; cl00618 861208016184 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 861208016185 Helix-turn-helix domains; Region: HTH; cl00088 861208016186 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208016187 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208016188 DNA binding site [nucleotide binding] 861208016189 domain linker motif; other site 861208016190 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 861208016191 putative dimerization interface [polypeptide binding]; other site 861208016192 putative ligand binding site [chemical binding]; other site 861208016193 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 861208016194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208016195 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208016196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208016197 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208016198 KduI/IolB family; Region: KduI; cl01508 861208016199 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208016200 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 861208016201 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 861208016202 PYR/PP interface [polypeptide binding]; other site 861208016203 dimer interface [polypeptide binding]; other site 861208016204 TPP binding site [chemical binding]; other site 861208016205 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 861208016206 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 861208016207 TPP-binding site [chemical binding]; other site 861208016208 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 861208016209 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 861208016210 substrate binding site [chemical binding]; other site 861208016211 ATP binding site [chemical binding]; other site 861208016212 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 861208016213 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 861208016214 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 861208016215 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 861208016216 putative active site [active] 861208016217 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 861208016218 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 861208016219 Walker A/P-loop; other site 861208016220 ATP binding site [chemical binding]; other site 861208016221 Q-loop/lid; other site 861208016222 ABC transporter signature motif; other site 861208016223 Walker B; other site 861208016224 D-loop; other site 861208016225 H-loop/switch region; other site 861208016226 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 861208016227 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 861208016228 Walker A/P-loop; other site 861208016229 ATP binding site [chemical binding]; other site 861208016230 Q-loop/lid; other site 861208016231 ABC transporter signature motif; other site 861208016232 Walker B; other site 861208016233 D-loop; other site 861208016234 H-loop/switch region; other site 861208016235 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 861208016236 TM-ABC transporter signature motif; other site 861208016237 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 861208016238 TM-ABC transporter signature motif; other site 861208016239 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 861208016240 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 861208016241 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 861208016242 putative active site [active] 861208016243 Zn binding site [ion binding]; other site 861208016244 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 861208016245 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 861208016246 dimer interface [polypeptide binding]; other site 861208016247 conserved gate region; other site 861208016248 putative PBP binding loops; other site 861208016249 ABC-ATPase subunit interface; other site 861208016250 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 861208016251 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 861208016252 dimer interface [polypeptide binding]; other site 861208016253 conserved gate region; other site 861208016254 putative PBP binding loops; other site 861208016255 ABC-ATPase subunit interface; other site 861208016256 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; cd00995 861208016257 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 861208016258 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 861208016259 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 861208016260 Walker A/P-loop; other site 861208016261 ATP binding site [chemical binding]; other site 861208016262 Q-loop/lid; other site 861208016263 ABC transporter signature motif; other site 861208016264 Walker B; other site 861208016265 D-loop; other site 861208016266 H-loop/switch region; other site 861208016267 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208016268 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 861208016269 Walker A/P-loop; other site 861208016270 ATP binding site [chemical binding]; other site 861208016271 Q-loop/lid; other site 861208016272 ABC transporter signature motif; other site 861208016273 Walker B; other site 861208016274 D-loop; other site 861208016275 H-loop/switch region; other site 861208016276 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 861208016277 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 861208016278 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208016279 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 861208016280 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 861208016281 dimer interface [polypeptide binding]; other site 861208016282 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 861208016283 active site 861208016284 Fe binding site [ion binding]; other site 861208016285 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 861208016286 Helix-turn-helix domains; Region: HTH; cl00088 861208016287 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 861208016288 trimer interface [polypeptide binding]; other site 861208016289 active site 861208016290 dimer interface [polypeptide binding]; other site 861208016291 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 861208016292 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 861208016293 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 861208016294 shikimate binding site; other site 861208016295 NAD(P) binding site [chemical binding]; other site 861208016296 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 861208016297 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 861208016298 Walker A/P-loop; other site 861208016299 ATP binding site [chemical binding]; other site 861208016300 Q-loop/lid; other site 861208016301 ABC transporter signature motif; other site 861208016302 Walker B; other site 861208016303 D-loop; other site 861208016304 H-loop/switch region; other site 861208016305 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208016306 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 861208016307 substrate binding pocket [chemical binding]; other site 861208016308 membrane-bound complex binding site; other site 861208016309 hinge residues; other site 861208016310 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 861208016311 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 861208016312 substrate binding pocket [chemical binding]; other site 861208016313 membrane-bound complex binding site; other site 861208016314 hinge residues; other site 861208016315 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 861208016316 dimer interface [polypeptide binding]; other site 861208016317 conserved gate region; other site 861208016318 putative PBP binding loops; other site 861208016319 ABC-ATPase subunit interface; other site 861208016320 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 861208016321 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 861208016322 dimer interface [polypeptide binding]; other site 861208016323 conserved gate region; other site 861208016324 putative PBP binding loops; other site 861208016325 ABC-ATPase subunit interface; other site 861208016326 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 861208016327 Lyase; Region: Lyase_1; pfam00206 861208016328 tetramer interface [polypeptide binding]; other site 861208016329 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 861208016330 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 861208016331 heterodimer interface [polypeptide binding]; other site 861208016332 active site 861208016333 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 861208016334 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 861208016335 active site 861208016336 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 861208016337 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 861208016338 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 861208016339 Helix-turn-helix domains; Region: HTH; cl00088 861208016340 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 861208016341 dimerization interface [polypeptide binding]; other site 861208016342 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 861208016343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208016344 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 861208016345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 861208016346 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 861208016347 Helix-turn-helix domains; Region: HTH; cl00088 861208016348 Bacterial transcriptional regulator; Region: IclR; pfam01614 861208016349 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 861208016350 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 861208016351 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 861208016352 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 861208016353 dimer interface [polypeptide binding]; other site 861208016354 active site 861208016355 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 861208016356 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208016357 DNA binding site [nucleotide binding] 861208016358 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 861208016359 putative ligand binding site [chemical binding]; other site 861208016360 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 861208016361 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 861208016362 putative ligand binding site [chemical binding]; other site 861208016363 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 861208016364 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 861208016365 DNA interaction; other site 861208016366 Metal-binding active site; metal-binding site 861208016367 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 861208016368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208016369 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 861208016370 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 861208016371 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 861208016372 AP (apurinic/apyrimidinic) site pocket; other site 861208016373 DNA interaction; other site 861208016374 Metal-binding active site; metal-binding site 861208016375 Transcriptional regulators [Transcription]; Region: PurR; COG1609 861208016376 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 861208016377 DNA binding site [nucleotide binding] 861208016378 domain linker motif; other site 861208016379 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 861208016380 ligand binding site [chemical binding]; other site 861208016381 dimerization interface [polypeptide binding]; other site 861208016382 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 861208016383 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 861208016384 dimer interface [polypeptide binding]; other site 861208016385 conserved gate region; other site 861208016386 putative PBP binding loops; other site 861208016387 ABC-ATPase subunit interface; other site 861208016388 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 861208016389 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 861208016390 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 861208016391 Walker A/P-loop; other site 861208016392 ATP binding site [chemical binding]; other site 861208016393 Q-loop/lid; other site 861208016394 ABC transporter signature motif; other site 861208016395 Walker B; other site 861208016396 D-loop; other site 861208016397 H-loop/switch region; other site 861208016398 TOBE domain; Region: TOBE_2; cl01440 861208016399 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 861208016400 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 861208016401 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 861208016402 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 861208016403 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 861208016404 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 861208016405 active site 861208016406 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 861208016407 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 861208016408 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 861208016409 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208016410 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 861208016411 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 861208016412 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 861208016413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208016414 Walker A/P-loop; other site 861208016415 ATP binding site [chemical binding]; other site 861208016416 Q-loop/lid; other site 861208016417 ABC transporter signature motif; other site 861208016418 Walker B; other site 861208016419 D-loop; other site 861208016420 H-loop/switch region; other site 861208016421 TOBE domain; Region: TOBE_2; cl01440 861208016422 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 861208016423 dimer interface [polypeptide binding]; other site 861208016424 conserved gate region; other site 861208016425 putative PBP binding loops; other site 861208016426 ABC-ATPase subunit interface; other site 861208016427 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 861208016428 dimer interface [polypeptide binding]; other site 861208016429 conserved gate region; other site 861208016430 putative PBP binding loops; other site 861208016431 ABC-ATPase subunit interface; other site 861208016432 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 861208016433 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 861208016434 putative active site [active] 861208016435 catalytic site [active] 861208016436 putative metal binding site [ion binding]; other site 861208016437 oligomer interface [polypeptide binding]; other site 861208016438 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 861208016439 active site 861208016440 Helix-turn-helix domains; Region: HTH; cl00088 861208016441 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 861208016442 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 861208016443 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 861208016444 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 861208016445 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 861208016446 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208016447 Walker A/P-loop; other site 861208016448 ATP binding site [chemical binding]; other site 861208016449 Q-loop/lid; other site 861208016450 ABC transporter signature motif; other site 861208016451 Walker B; other site 861208016452 D-loop; other site 861208016453 H-loop/switch region; other site 861208016454 TOBE domain; Region: TOBE_2; cl01440 861208016455 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 861208016456 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 861208016457 dimer interface [polypeptide binding]; other site 861208016458 conserved gate region; other site 861208016459 putative PBP binding loops; other site 861208016460 ABC-ATPase subunit interface; other site 861208016461 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 861208016462 dimer interface [polypeptide binding]; other site 861208016463 conserved gate region; other site 861208016464 putative PBP binding loops; other site 861208016465 ABC-ATPase subunit interface; other site 861208016466 Flavin Reductases; Region: FlaRed; cl00801 861208016467 Ferredoxin [Energy production and conversion]; Region: COG1146 861208016468 4Fe-4S binding domain; Region: Fer4; cl02805 861208016469 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 861208016470 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 861208016471 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 861208016472 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 861208016473 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 861208016474 folate binding site [chemical binding]; other site 861208016475 NADP+ binding site [chemical binding]; other site 861208016476 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 861208016477 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 861208016478 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 861208016479 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 861208016480 Surface antigen; Region: Bac_surface_Ag; cl03097 861208016481 haemagglutination activity domain; Region: Haemagg_act; cl05436 861208016482 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 861208016483 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 861208016484 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 861208016485 Helix-turn-helix domains; Region: HTH; cl00088 861208016486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 861208016487 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 861208016488 HTH-like domain; Region: HTH_21; pfam13276 861208016489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 861208016490 Transposase; Region: DEDD_Tnp_IS110; pfam01548 861208016491 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 861208016492 Integrase core domain; Region: rve_3; cl15866 861208016493 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 861208016494 Transposase; Region: DEDD_Tnp_IS110; pfam01548 861208016495 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 861208016496 HTH-like domain; Region: HTH_21; pfam13276 861208016497 Integrase core domain; Region: rve; cl01316 861208016498 Helix-turn-helix domains; Region: HTH; cl00088 861208016499 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 861208016500 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 861208016501 active site 861208016502 NTP binding site [chemical binding]; other site 861208016503 metal binding triad [ion binding]; metal-binding site 861208016504 antibiotic binding site [chemical binding]; other site 861208016505 HEPN domain; Region: HEPN; cl00824 861208016506 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 861208016507 Low affinity iron permease; Region: Iron_permease; cl12096 861208016508 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 861208016509 hydroperoxidase II; Provisional; Region: katE; PRK11249 861208016510 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 861208016511 heme binding pocket [chemical binding]; other site 861208016512 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 861208016513 domain interactions; other site 861208016514 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 861208016515 dimerization interface [polypeptide binding]; other site 861208016516 metal binding site [ion binding]; metal-binding site 861208016517 Isochorismatase family; Region: Isochorismatase; pfam00857 861208016518 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 861208016519 catalytic triad [active] 861208016520 conserved cis-peptide bond; other site 861208016521 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 861208016522 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 861208016523 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 861208016524 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 861208016525 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 861208016526 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 861208016527 catalytic site [active] 861208016528 active site 861208016529 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 861208016530 glycogen synthase; Provisional; Region: glgA; PRK00654 861208016531 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 861208016532 ADP-binding pocket [chemical binding]; other site 861208016533 homodimer interface [polypeptide binding]; other site 861208016534 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 861208016535 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 861208016536 ligand binding site [chemical binding]; other site 861208016537 flexible hinge region; other site 861208016538 Helix-turn-helix domains; Region: HTH; cl00088 861208016539 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 861208016540 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 861208016541 ligand binding site [chemical binding]; other site 861208016542 flexible hinge region; other site 861208016543 Helix-turn-helix domains; Region: HTH; cl00088 861208016544 Methyltransferase domain; Region: Methyltransf_31; pfam13847 861208016545 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 861208016546 S-adenosylmethionine binding site [chemical binding]; other site 861208016547 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 861208016548 cyclase homology domain; Region: CHD; cd07302 861208016549 nucleotidyl binding site; other site 861208016550 metal binding site [ion binding]; metal-binding site 861208016551 dimer interface [polypeptide binding]; other site 861208016552 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 861208016553 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 861208016554 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 861208016555 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 861208016556 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 861208016557 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 861208016558 LysR family transcriptional regulator; Provisional; Region: PRK14997 861208016559 Helix-turn-helix domains; Region: HTH; cl00088 861208016560 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 861208016561 putative effector binding pocket; other site 861208016562 putative dimerization interface [polypeptide binding]; other site 861208016563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 861208016564 active site 861208016565 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 861208016566 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; cl01155 861208016567 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 861208016568 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 861208016569 catalytic core [active] 861208016570 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 861208016571 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 861208016572 non-specific DNA binding site [nucleotide binding]; other site 861208016573 salt bridge; other site 861208016574 sequence-specific DNA binding site [nucleotide binding]; other site 861208016575 HipA N-terminal domain; Region: Couple_hipA; cl11853 861208016576 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 861208016577 HipA-like N-terminal domain; Region: HipA_N; pfam07805 861208016578 HipA-like C-terminal domain; Region: HipA_C; pfam07804 861208016579 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 861208016580 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 861208016581 DNA binding residues [nucleotide binding] 861208016582 dimerization interface [polypeptide binding]; other site 861208016583 HipA N-terminal domain; Region: Couple_hipA; cl11853 861208016584 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 861208016585 HipA-like N-terminal domain; Region: HipA_N; pfam07805 861208016586 HipA-like C-terminal domain; Region: HipA_C; pfam07804