-- dump date 20111121_015754 -- class Genbank::misc_feature -- table misc_feature_note -- id note 187410000001 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410000002 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 187410000003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410000004 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 187410000005 motif 1; other site 187410000006 dimer interface; other site 187410000007 active site 187410000008 motif 2; other site 187410000009 motif 3; other site 187410000010 hypothetical protein; Provisional; Region: yieM; PRK10997 187410000011 VWA YIEM type: 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-...; Region: VWA_YIEM_type; cd01462 187410000012 metal ion-dependent adhesion site (MIDAS); other site 187410000013 regulatory ATPase RavA; Provisional; Region: PRK13531 187410000014 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...; Region: AAA; cd00009 187410000015 Walker A motif; other site 187410000016 ATP binding site; other site 187410000017 Walker B motif; other site 187410000018 arginine finger; other site 187410000019 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 187410000020 K+ potassium transporter; Region: K_trans; cl01227 187410000021 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 187410000022 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...; Region: ribokinase; cd01174 187410000023 substrate binding site; other site 187410000024 dimer interface; other site 187410000025 ATP binding site; other site 187410000026 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 187410000027 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 187410000028 multidrug efflux system protein MdtE; Provisional; Region: PRK10504 187410000029 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 187410000030 putative substrate translocation pore; other site 187410000031 Transcriptional regulators [Transcription]; Region: FadR; COG2186 187410000032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410000033 DNA binding site 187410000034 FCD domain; Region: FCD; cl11656 187410000035 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 187410000036 proposed active site lysine; other site 187410000037 conserved cys residue; other site 187410000038 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 187410000039 malate synthase A; Region: malate_syn_A; TIGR01344 187410000040 active site 187410000041 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 187410000042 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 187410000043 tetramer interface; other site 187410000044 active site 187410000045 Mg2+/Mn2+ binding site; other site 187410000046 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 187410000047 Bacterial transcriptional regulator; Region: IclR; pfam01614 187410000048 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 187410000049 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 187410000050 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 187410000051 substrate binding pocket; other site 187410000052 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 187410000053 B12 binding site; other site 187410000054 cobalt ligand; other site 187410000055 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 187410000056 haemagglutination activity domain; Region: Haemagg_act; cl05436 187410000057 aspartate kinase III; Validated; Region: PRK09084 187410000058 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 187410000059 nucleotide binding site; other site 187410000060 substrate binding site; other site 187410000061 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 187410000062 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 187410000063 dimer interface; other site 187410000064 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 187410000065 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 187410000066 active site 187410000067 dimer interface; other site 187410000068 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 187410000069 dimer interface; other site 187410000070 active site 187410000071 Phosphate-starvation-inducible E; Region: PsiE; cl01264 187410000072 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410000073 dimer interface; other site 187410000074 conserved gate region; other site 187410000075 putative PBP binding loops; other site 187410000076 ABC-ATPase subunit interface; other site 187410000077 maltose transporter membrane protein; Provisional; Region: malF; PRK10999 187410000078 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410000079 dimer interface; other site 187410000080 conserved gate region; other site 187410000081 putative PBP binding loops; other site 187410000082 ABC-ATPase subunit interface; other site 187410000083 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 187410000084 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 187410000085 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 187410000086 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 187410000087 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 187410000088 Walker A/P-loop; other site 187410000089 ATP binding site; other site 187410000090 Q-loop/lid; other site 187410000091 ABC transporter signature motif; other site 187410000092 Walker B; other site 187410000093 D-loop; other site 187410000094 H-loop/switch region; other site 187410000095 TOBE domain; Region: TOBE_2; cl01440 187410000096 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel beta-...; Region: Maltoporin-like; cd01346 187410000097 trimer interface; other site 187410000098 sugar binding site; other site 187410000099 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 187410000100 Protein of unknown function (DUF796); Region: DUF796; cl01226 187410000101 Protein of unknown function (DUF770); Region: DUF770; cl01402 187410000102 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 187410000103 Protein of unknown function (DUF877); Region: DUF877; pfam05943 187410000104 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 187410000105 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 187410000106 putative transposase OrfB; Reviewed; Region: PHA02517 187410000107 Integrase core domain; Region: rve; cl01316 187410000108 transposase/IS protein; Provisional; Region: PRK09183 187410000109 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...; Region: AAA; cd00009 187410000110 Walker A motif; other site 187410000111 ATP binding site; other site 187410000112 Walker B motif; other site 187410000113 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410000114 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410000115 Integrase core domain; Region: rve; cl01316 187410000116 Transposase IS200 like; Region: Transposase_17; cl00848 187410000117 Protein of unknown function (DUF904); Region: DUF904; cl11531 187410000118 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-...; Region: MIP; cd00333 187410000119 amphipathic channel; other site 187410000120 Asn-Pro-Ala signature motifs; other site 187410000121 glycerol kinase; Provisional; Region: glpK; PRK00047 187410000122 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 187410000123 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 187410000124 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 187410000125 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 187410000126 putative active site; other site 187410000127 ferredoxin-NADP reductase; Provisional; Region: PRK10926 187410000128 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 187410000129 FAD binding pocket; other site 187410000130 FAD binding motif; other site 187410000131 phosphate binding motif; other site 187410000132 beta-alpha-beta structure motif; other site 187410000133 NAD binding pocket; other site 187410000134 Protein of unknown function (DUF805); Region: DUF805; cl01224 187410000135 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 187410000136 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 187410000137 substrate binding site; other site 187410000138 dimer interface; other site 187410000139 catalytic triad; other site 187410000140 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410000141 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 187410000142 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410000143 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 187410000144 dimerization interface; other site 187410000145 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 187410000146 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 187410000147 hypothetical protein; Validated; Region: PRK06201 187410000148 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 187410000149 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; cd00625 187410000150 transmembrane helices; other site 187410000151 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 187410000152 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 187410000153 6-phosphofructokinase; Provisional; Region: PRK03202 187410000154 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 187410000155 active site 187410000156 ADP/pyrophosphate binding site; other site 187410000157 dimerization interface; other site 187410000158 allosteric effector site; other site 187410000159 fructose-1,6-bisphosphate binding site; other site 187410000160 Cation efflux family; Region: Cation_efflux; cl00316 187410000161 hypothetical protein; Provisional; Region: PRK09857 187410000162 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 187410000163 integrase; Provisional; Region: int; PHA02601 187410000164 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 187410000165 Int/Topo IB signature motif; other site 187410000166 active site 187410000167 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]; Region: CpxP; cl01482 187410000168 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 187410000169 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 187410000170 active site 187410000171 phosphorylation site 187410000172 intermolecular recognition site; other site 187410000173 dimerization interface; other site 187410000174 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...; Region: trans_reg_C; cd00383 187410000175 DNA binding site 187410000176 two-component sensor protein; Provisional; Region: cpxA; PRK09470 187410000177 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410000178 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 trans-...; Region: HisKA; cd00082 187410000179 dimer interface; other site 187410000180 phosphorylation site 187410000181 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 187410000182 ATP binding site; other site 187410000183 Mg2+ binding site; other site 187410000184 G-X-G motif; other site 187410000185 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 187410000186 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 187410000187 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410000188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410000189 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 187410000190 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 187410000191 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 187410000192 DNA binding site 187410000193 active site 187410000194 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 187410000195 serine acetyltransferase; Provisional; Region: cysE; PRK11132 187410000196 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 187410000197 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 L-...; Region: LbH_SAT; cd03354 187410000198 trimer interface; other site 187410000199 active site 187410000200 substrate binding site; other site 187410000201 CoA binding site; other site 187410000202 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 187410000203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000204 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 187410000205 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; cd00557 187410000206 SecA binding site; other site 187410000207 Preprotein binding site; other site 187410000208 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 187410000209 GSH binding site; other site 187410000210 catalytic residues; other site 187410000211 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 187410000212 active site residue 187410000213 Sulfatase; Region: Sulfatase; cl10460 187410000214 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 187410000215 hypothetical protein; Provisional; Region: PRK11637 187410000216 Peptidase family M23; Region: Peptidase_M23; pfam01551 187410000217 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 187410000218 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 187410000219 NAD(P) binding site; other site 187410000220 catalytic Zn binding site; other site 187410000221 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 187410000222 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), 8-amino-7-...; Region: KBL_like; cd06454 187410000223 substrate-cofactor binding pocket; other site 187410000224 pyridoxal 5'-phosphate binding site; other site 187410000225 catalytic residue; other site 187410000226 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 187410000227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000228 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 187410000229 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 187410000230 putative active site; other site 187410000231 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 187410000232 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 187410000233 putative active site; other site 187410000234 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 187410000235 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 187410000236 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 187410000237 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 187410000238 putative metal binding site; other site 187410000239 Phosphopantetheine adenylyltransferase; Region: PPAT_a; cd02163 187410000240 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 187410000241 active site 187410000242 substrate binding site; other site 187410000243 active site motif 187410000244 formamidopyrimidine-DNA glycosylase; Validated; Region: PRK01103 187410000245 Formamidopyrimidine-DNA glycosylase N-terminal domain; Region: Fapy_DNA_glyco; pfam01149 187410000246 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 187410000247 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 187410000248 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 187410000249 DNA repair protein RadC; Reviewed; Region: radC; PRK00024 187410000250 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 187410000251 MPN+ (JAMM) motif; other site 187410000252 Zinc-binding site; other site 187410000253 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 187410000254 Flavoprotein; Region: Flavoprotein; cl08021 187410000255 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 187410000256 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 187410000257 trimer interface; other site 187410000258 active site 187410000259 nucleoid occlusion protein; Provisional; Region: slmA; PRK09480 187410000260 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187410000261 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410000262 ribonuclease PH; Reviewed; Region: rph; PRK00173 187410000263 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 187410000264 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 187410000265 hypothetical protein; Provisional; Region: PRK11820 187410000266 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 187410000267 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 187410000268 Predicted membrane protein [Function unknown]; Region: COG2860 187410000269 UPF0126 domain; Region: UPF0126; pfam03458 187410000270 UPF0126 domain; Region: UPF0126; pfam03458 187410000271 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 187410000272 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 187410000273 nucleotide binding pocket; other site 187410000274 K-X-D-G motif; other site 187410000275 catalytic site; other site 187410000276 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 187410000277 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...; Region: GMPK; cd00071 187410000278 catalytic site; other site 187410000279 G-X2-G-X-G-K; other site 187410000280 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl00765 187410000281 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 187410000282 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 187410000283 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 187410000284 synthetase active site; other site 187410000285 NTP binding site; other site 187410000286 metal-binding site 187410000287 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...; Region: TGS_RelA_SpoT; cd01668 187410000288 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 187410000289 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 187410000290 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 187410000291 C-terminal; Region: SpoU_methylas_C; pfam12105 187410000292 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 187410000293 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 four-...; Region: RecG_wedge_OBF; cd04488 187410000294 generic binding surface II; other site 187410000295 ssDNA binding site; other site 187410000296 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 187410000297 ATP binding site; other site 187410000298 putative Mg++ binding site; other site 187410000299 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 187410000300 nucleotide binding region; other site 187410000301 ATP-binding site; other site 187410000302 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; cl12073 187410000303 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 187410000304 Permease family; Region: Xan_ur_permease; cl00967 187410000305 AsmA family; Region: AsmA; pfam05170 187410000306 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410000307 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 187410000308 Integrase core domain; Region: rve; cl01316 187410000309 transposase/IS protein; Provisional; Region: PRK09183 187410000310 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...; Region: AAA; cd00009 187410000311 Walker A motif; other site 187410000312 ATP binding site; other site 187410000313 Walker B motif; other site 187410000314 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 187410000315 GST_C family, ECM4-like subfamily; composed of predominantly uncharacterized and taxonomically diverse proteins with similarity to the translation product of the Saccharomyces cerevisiae gene ECM4. ECM4, a gene of unknown function, is involved in cell...; Region: GST_C_ECM4_like; cd03190 187410000316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410000317 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 187410000318 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 187410000319 dimerization interface; other site 187410000320 Pirin-related protein [General function prediction only]; Region: COG1741 187410000321 Cupin domain; Region: Cupin_2; cl09118 187410000322 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 187410000323 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 187410000324 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 187410000325 putative ligand binding site; other site 187410000326 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 187410000327 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 187410000328 dimer interface; other site 187410000329 active site 187410000330 hypothetical protein; Provisional; Region: PRK11023 187410000331 Putative phospholipid-binding domain; Region: BON; cl02771 187410000332 Putative phospholipid-binding domain; Region: BON; cl02771 187410000333 Transglycosylase; Region: Transgly; cl07896 187410000334 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 187410000335 conserved cys residue; other site 187410000336 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 187410000337 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 187410000338 putative active site; other site 187410000339 heme pocket; other site 187410000340 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 trans-...; Region: HisKA; cd00082 187410000341 dimer interface; other site 187410000342 phosphorylation site 187410000343 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 187410000344 ATP binding site; other site 187410000345 Mg2+ binding site; other site 187410000346 G-X-G motif; other site 187410000347 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 187410000348 active site 187410000349 phosphorylation site 187410000350 intermolecular recognition site; other site 187410000351 dimerization interface; other site 187410000352 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 187410000353 putative binding surface; other site 187410000354 active site 187410000355 radical SAM protein, TIGR01212 family; Region: TIGR01212 187410000356 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; cl14056 187410000357 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 187410000358 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 N-...; Region: GltS; cd00713 187410000359 active site 187410000360 dimer interface; other site 187410000361 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 187410000362 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...; Region: GltS_FMN; cd02808 187410000363 active site 187410000364 FMN binding site; other site 187410000365 substrate binding site; other site 187410000366 3Fe-4S cluster binding site; other site 187410000367 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 187410000368 domain interface; other site 187410000369 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 187410000370 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 alpha-; Region: HCP_like; cl00255 187410000371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000373 Stringent starvation protein B; Region: SspB; cl01120 187410000374 stringent starvation protein A; Provisional; Region: sspA; PRK09481 187410000375 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 187410000376 C-terminal domain interface; other site 187410000377 putative GSH binding site (G-site); other site 187410000378 dimer interface; other site 187410000379 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_C_SspA; cd03186 187410000380 dimer interface; other site 187410000381 N-terminal domain interface; other site 187410000382 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 187410000383 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 187410000384 23S rRNA interface; other site 187410000385 L3 interface; other site 187410000386 Predicted ATPase [General function prediction only]; Region: COG1485 187410000387 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 187410000388 serine endoprotease; Provisional; Region: PRK10139 187410000389 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...; Region: Tryp_SPc; cl00149 187410000390 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 C-...; Region: PDZ_serine_protease; cd00987 187410000391 protein binding site; other site 187410000392 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 C-...; Region: PDZ_serine_protease; cd00987 187410000393 Transposase IS200 like; Region: Transposase_17; cl00848 187410000394 serine endoprotease; Provisional; Region: PRK10898 187410000395 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...; Region: Tryp_SPc; cl00149 187410000396 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 C-...; Region: PDZ_serine_protease; cd00987 187410000397 protein binding site; other site 187410000398 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 187410000399 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 187410000400 hinge; other site 187410000401 active site 187410000402 BolA-like protein; Region: BolA; cl00386 187410000403 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 187410000404 anti sigma factor interaction site; other site 187410000405 regulatory phosphorylation site; other site 187410000406 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 187410000407 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 187410000408 mce related protein; Region: MCE; pfam02470 187410000409 Domain of unknown function DUF140; Region: DUF140; cl00510 187410000410 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 187410000411 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 187410000412 Walker A/P-loop; other site 187410000413 ATP binding site; other site 187410000414 Q-loop/lid; other site 187410000415 ABC transporter signature motif; other site 187410000416 Walker B; other site 187410000417 D-loop; other site 187410000418 H-loop/switch region; other site 187410000419 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 187410000420 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 187410000421 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 187410000422 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 187410000423 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 5-...; Region: SIS_Kpsf; cd05014 187410000424 putative active site; other site 187410000425 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 187410000426 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; cl11391 187410000427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 187410000428 OstA-like protein; Region: OstA; cl00844 187410000429 putative ABC transporter ATP-binding protein YhbG; Provisional; Region: PRK10895 187410000430 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 187410000431 Walker A/P-loop; other site 187410000432 ATP binding site; other site 187410000433 Q-loop/lid; other site 187410000434 ABC transporter signature motif; other site 187410000435 Walker B; other site 187410000436 D-loop; other site 187410000437 H-loop/switch region; other site 187410000438 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 187410000439 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 187410000440 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 187410000441 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 187410000442 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 187410000443 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 187410000444 30S subunit binding site; other site 187410000445 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 187410000446 active site 187410000447 phosphorylation site 187410000448 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 187410000449 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 187410000450 dimerization domain swap beta strand; other site 187410000451 regulatory protein interface; other site 187410000452 active site 187410000453 regulatory phosphorylation site; other site 187410000454 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 187410000455 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 187410000456 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 187410000457 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 187410000458 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 187410000459 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 187410000460 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 187410000461 homotrimer interaction site; other site 187410000462 putative active site; other site 187410000463 trehalose repressor; Provisional; Region: treR; PRK09492 187410000464 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410000465 DNA binding site 187410000466 domain linker motif; other site 187410000467 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 187410000468 dimerization interface; other site 187410000469 ligand binding site; other site 187410000470 trehalose(maltose)-specific PTS system components IIBC; Provisional; Region: PRK11007 187410000471 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 187410000472 active site turn 187410000473 phosphorylation site 187410000474 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 187410000475 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 187410000476 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 187410000477 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 187410000478 C-term; Region: GreA_GreB; pfam01272 187410000479 Cytochrome b562; Region: Cytochrom_B562; cl01546 187410000480 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl00398 187410000481 Protein of unknown function (DUF615); Region: DUF615; cl01147 187410000482 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar; cd05142 187410000483 RNAase interaction site; other site 187410000484 Barnase, a member of the family of homologous microbial ribonucleases, catalyses the cleavage of single-stranded RNA via a two-step mechanism thought to be similar to that of pancreatic ribonuclease. The mechanism involves a transesterification to give...; Region: barnase; cd00933 187410000485 active site 187410000486 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 187410000487 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 187410000488 tetramerization interface; other site 187410000489 NAD(P) binding site; other site 187410000490 catalytic residues; other site 187410000491 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 187410000492 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 187410000493 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 187410000494 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 187410000495 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 187410000496 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410000497 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 187410000498 putative effector binding pocket; other site 187410000499 dimerization interface; other site 187410000500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410000501 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 187410000502 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 187410000503 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 187410000504 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 187410000505 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 187410000506 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 187410000507 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 187410000508 hypothetical protein; Provisional; Region: PRK12361 187410000509 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 187410000510 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 187410000511 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl00398 187410000512 Predicted amidohydrolase [General function prediction only]; Region: COG0388 187410000513 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 187410000514 putative active site; other site 187410000515 catalytic triad; other site 187410000516 dimer interface; other site 187410000517 hypothetical protein; Provisional; Region: PRK10899 187410000518 ribonuclease G; Provisional; Region: PRK11712 187410000519 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 187410000520 homodimer interface; other site 187410000521 oligonucleotide binding site; other site 187410000522 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 187410000523 active site 187410000524 dimer interface; other site 187410000525 rod shape-determining protein MreD; Region: MreD; cl01087 187410000526 rod shape-determining protein MreC; Region: mreC; TIGR00219 187410000527 rod shape-determining protein MreC; Region: MreC; pfam04085 187410000528 rod shape-determining protein MreB; Provisional; Region: PRK13927 187410000529 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 187410000530 ATP binding site; other site 187410000531 profilin binding site; other site 187410000532 regulatory protein CsrD; Provisional; Region: PRK11059 187410000533 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187410000534 metal-binding site 187410000535 active site 187410000536 I-site; other site 187410000537 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 187410000538 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 187410000539 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 187410000540 NADP binding site; other site 187410000541 dimer interface; other site 187410000542 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 187410000543 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 187410000544 Moco binding site; other site 187410000545 metal coordination site; other site 187410000546 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 187410000547 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 187410000548 active site 187410000549 trimer interface; other site 187410000550 dimer interface; other site 187410000551 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 187410000552 carboxyltransferase (CT) interaction site; other site 187410000553 biotinylation site; other site 187410000554 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 187410000555 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 187410000556 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410000557 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 187410000558 Protein of unknown function (DUF997); Region: DUF997; cl01614 187410000559 Sodium:solute symporter family; Region: SSF; cl00456 187410000560 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 187410000561 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 187410000562 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410000563 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 187410000564 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...; Region: DUS_like_FMN; cd02801 187410000565 FMN binding site; other site 187410000566 active site 187410000567 catalytic residues; other site 187410000568 substrate binding site; other site 187410000569 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 187410000570 Transcriptional regulators [Transcription]; Region: GntR; COG1802 187410000571 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410000572 DNA binding site 187410000573 FCD domain; Region: FCD; cl11656 187410000574 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 187410000575 metabolite-proton symporter; Region: 2A0106; TIGR00883 187410000576 putative substrate translocation pore; other site 187410000577 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 187410000578 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 187410000579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000580 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187410000581 Rickettsia 17 kDa surface antigen; Region: Rick_17kDa_Anti; cl10470 187410000582 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 187410000583 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 187410000584 DNA binding site 187410000585 RNA-binding motif; other site 187410000586 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 187410000587 DNA binding site 187410000588 RNA-binding motif; other site 187410000589 Transposase IS200 like; Region: Transposase_17; cl00848 187410000590 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 187410000591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 187410000592 putative glutathione S-transferase YghU; Provisional; Region: PRK11752 187410000593 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...; Region: GST_N_Ure2p_like; cd03048 187410000594 C-terminal domain interface; other site 187410000595 GSH binding site (G-site); other site 187410000596 dimer interface; other site 187410000597 GST_C 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...; Region: GST_C_Ure2p_like; cd03178 187410000598 dimer interface; other site 187410000599 N-terminal domain interface; other site 187410000600 putative substrate binding pocket (H-site); other site 187410000601 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 5-...; Region: SIS_Kpsf; cd05014 187410000602 putative active site; other site 187410000603 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 187410000604 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 187410000605 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 187410000606 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 187410000607 TM-ABC transporter signature motif; other site 187410000608 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 187410000609 TM-ABC transporter signature motif; other site 187410000610 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410000611 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...; Region: ABC_Carb_Monos_I; cd03216 187410000612 Walker A/P-loop; other site 187410000613 ATP binding site; other site 187410000614 Q-loop/lid; other site 187410000615 ABC transporter signature motif; other site 187410000616 Walker B; other site 187410000617 D-loop; other site 187410000618 H-loop/switch region; other site 187410000619 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 187410000620 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410000621 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 187410000622 ligand binding site; other site 187410000623 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 187410000624 putative acyl-acceptor binding pocket; other site 187410000625 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 187410000626 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 187410000627 Permease family; Region: Xan_ur_permease; cl00967 187410000628 RelB antitoxin; Region: RelB; cl01171 187410000629 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 187410000630 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 187410000631 Walker A/P-loop; other site 187410000632 ATP binding site; other site 187410000633 Q-loop/lid; other site 187410000634 ABC transporter signature motif; other site 187410000635 Walker B; other site 187410000636 D-loop; other site 187410000637 H-loop/switch region; other site 187410000638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410000639 dimer interface; other site 187410000640 conserved gate region; other site 187410000641 putative PBP binding loops; other site 187410000642 ABC-ATPase subunit interface; other site 187410000643 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 187410000644 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 187410000645 active site 187410000646 dimer interface; other site 187410000647 non-prolyl cis peptide bond; other site 187410000648 insertion regions; other site 187410000649 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...; Region: PBPb; cd00134 187410000650 substrate binding pocket; other site 187410000651 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 187410000652 membrane-bound complex binding site; other site 187410000653 hinge residues; other site 187410000654 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410000655 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family. DERA belongs to the class I aldolases and catalyzes a reversible aldol reaction between acetaldehyde and glyceraldehyde 3-phosphate to generate 2-deoxyribose 5-phosphate. DERA is unique in...; Region: DeoC; cd00959 187410000656 intersubunit interface; other site 187410000657 active site 187410000658 catalytic residue; other site 187410000659 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...; Region: ribokinase; cd01174 187410000660 substrate binding site; other site 187410000661 dimer interface; other site 187410000662 ATP binding site; other site 187410000663 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 187410000664 Cupin domain; Region: Cupin_2; cl09118 187410000665 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 187410000666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410000667 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 187410000668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000669 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 187410000670 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 D-arabino-6-...; Region: AP2Ec; cl12060 187410000671 AP (apurinic/apyrimidinic) site pocket; other site 187410000672 DNA interaction; other site 187410000673 Metal-binding active site; metal-binding site 187410000674 Uncharacterized conserved protein [Function unknown]; Region: COG4104 187410000675 PAAR motif; Region: PAAR_motif; pfam05488 187410000676 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 187410000677 RHS Repeat; Region: RHS_repeat; cl11982 187410000678 RHS Repeat; Region: RHS_repeat; cl11982 187410000679 RHS protein; Region: RHS; pfam03527 187410000680 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 187410000681 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 187410000682 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 187410000683 Phage protein D [General function prediction only]; Region: COG3500; cl12180 187410000684 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 187410000685 ImpA domain protein; Region: DUF3702; pfam12486 187410000686 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 187410000687 non-specific DNA binding site; other site 187410000688 salt bridge; other site 187410000689 sequence-specific DNA binding site; other site 187410000690 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 187410000691 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 187410000692 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 187410000693 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 187410000694 RHS protein; Region: RHS; pfam03527 187410000695 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 187410000696 Uncharacterized conserved protein [Function unknown]; Region: COG4104 187410000697 PAAR motif; Region: PAAR_motif; pfam05488 187410000698 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 187410000699 RHS Repeat; Region: RHS_repeat; cl11982 187410000700 RHS Repeat; Region: RHS_repeat; cl11982 187410000701 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 187410000702 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 187410000703 Phage protein D [General function prediction only]; Region: COG3500; cl12180 187410000704 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 187410000705 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 187410000706 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 187410000707 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 187410000708 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 187410000709 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 187410000710 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 187410000711 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...; Region: AAA; cd00009 187410000712 Walker A motif; other site 187410000713 ATP binding site; other site 187410000714 Walker B motif; other site 187410000715 arginine finger; other site 187410000716 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...; Region: AAA; cd00009 187410000717 Walker A motif; other site 187410000718 ATP binding site; other site 187410000719 Walker B motif; other site 187410000720 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 187410000721 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 187410000722 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 187410000723 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521; cl01405 187410000724 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 187410000725 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 187410000726 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 187410000727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 187410000728 putative transposase OrfB; Reviewed; Region: PHA02517 187410000729 Integrase core domain; Region: rve; cl01316 187410000730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410000731 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410000732 Integrase core domain; Region: rve; cl01316 187410000733 transposase/IS protein; Provisional; Region: PRK09183 187410000734 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...; Region: AAA; cd00009 187410000735 Walker A motif; other site 187410000736 ATP binding site; other site 187410000737 Walker B motif; other site 187410000738 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 187410000739 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39C; cd02419 187410000740 putative active site; other site 187410000741 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410000742 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 187410000743 Walker A/P-loop; other site 187410000744 ATP binding site; other site 187410000745 Q-loop/lid; other site 187410000746 ABC transporter signature motif; other site 187410000747 Walker B; other site 187410000748 D-loop; other site 187410000749 H-loop/switch region; other site 187410000750 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 187410000751 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 187410000752 UbiA prenyltransferase family; Region: UbiA; cl00337 187410000753 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 187410000754 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...; Region: AAA; cd00009 187410000755 Walker A motif; other site 187410000756 ATP binding site; other site 187410000757 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410000758 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 187410000759 active site 187410000760 HslU subunit interaction site; other site 187410000761 Sporulation related domain; Region: SPOR; cl10051 187410000762 cell division protein FtsN; Provisional; Region: PRK12757 187410000763 Sporulation related domain; Region: SPOR; cl10051 187410000764 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410000765 DNA binding site 187410000766 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 187410000767 domain linker motif; other site 187410000768 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 187410000769 dimerization interface; other site 187410000770 ligand binding site; other site 187410000771 primosome assembly protein PriA; Validated; Region: PRK05580 187410000772 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 187410000773 ATP binding site; other site 187410000774 putative Mg++ binding site; other site 187410000775 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; cl12029 187410000776 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 187410000777 Predicted membrane protein [Function unknown]; Region: COG4682 187410000778 yiaA/B two helix domain; Region: YiaAB; cl01759 187410000779 yiaA/B two helix domain; Region: YiaAB; cl01759 187410000780 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence; Region: Met_repressor_MetJ; cd00490 187410000781 dimerization interface; other site 187410000782 DNA binding site 187410000783 corepressor binding sites; other site 187410000784 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 187410000785 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli AKI-...; Region: AAK_AK-HSDH; cd04257 187410000786 putative catalytic residues; other site 187410000787 putative nucleotide binding site; other site 187410000788 putative aspartate binding site; other site 187410000789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000790 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 187410000791 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...; Region: MTHFR; cd00537 187410000792 FAD binding site; other site 187410000793 Integrase core domain; Region: rve; cl01316 187410000794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 187410000795 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 187410000796 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 187410000797 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 187410000798 Peptidase dimerization domain; Region: M20_dimer; cl09126 187410000799 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 187410000800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000801 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 187410000802 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 187410000803 nucleotide binding site; other site 187410000804 N-acetyl-L-glutamate binding site; other site 187410000805 argininosuccinate lyase; Provisional; Region: PRK04833 187410000806 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 187410000807 active sites 187410000808 tetramer interface; other site 187410000809 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 187410000810 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 187410000811 N-terminal plug; other site 187410000812 ligand-binding site; other site 187410000813 Heme-binding protein A (HasA); Region: HasA; pfam06438 187410000814 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 187410000815 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 187410000816 Walker A/P-loop; other site 187410000817 ATP binding site; other site 187410000818 Q-loop/lid; other site 187410000819 ABC transporter signature motif; other site 187410000820 Walker B; other site 187410000821 D-loop; other site 187410000822 H-loop/switch region; other site 187410000823 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 187410000824 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 187410000825 Gram-negative bacterial tonB protein; Region: TonB; cl10048 187410000826 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 187410000827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000828 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 187410000829 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 187410000830 catalytic triad; other site 187410000831 dimer interface; other site 187410000832 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 187410000833 GSH binding site; other site 187410000834 catalytic residues; other site 187410000835 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 187410000836 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410000837 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 187410000838 dimerization interface; other site 187410000839 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 187410000840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000841 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 187410000842 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 187410000843 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187410000844 Protein of unknown function (DUF1422); Region: DUF1422; cl11649 187410000845 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 187410000846 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410000847 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 187410000848 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 187410000849 N-terminal plug; other site 187410000850 ligand-binding site; other site 187410000851 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 187410000852 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 187410000853 putative ligand binding site; other site 187410000854 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410000855 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...; Region: ABC_Carb_Monos_I; cd03216 187410000856 Walker A/P-loop; other site 187410000857 ATP binding site; other site 187410000858 Q-loop/lid; other site 187410000859 ABC transporter signature motif; other site 187410000860 Walker B; other site 187410000861 D-loop; other site 187410000862 H-loop/switch region; other site 187410000863 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 187410000864 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 187410000865 TM-ABC transporter signature motif; other site 187410000866 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 187410000867 TM-ABC transporter signature motif; other site 187410000868 transcriptional regulator HdfR; Provisional; Region: PRK03601 187410000869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410000870 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 187410000871 dimerization interface; other site 187410000872 Protein of unknown function, DUF; Region: DUF413; cl10479 187410000873 putative ATP-dependent protease; Provisional; Region: PRK09862 187410000874 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410000875 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 187410000876 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 187410000877 PYR/PP interface; other site 187410000878 dimer interface; other site 187410000879 TPP binding site; other site 187410000880 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 187410000881 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 187410000882 TPP-binding site; other site 187410000883 dimer interface; other site 187410000884 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 187410000885 homodimer interface; other site 187410000886 substrate-cofactor binding pocket; other site 187410000887 Aminotransferase class IV; Region: Aminotran_4; pfam01063 187410000888 catalytic residue; other site 187410000889 Dehydratase family; Region: ILVD_EDD; cl00340 187410000890 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 187410000891 threonine dehydratase; Reviewed; Region: PRK09224 187410000892 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 187410000893 tetramer interface; other site 187410000894 pyridoxal 5'-phosphate binding site; other site 187410000895 catalytic residue; other site 187410000896 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 187410000897 putative Ile/Val binding site; other site 187410000898 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 187410000899 putative Ile/Val binding site; other site 187410000900 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 187410000901 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 187410000902 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 187410000903 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410000904 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 187410000905 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 187410000906 putative dimerization interface; other site 187410000907 ketol-acid reductoisomerase; Validated; Region: PRK05225 187410000908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000909 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 187410000910 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 187410000911 S-type Pyocin; Region: Pyocin_S; pfam06958 187410000912 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410000913 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410000914 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410000915 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 187410000916 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410000917 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410000918 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410000919 Fimbrial protein; Region: Fimbrial; cl01416 187410000920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410000921 MULE transposase domain; Region: MULE; pfam10551 187410000922 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 187410000923 PPIC-type PPIASE domain; Region: Rotamase; cl08278 187410000924 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 187410000925 UvrD/REP helicase; Region: UvrD-helicase; cl14126 187410000926 UvrD/REP helicase; Region: UvrD-helicase; cl14126 187410000927 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 187410000928 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 187410000929 ATP binding site; other site 187410000930 Mg++ binding site; other site 187410000931 motif III; other site 187410000932 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 187410000933 nucleotide binding region; other site 187410000934 ATP-binding site; other site 187410000935 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 187410000936 catalytic residues; other site 187410000937 transcription termination factor Rho; Provisional; Region: rho; PRK09376 187410000938 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 187410000939 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...; Region: Rho_CSD; cd04459 187410000940 RNA binding site; other site 187410000941 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...; Region: rho_factor; cd01128 187410000942 multimer interface; other site 187410000943 Walker A motif; other site 187410000944 ATP binding site; other site 187410000945 Walker B motif; other site 187410000946 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 187410000947 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 187410000948 Mg++ binding site; other site 187410000949 putative catalytic motif; other site 187410000950 substrate binding site; other site 187410000951 Chain length determinant protein; Region: Wzz; cl01623 187410000952 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 187410000953 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 187410000954 active site 187410000955 homodimer interface; other site 187410000956 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 187410000957 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 187410000958 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 187410000959 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 187410000960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410000962 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 187410000963 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 187410000964 substrate binding site; other site 187410000965 tetramer interface; other site 187410000966 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 187410000967 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 187410000968 Coenzyme A binding pocket; other site 187410000969 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 187410000970 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 187410000971 inhibitor-cofactor binding pocket; inhibition site 187410000972 pyridoxal 5'-phosphate binding site; other site 187410000973 catalytic residue; other site 187410000974 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 187410000975 4-alpha-L-fucosyltransferase (Fuc4NAc transferase); Region: Fuc4NAc_transf; cl07929 187410000976 WzyE protein; Region: WzyE; cl11643 187410000977 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 187410000978 similar to hypothetical protein 187410000979 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410000980 Amino acid permease; Region: AA_permease; pfam00324 187410000981 Transposase IS200 like; Region: Transposase_17; cl00848 187410000982 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 187410000983 HemY protein N-terminus; Region: HemY_N; pfam07219 187410000984 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 187410000985 HemX; Region: HemX; pfam04375 187410000986 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 187410000987 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...; Region: HemD; cd06578 187410000988 active site 187410000989 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 187410000990 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 187410000991 domain interfaces; other site 187410000992 active site 187410000993 Adenylate cyclase, class-I; Region: Adenylate_cycl; cl01168 187410000994 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 187410000995 putative iron binding site; other site 187410000996 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 187410000997 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 187410000998 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 187410000999 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 187410001000 Protein of unknown function, DUF484; Region: DUF484; cl01228 187410001001 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 187410001002 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 187410001003 Int/Topo IB signature motif; other site 187410001004 active site 187410001005 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; cl11391 187410001006 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 187410001007 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 187410001008 UvrD/REP helicase; Region: UvrD-helicase; cl14126 187410001009 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 187410001010 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl02358 187410001011 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 187410001012 Predicted permeases [General function prediction only]; Region: RarD; COG2962 187410001013 EamA-like transporter family; Region: EamA; cl01037 187410001014 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 187410001015 CoenzymeA binding site; other site 187410001016 subunit interaction site; other site 187410001017 PHB binding site; other site 187410001018 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among Gram-...; Region: OMPLA; cd00541 187410001019 substrate binding site; other site 187410001020 dimerization interface; other site 187410001021 active site 187410001022 calcium binding site; other site 187410001023 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 187410001024 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 187410001025 ATP binding site; other site 187410001026 putative Mg++ binding site; other site 187410001027 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 187410001028 nucleotide binding region; other site 187410001029 ATP-binding site; other site 187410001030 RQC domain; Region: RQC; pfam09382 187410001031 HRDC domain; Region: HRDC; cl02578 187410001032 LysE type translocator; Region: LysE; cl00565 187410001033 LysE type translocator; Region: LysE; cl00565 187410001034 lysophospholipase L2; Provisional; Region: PRK10749 187410001035 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 187410001036 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 187410001037 putative sugar phosphatase; Provisional; Region: PRK10976 187410001038 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 187410001039 active site 187410001040 motif I; other site 187410001041 motif II; other site 187410001042 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; cl11391 187410001043 Viral enhancin protein; Region: Enhancin; pfam03272 187410001044 Viral enhancin protein; Region: Enhancin; pfam03272 187410001045 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 187410001046 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 187410001047 active site 187410001048 catalytic site; other site 187410001049 metal-binding site 187410001050 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 187410001051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410001052 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 187410001053 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 187410001054 FAD binding domain; Region: FAD_binding_2; pfam00890 187410001055 C subunit; Region: glycerol3P_GlpC; TIGR03379 187410001056 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 alpha-; Region: HCP_like; cl00255 187410001057 Cysteine-rich domain; Region: CCG; pfam02754 187410001058 Cysteine-rich domain; Region: CCG; pfam02754 187410001059 hypothetical protein; Provisional; Region: PRK11615 187410001060 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 187410001061 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 187410001062 CPxP motif; other site 187410001063 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 187410001064 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 187410001065 metal-binding site 187410001066 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187410001067 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; cl11391 187410001068 YhhN-like protein; Region: YhhN; cl01505 187410001069 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 187410001070 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 187410001071 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 187410001072 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 187410001073 S-adenosylmethionine binding site; other site 187410001074 cell division protein FtsY; Provisional; Region: PRK10416 187410001075 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 187410001076 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 187410001077 P loop; other site 187410001078 GTP binding site; other site 187410001079 cell division protein FtsE; Provisional; Region: PRK10908 187410001080 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410001081 Walker A/P-loop; other site 187410001082 ATP binding site; other site 187410001083 Q-loop/lid; other site 187410001084 ABC transporter signature motif; other site 187410001085 Walker B; other site 187410001086 D-loop; other site 187410001087 H-loop/switch region; other site 187410001088 Predicted permease; Region: FtsX; cl11418 187410001089 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 187410001090 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187410001091 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...; Region: Sigma70_r4; cd06171 187410001092 DNA binding residues 187410001093 Transposase IS200 like; Region: Transposase_17; cl00848 187410001094 Acetyltransferase, GNAT family; Region: DUF3749; pfam12568 187410001095 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 187410001096 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 187410001097 dimerization interface; other site 187410001098 ligand binding site; other site 187410001099 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 187410001100 TM-ABC transporter signature motif; other site 187410001101 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 187410001102 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 187410001103 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 187410001104 TM-ABC transporter signature motif; other site 187410001105 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 187410001106 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 187410001107 Walker A/P-loop; other site 187410001108 ATP binding site; other site 187410001109 Q-loop/lid; other site 187410001110 ABC transporter signature motif; other site 187410001111 Walker B; other site 187410001112 D-loop; other site 187410001113 H-loop/switch region; other site 187410001114 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 187410001115 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 187410001116 Walker A/P-loop; other site 187410001117 ATP binding site; other site 187410001118 Q-loop/lid; other site 187410001119 ABC transporter signature motif; other site 187410001120 Walker B; other site 187410001121 D-loop; other site 187410001122 H-loop/switch region; other site 187410001123 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410001124 Fimbrial Usher protein; Region: Usher; pfam00577 187410001125 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 187410001126 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 187410001127 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 187410001128 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410001129 dimer interface; other site 187410001130 conserved gate region; other site 187410001131 putative PBP binding loops; other site 187410001132 ABC-ATPase subunit interface; other site 187410001133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410001134 dimer interface; other site 187410001135 conserved gate region; other site 187410001136 putative PBP binding loops; other site 187410001137 ABC-ATPase subunit interface; other site 187410001138 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 187410001139 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 187410001140 Walker A/P-loop; other site 187410001141 ATP binding site; other site 187410001142 Q-loop/lid; other site 187410001143 ABC transporter signature motif; other site 187410001144 Walker B; other site 187410001145 D-loop; other site 187410001146 H-loop/switch region; other site 187410001147 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 187410001148 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 187410001149 putative active site; other site 187410001150 catalytic site; other site 187410001151 putative metal binding site; other site 187410001152 Membrane transport protein; Region: Mem_trans; cl09117 187410001153 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 187410001154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187410001155 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410001156 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 187410001157 putative dimerization interface; other site 187410001158 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 187410001159 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 187410001160 THF binding site; other site 187410001161 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 187410001162 substrate binding site; other site 187410001163 THF binding site; other site 187410001164 zinc-binding site; other site 187410001165 Dienelactone hydrolase family; Region: DLH; pfam01738 187410001166 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 187410001167 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 187410001168 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 187410001169 Carbon starvation protein CstA; Region: CstA; cl00856 187410001170 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 187410001171 DNA recombination protein RmuC; Provisional; Region: PRK10361 187410001172 RmuC family; Region: RmuC; pfam02646 187410001173 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 187410001174 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 187410001175 S-adenosylmethionine binding site; other site 187410001176 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410001177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 187410001178 SCP-2 sterol transfer family; Region: SCP2; cl01225 187410001179 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 187410001180 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 187410001181 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 187410001182 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 187410001183 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 187410001184 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 187410001185 active site 187410001186 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410001187 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410001188 Integrase core domain; Region: rve; cl01316 187410001189 transposase/IS protein; Provisional; Region: PRK09183 187410001190 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...; Region: AAA; cd00009 187410001191 Walker A motif; other site 187410001192 ATP binding site; other site 187410001193 Walker B motif; other site 187410001194 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...; Region: metallo-dependent_hydrolases; cl00281 187410001195 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 187410001196 dimer interface; other site 187410001197 allosteric magnesium binding site; other site 187410001198 active site 187410001199 aspartate-rich active site metal binding site; other site 187410001200 Schiff base residues; other site 187410001201 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 187410001202 Transcription termination factor nusG; Region: NusG; cl02766 187410001203 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 187410001204 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 187410001205 FMN reductase; Validated; Region: fre; PRK08051 187410001206 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD...; Region: flavin_oxioreductase; cd06189 187410001207 FAD binding pocket; other site 187410001208 FAD binding motif; other site 187410001209 phosphate binding motif; other site 187410001210 beta-alpha-beta structure motif; other site 187410001211 NAD binding pocket; other site 187410001212 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 187410001213 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 187410001214 dimer interface; other site 187410001215 active site 187410001216 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 187410001217 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 187410001218 substrate binding site; other site 187410001219 oxyanion hole (OAH) forming residues; other site 187410001220 trimer interface; other site 187410001221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410001222 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 187410001223 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 187410001224 proline dipeptidase; Provisional; Region: PRK13607 187410001225 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 187410001226 active site 187410001227 Transposase IS200 like; Region: Transposase_17; cl00848 187410001228 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 187410001229 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 187410001230 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 187410001231 Cation transport protein; Region: TrkH; cl10514 187410001232 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410001233 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 187410001234 FAD binding domain; Region: FAD_binding_4; cl10516 187410001235 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 187410001236 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410001237 biotin--protein ligase; Provisional; Region: PRK11886 187410001238 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 187410001239 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 187410001240 pantothenate kinase; Provisional; Region: PRK05439 187410001241 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 187410001242 ATP-binding site; other site 187410001243 CoA-binding site; other site 187410001244 Mg2+-binding site; other site 187410001245 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410001246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410001247 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410001248 Integrase core domain; Region: rve; cl01316 187410001249 transposase/IS protein; Provisional; Region: PRK09183 187410001250 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...; Region: AAA; cd00009 187410001251 Walker A motif; other site 187410001252 ATP binding site; other site 187410001253 Walker B motif; other site 187410001254 elongation factor Tu; Reviewed; Region: PRK00049 187410001255 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 187410001256 G1 box; other site 187410001257 GEF interaction site; other site 187410001258 GTP/Mg2+ binding site; other site 187410001259 Switch I region; other site 187410001260 G2 box; other site 187410001261 G3 box; other site 187410001262 Switch II region; other site 187410001263 G4 box; other site 187410001264 G5 box; other site 187410001265 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 187410001266 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 187410001267 Antibiotic Binding Site; other site 187410001268 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 187410001269 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 187410001270 Transcription termination factor nusG; Region: NusG; cl02766 187410001271 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 187410001272 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 187410001273 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 187410001274 23S rRNA interface; other site 187410001275 L7/L12 interface; other site 187410001276 putative thiostrepton binding site; other site 187410001277 L25 interface; other site 187410001278 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...; Region: Ribosomal_L1; cd00403 187410001279 mRNA/rRNA interface; other site 187410001280 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...; Region: Ribosomal_L10; cd05797 187410001281 23S rRNA interface; other site 187410001282 Interface with L7/L12 ribosomal proteins; other site 187410001283 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 187410001284 core dimer interface; other site 187410001285 peripheral dimer interface; other site 187410001286 L10 interface; other site 187410001287 L11 interface; other site 187410001288 putative EF-Tu interaction site; other site 187410001289 putative EF-G interaction site; other site 187410001290 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 187410001291 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK05258 187410001292 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 187410001293 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 187410001294 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 187410001295 RPB11 interaction site; other site 187410001296 RPB12 interaction site; other site 187410001297 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 187410001298 RPB3 interaction site; other site 187410001299 RPB1 interaction site; other site 187410001300 RPB11 interaction site; other site 187410001301 RPB10 interaction site; other site 187410001302 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 187410001303 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 187410001304 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 187410001305 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 187410001306 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK02597 187410001307 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 187410001308 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 187410001309 Rpb1 - Rpb6 interaction site; other site 187410001310 DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 187410001311 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 187410001312 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 187410001313 DNA binding site 187410001314 Rpb1 (beta') - Rpb2 (beta) interaction site; other site 187410001315 Transposase IS200 like; Region: Transposase_17; cl00848 187410001316 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 187410001317 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 187410001318 FeS/SAM binding site; other site 187410001319 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 187410001320 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 187410001321 ThiS interaction site; other site 187410001322 putative active site; other site 187410001323 tetramer interface; other site 187410001324 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 187410001325 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...; Region: ThiF_MoeB_HesA_family; cd00757 187410001326 ATP binding site; other site 187410001327 substrate interface; other site 187410001328 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- (beta...; Region: TMP_TenI; cd00564 187410001329 thiamine phosphate binding site; other site 187410001330 active site 187410001331 pyrophosphate binding site; other site 187410001332 ThiC family; Region: ThiC; cl08031 187410001333 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 187410001334 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 187410001335 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 187410001336 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 187410001337 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 187410001338 putative NADH binding site; other site 187410001339 putative active site; other site 187410001340 nudix motif; other site 187410001341 putative metal binding site; other site 187410001342 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...; Region: URO-D; cd00717 187410001343 substrate binding site; other site 187410001344 active site 187410001345 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 187410001346 active site 187410001347 Protein of unknown function, DUF; Region: DUF416; cl01166 187410001348 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 higher...; Region: HU_IHF; cd00591 187410001349 IHF dimer interface; other site 187410001350 IHF - DNA interface; other site 187410001351 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 187410001352 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 187410001353 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 187410001354 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410001355 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 187410001356 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 187410001357 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 187410001358 purine monophosphate binding site; other site 187410001359 dimer interface; other site 187410001360 putative catalytic residues; other site 187410001361 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 187410001362 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 187410001363 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410001364 putative transposase OrfB; Reviewed; Region: PHA02517 187410001365 Integrase core domain; Region: rve; cl01316 187410001366 transposase/IS protein; Provisional; Region: PRK09183 187410001367 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...; Region: AAA; cd00009 187410001368 Walker A motif; other site 187410001369 ATP binding site; other site 187410001370 Walker B motif; other site 187410001371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410001372 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410001373 Integrase core domain; Region: rve; cl01316 187410001374 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 187410001375 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 187410001376 Sodium:solute symporter family; Region: SSF; cl00456 187410001377 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 187410001378 Protein of unknown function, DUF485; Region: DUF485; cl01231 187410001379 acetyl-CoA synthetase; Provisional; Region: PRK00174 187410001380 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 187410001381 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410001382 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 187410001383 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 187410001384 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 187410001385 active site 187410001386 phosphorylation site 187410001387 intermolecular recognition site; other site 187410001388 dimerization interface; other site 187410001389 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...; Region: LuxR_C_like; cd06170 187410001390 DNA binding residues 187410001391 dimerization interface; other site 187410001392 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 trans-...; Region: HisKA; cl00080 187410001393 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 187410001394 ATP binding site; other site 187410001395 Mg2+ binding site; other site 187410001396 G-X-G motif; other site 187410001397 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 187410001398 active site 187410001399 phosphorylation site 187410001400 intermolecular recognition site; other site 187410001401 dimerization interface; other site 187410001402 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 187410001403 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 187410001404 Protein of unknown function (DUF1142); Region: DUF1142; cl12123 187410001405 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 187410001406 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 187410001407 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 187410001408 Protein of unknown function (DUF1895); Region: DUF1895; cl07553 187410001409 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 187410001410 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410001411 Type III secretion needle MxiH like; Region: MxiH; cl09641 187410001412 Protein of unknown function (DUF1039); Region: DUF1039; cl05668 187410001413 Type III secretion needle MxiH like; Region: MxiH; cl09641 187410001414 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 187410001415 secretion system apparatus protein SsaV; Provisional; Region: PRK12720 187410001416 FHIPEP family; Region: FHIPEP; cl07980 187410001417 type III secretion system ATPase; Validated; Region: PRK06820 187410001418 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 187410001419 Walker A motif/ATP binding site; other site 187410001420 Walker B motif; other site 187410001421 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 187410001422 type III secretion system protein; Validated; Region: PRK08035 187410001423 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 187410001424 FliP family; Region: FliP; cl00593 187410001425 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 187410001426 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 187410001427 Type III secretory pathway, component EscU [Intracellular trafficking and secretion]; Region: EscU; COG4792 187410001428 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 187410001429 putative inner membrane protein; Provisional; Region: PRK11099 187410001430 YeeE/YedE family (DUF395); Region: DUF395; cl01018 187410001431 YeeE/YedE family (DUF395); Region: DUF395; cl01018 187410001432 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 187410001433 CPxP motif; other site 187410001434 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187410001435 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410001436 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 187410001437 putative effector binding pocket; other site 187410001438 dimerization interface; other site 187410001439 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 187410001440 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410001441 cystathionine beta-lyase; Provisional; Region: PRK09028 187410001442 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 187410001443 pyridoxal 5'-phosphate binding pocket; other site 187410001444 catalytic residue; other site 187410001445 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 187410001446 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 187410001447 Walker A/P-loop; other site 187410001448 ATP binding site; other site 187410001449 Q-loop/lid; other site 187410001450 ABC transporter signature motif; other site 187410001451 Walker B; other site 187410001452 D-loop; other site 187410001453 H-loop/switch region; other site 187410001454 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410001455 ABC-ATPase subunit interface; other site 187410001456 dimer interface; other site 187410001457 putative PBP binding regions; other site 187410001458 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 187410001459 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 187410001460 putative hemin binding site; other site 187410001461 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 187410001462 ChuX-like family; Region: DUF1008; cl01509 187410001463 ChuX-like family; Region: DUF1008; cl01509 187410001464 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 187410001465 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 187410001466 N-terminal plug; other site 187410001467 ligand-binding site; other site 187410001468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410001469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410001470 ChuX-like family; Region: DUF1008; cl01509 187410001471 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 187410001472 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 187410001473 FeS/SAM binding site; other site 187410001474 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...; Region: MTHFR; cd00537 187410001475 FAD binding site; other site 187410001476 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 187410001477 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 187410001478 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410001479 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 187410001480 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 187410001481 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 187410001482 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 187410001483 putative metal binding site; other site 187410001484 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 187410001485 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 187410001486 putative metal binding site; other site 187410001487 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 187410001488 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 187410001489 putative metal binding site; other site 187410001490 tellurite resistance protein terB; Region: terB; cd07176 187410001491 putative metal binding site; other site 187410001492 Integral membrane protein TerC family; Region: TerC; cl10468 187410001493 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 187410001494 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 187410001495 putative metal binding site; other site 187410001496 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 187410001497 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 187410001498 putative metal binding site; other site 187410001499 Protein of unknown function (DUF1120); Region: DUF1120; pfam06551 187410001500 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 187410001501 putative periplasmic chaperone protein; Provisional; Region: PRK09918 187410001502 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410001503 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 187410001504 Berberine and berberine like; Region: BBE; pfam08031 187410001505 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; cd00063 187410001506 Interdomain contacts; other site 187410001507 Cytokine receptor motif; other site 187410001508 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 187410001509 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 187410001510 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 187410001511 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410001512 Chorismate lyase; Region: Chor_lyase; cl01230 187410001513 UbiA prenyltransferase family; Region: UbiA; cl00337 187410001514 glycerol-3-phosphate acyltransferase; Validated; Region: PRK04974 187410001515 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 187410001516 putative acyl-acceptor binding pocket; other site 187410001517 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 187410001518 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410001519 LexA repressor; Validated; Region: PRK00215 187410001520 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 (...; Region: S24_LexA-like; cd06529 187410001521 Catalytic site; other site 187410001522 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 187410001523 metal binding site 2; metal-binding site 187410001524 putative DNA binding helix; other site 187410001525 metal binding site 1; metal-binding site 187410001526 dimer interface; other site 187410001527 structural Zn2+ binding site; other site 187410001528 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...; Region: DUS_like_FMN; cd02801 187410001529 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 187410001530 FMN binding site; other site 187410001531 active site 187410001532 catalytic residues; other site 187410001533 substrate binding site; other site 187410001534 Phage shock protein G (Phageshock_PspG); Region: Phageshock_PspG; cl11511 187410001535 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 187410001536 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 187410001537 NADP binding site; other site 187410001538 dimer interface; other site 187410001539 replicative DNA helicase; Provisional; Region: PRK08006 187410001540 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 187410001541 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 187410001542 Walker A motif; other site 187410001543 ATP binding site; other site 187410001544 Walker B motif; other site 187410001545 DNA binding loops 187410001546 alanine racemase; Reviewed; Region: alr; PRK00053 187410001547 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 187410001548 active site 187410001549 pyridoxal 5'-phosphate (PLP) binding site; other site 187410001550 substrate binding site; other site 187410001551 catalytic residues; other site 187410001552 dimer interface; other site 187410001553 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 187410001554 pyridoxal 5'-phosphate binding site; other site 187410001555 homodimer interface; other site 187410001556 catalytic residue; other site 187410001557 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 187410001558 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 187410001559 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 187410001560 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 187410001561 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 187410001562 dimer interface; other site 187410001563 ssDNA binding site; other site 187410001564 tetramer (dimer of dimers) interface; other site 187410001565 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 187410001566 Domain of unknown function (DUF718); Region: DUF718; cl01281 187410001567 lactaldehyde reductase; Region: lactal_redase; TIGR02638 187410001568 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 187410001569 dimer interface; other site 187410001570 active site 187410001571 metal-binding site 187410001572 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; cd00398 187410001573 intersubunit interface; other site 187410001574 active site 187410001575 Zn2+ binding site; other site 187410001576 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 187410001577 rhamnulokinase; Provisional; Region: rhaB; PRK10640 187410001578 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 187410001579 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 187410001580 transcriptional activator RhaS; Provisional; Region: PRK13503 187410001581 Cupin domain; Region: Cupin_2; cl09118 187410001582 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410001583 transcriptional activator RhaR; Provisional; Region: PRK13501 187410001584 Cupin domain; Region: Cupin_2; cl09118 187410001585 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410001586 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 187410001587 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 187410001588 IS1 transposase; Region: Transposase_27; cl00721 187410001589 Viral enhancin protein; Region: Enhancin; pfam03272 187410001590 putative transcriptional regulator; Provisional; Region: PRK11640 187410001591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187410001592 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 187410001593 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 alpha-; Region: HCP_like; cl00255 187410001594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410001595 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 187410001596 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 187410001597 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)...; Region: MopB_Formate-Dh-H; cd02753 187410001598 [4Fe-4S] binding site; other site 187410001599 molybdopterin cofactor binding site; other site 187410001600 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)...; Region: MopB_CT_Formate-Dh_H; cd02790 187410001601 molybdopterin cofactor binding site; other site 187410001602 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 187410001603 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 187410001604 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 187410001605 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 187410001606 DsbD alpha interface; other site 187410001607 catalytic residues; other site 187410001608 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 187410001609 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 187410001610 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 187410001611 Aspartase; Region: Aspartase; cd01357 187410001612 active sites 187410001613 tetramer interface; other site 187410001614 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 187410001615 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...; Region: cpn10; cd00320 187410001616 oligomerisation interface; other site 187410001617 mobile loop; other site 187410001618 roof hairpin; other site 187410001619 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 187410001620 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 187410001621 ring oligomerisation interface; other site 187410001622 ATP/Mg binding site; other site 187410001623 stacking interactions; other site 187410001624 hinge regions; other site 187410001625 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 187410001626 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 187410001627 FeS/SAM binding site; other site 187410001628 elongation factor P; Validated; Region: PRK00529 187410001629 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 187410001630 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 187410001631 RNA binding site; other site 187410001632 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 187410001633 RNA binding site; other site 187410001634 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 187410001635 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 187410001636 Iron-sulfur protein interface; other site 187410001637 proximal quinone binding site; other site 187410001638 C-subunit interface; other site 187410001639 distal quinone binding site; other site 187410001640 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 187410001641 D-subunit interface; other site 187410001642 Iron-sulfur protein interface; other site 187410001643 proximal quinone binding site; other site 187410001644 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 187410001645 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 187410001646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410001647 domain; Region: Succ_DH_flav_C; pfam02910 187410001648 lysyl-tRNA synthetase; Provisional; Region: PRK09350 187410001649 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 187410001650 motif 1; other site 187410001651 dimer interface; other site 187410001652 active site 187410001653 motif 2; other site 187410001654 motif 3; other site 187410001655 hypothetical protein; Provisional; Region: PRK10929 187410001656 Photosynthetic reaction centre protein; Region: Photo_RC; cl08220 187410001657 Mechanosensitive ion channel; Region: MS_channel; pfam00924 187410001658 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 187410001659 ribosome-associated GTPase; Reviewed; Region: PRK12288 187410001660 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 187410001661 GTPase/OB domain interface; other site 187410001662 GTPase/Zn-binding domain interface; other site 187410001663 GTP/Mg2+ binding site; other site 187410001664 G4 box; other site 187410001665 G5 box; other site 187410001666 G1 box; other site 187410001667 Switch I region; other site 187410001668 G2 box; other site 187410001669 G3 box; other site 187410001670 Switch II region; other site 187410001671 Oligoribonuclease (Orn) is a DEDDh-type DnaQ-like 3'-5' exoribonuclease that is responsible for degrading small oligoribonucleotides to mononucleotides. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D...; Region: Orn; cd06135 187410001672 putative active site; other site 187410001673 putative substrate binding site; other site 187410001674 catalytic site; other site 187410001675 dimer interface; other site 187410001676 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 187410001677 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 187410001678 hypothetical protein; Provisional; Region: PRK10565 187410001679 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 187410001680 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 187410001681 putative substrate binding site; other site 187410001682 putative ATP binding site; other site 187410001683 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 187410001684 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 187410001685 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 187410001686 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 187410001687 active site 187410001688 metal-binding site 187410001689 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 187410001690 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 187410001691 putative peptidoglycan binding site; other site 187410001692 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 187410001693 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 187410001694 putative peptidoglycan binding site; other site 187410001695 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 187410001696 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 187410001697 ATP binding site; other site 187410001698 Mg2+ binding site; other site 187410001699 G-X-G motif; other site 187410001700 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 187410001701 ATP binding site; other site 187410001702 MutL C terminal dimerization domain; Region: MutL_C; cl07336 187410001703 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 187410001704 IPP transferase; Region: IPPT; cl00403 187410001705 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 187410001706 Sm1 motif; other site 187410001707 intra - hexamer interaction site; other site 187410001708 inter - hexamer interaction site; other site 187410001709 nucleotide binding pocket; other site 187410001710 Sm2 motif; other site 187410001711 putative GTPase HflX; Provisional; Region: PRK11058 187410001712 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 187410001713 G1 box; other site 187410001714 GTP/Mg2+ binding site; other site 187410001715 Switch I region; other site 187410001716 G2 box; other site 187410001717 G3 box; other site 187410001718 Switch II region; other site 187410001719 G4 box; other site 187410001720 G5 box; other site 187410001721 FtsH protease regulator HflK; Provisional; Region: PRK10930 187410001722 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 187410001723 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 187410001724 FtsH protease regulator HflC; Provisional; Region: PRK11029 187410001725 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 187410001726 adenylosuccinate synthetase; Provisional; Region: PRK01117 187410001727 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 r-...; Region: AdSS; cd03108 187410001728 GDP-binding site; other site 187410001729 ACT binding site; other site 187410001730 IMP binding site; other site 187410001731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410001732 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 187410001733 exoribonuclease R; Provisional; Region: PRK11642 187410001734 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 187410001735 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 187410001736 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 187410001737 RNB domain; Region: RNB; pfam00773 187410001738 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...; Region: S1_RNase_R; cd04471 187410001739 RNA binding site; other site 187410001740 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 187410001741 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 187410001742 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 187410001743 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 187410001744 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 187410001745 active site 187410001746 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 187410001747 esterase; Provisional; Region: PRK10566 187410001748 transposase/IS protein; Provisional; Region: PRK09183 187410001749 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...; Region: AAA; cd00009 187410001750 Walker A motif; other site 187410001751 ATP binding site; other site 187410001752 Walker B motif; other site 187410001753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410001754 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410001755 Integrase core domain; Region: rve; cl01316 187410001756 esterase; Provisional; Region: PRK10566 187410001757 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 187410001758 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 187410001759 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 187410001760 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 187410001761 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 187410001762 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 187410001763 Transposase IS200 like; Region: Transposase_17; cl00848 187410001764 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 187410001765 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 187410001766 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 187410001767 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 187410001768 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 187410001769 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 187410001770 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 187410001771 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 187410001772 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 187410001773 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 187410001774 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 187410001775 active site 187410001776 metal-binding site 187410001777 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 187410001778 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 187410001779 active site 187410001780 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl01158 187410001781 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 187410001782 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 187410001783 Domain of unknown function DUF21; Region: DUF21; pfam01595 187410001784 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 187410001785 Transporter associated domain; Region: CorC_HlyC; pfam03471 187410001786 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 187410001787 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 187410001788 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410001789 Surface antigen; Region: Bac_surface_Ag; cl03097 187410001790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 187410001791 Family of unknown function (DUF490); Region: DUF490; pfam04357 187410001792 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 187410001793 putative active site pocket; other site 187410001794 dimerization interface; other site 187410001795 putative catalytic residue; other site 187410001796 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 187410001797 dimer interface; other site 187410001798 substrate binding site; other site 187410001799 metal binding sites; metal-binding site 187410001800 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1,7...; Region: FBPase; cd00354 187410001801 AMP binding site; other site 187410001802 metal-binding site 187410001803 active site 187410001804 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 187410001805 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 187410001806 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187410001807 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 187410001808 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 187410001809 arginine repressor; Provisional; Region: PRK05066 187410001810 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 187410001811 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 187410001812 malate dehydrogenase; Provisional; Region: PRK05086 187410001813 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 187410001814 NAD binding site; other site 187410001815 dimerization interface; other site 187410001816 Substrate binding site; other site 187410001817 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 187410001818 Mu DNA-binding domain; Region: Mu_DNA_bind; pfam02316 187410001819 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 187410001820 substrate binding pocket; other site 187410001821 chain length determination region; other site 187410001822 substrate-Mg2+ binding site; other site 187410001823 catalytic residues; other site 187410001824 aspartate-rich region 1; other site 187410001825 active site lid residues 187410001826 aspartate-rich region 2; other site 187410001827 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 187410001828 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 187410001829 EamA-like transporter family; Region: EamA; cl01037 187410001830 GTPase ObgE; Reviewed; Region: obgE; PRK12298 187410001831 GTP1/OBG; Region: GTP1_OBG; pfam01018 187410001832 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 187410001833 G1 box; other site 187410001834 GTP/Mg2+ binding site; other site 187410001835 Switch I region; other site 187410001836 G2 box; other site 187410001837 G3 box; other site 187410001838 Switch II region; other site 187410001839 G4 box; other site 187410001840 G5 box; other site 187410001841 sensor protein BasS/PmrB; Provisional; Region: PRK10755 187410001842 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410001843 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 trans-...; Region: HisKA; cd00082 187410001844 dimer interface; other site 187410001845 phosphorylation site 187410001846 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 187410001847 ATP binding site; other site 187410001848 Mg2+ binding site; other site 187410001849 G-X-G motif; other site 187410001850 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 187410001851 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 187410001852 active site 187410001853 phosphorylation site 187410001854 intermolecular recognition site; other site 187410001855 dimerization interface; other site 187410001856 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...; Region: trans_reg_C; cd00383 187410001857 DNA binding site 187410001858 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl03453 187410001859 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 187410001860 domain; Region: GreA_GreB_N; pfam03449 187410001861 C-term; Region: GreA_GreB; pfam01272 187410001862 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 187410001863 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 187410001864 S-adenosylmethionine binding site; other site 187410001865 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 187410001866 FtsH Extracellular; Region: FtsH_ext; pfam06480 187410001867 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...; Region: AAA; cd00009 187410001868 Walker A motif; other site 187410001869 ATP binding site; other site 187410001870 Walker B motif; other site 187410001871 arginine finger; other site 187410001872 Peptidase family M41; Region: Peptidase_M41; pfam01434 187410001873 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 187410001874 substrate binding pocket; other site 187410001875 dimer interface; other site 187410001876 inhibitor binding site; inhibition site 187410001877 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 187410001878 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 UDP-N-...; Region: GlmM; cd05802 187410001879 active site 187410001880 substrate binding site; other site 187410001881 metal-binding site 187410001882 Preprotein translocase SecG subunit; Region: SecG; cl09123 187410001883 hypothetical protein; Reviewed; Region: PRK00092 187410001884 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...; Region: Sm_like; cl00259 187410001885 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 187410001886 Sm1 motif; other site 187410001887 predicted subunit interaction site; other site 187410001888 RNA binding pocket; other site 187410001889 Sm2 motif; other site 187410001890 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 187410001891 NusA N-terminal domain; Region: NusA_N; pfam08529 187410001892 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...; Region: S1_NusA; cd04455 187410001893 RNA binding site; other site 187410001894 homodimer interface; other site 187410001895 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 187410001896 G-X-X-G motif; other site 187410001897 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 187410001898 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 187410001899 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 187410001900 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 187410001901 MAEBL; Provisional; Region: PTZ00121 187410001902 translation initiation factor IF-2; Region: IF-2; TIGR00487 187410001903 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 187410001904 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 187410001905 G1 box; other site 187410001906 putative GEF interaction site; other site 187410001907 GTP/Mg2+ binding site; other site 187410001908 Switch I region; other site 187410001909 G2 box; other site 187410001910 G3 box; other site 187410001911 Switch II region; other site 187410001912 G4 box; other site 187410001913 G5 box; other site 187410001914 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...; Region: IF2_mtIF2_II; cd03702 187410001915 Translation-initiation factor 2; Region: IF-2; pfam11987 187410001916 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...; Region: mtIF2_IVc; cd03692 187410001917 Ribosome-binding factor A; Region: RBFA; cl00542 187410001918 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 187410001919 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 187410001920 RNA binding site; other site 187410001921 active site 187410001922 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...; Region: Ribosomal_S15p_S13e; cd00353 187410001923 16S/18S rRNA binding site; other site 187410001924 S13e-L30e interaction site; other site 187410001925 25S rRNA binding site; other site 187410001926 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 187410001927 putative transposase OrfB; Reviewed; Region: PHA02517 187410001928 Integrase core domain; Region: rve; cl01316 187410001929 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 187410001930 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 187410001931 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 187410001932 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 187410001933 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 187410001934 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 187410001935 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 187410001936 putative nucleic acid binding region; other site 187410001937 G-X-X-G motif; other site 187410001938 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 187410001939 RNA binding site; other site 187410001940 domain interface; other site 187410001941 lipoprotein NlpI; Provisional; Region: PRK11189 187410001942 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 187410001943 binding surface 187410001944 TPR motif; other site 187410001945 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 187410001946 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 187410001947 ATP binding site; other site 187410001948 Mg++ binding site; other site 187410001949 motif III; other site 187410001950 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 187410001951 nucleotide binding region; other site 187410001952 ATP-binding site; other site 187410001953 DbpA RNA binding domain; Region: DbpA; pfam03880 187410001954 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 187410001955 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 187410001956 non-specific DNA binding site; other site 187410001957 salt bridge; other site 187410001958 sequence-specific DNA binding site; other site 187410001959 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 187410001960 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 187410001961 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 187410001962 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 187410001963 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 187410001964 Protein export membrane protein; Region: SecD_SecF; cl14618 187410001965 NodT family; Region: outer_NodT; TIGR01845 187410001966 Outer membrane efflux protein; Region: OEP; pfam02321 187410001967 Outer membrane efflux protein; Region: OEP; pfam02321 187410001968 Peptidase family U32; Region: Peptidase_U32; pfam01136 187410001969 Peptidase family U32; Region: Peptidase_U32; pfam01136 187410001970 SCP-2 sterol transfer family; Region: SCP2; cl01225 187410001971 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410001972 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 187410001973 Heparinase II/III-like protein; Region: Hepar_II_III; cl02215 187410001974 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 187410001975 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 187410001976 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 187410001977 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410001978 dimer interface; other site 187410001979 putative PBP binding loops; other site 187410001980 ABC-ATPase subunit interface; other site 187410001981 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410001982 dimer interface; other site 187410001983 conserved gate region; other site 187410001984 putative PBP binding loops; other site 187410001985 ABC-ATPase subunit interface; other site 187410001986 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 187410001987 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 187410001988 Walker A/P-loop; other site 187410001989 ATP binding site; other site 187410001990 Q-loop/lid; other site 187410001991 ABC transporter signature motif; other site 187410001992 Walker B; other site 187410001993 D-loop; other site 187410001994 H-loop/switch region; other site 187410001995 TOBE domain; Region: TOBE_2; cl01440 187410001996 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 187410001997 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 187410001998 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187410001999 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 187410002000 active site 187410002001 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 187410002002 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...; Region: metallo-dependent_hydrolases; cl00281 187410002003 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 187410002004 active site 187410002005 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 187410002006 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 187410002007 Walker A/P-loop; other site 187410002008 ATP binding site; other site 187410002009 Q-loop/lid; other site 187410002010 ABC transporter signature motif; other site 187410002011 Walker B; other site 187410002012 D-loop; other site 187410002013 H-loop/switch region; other site 187410002014 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 187410002015 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 187410002016 Walker A/P-loop; other site 187410002017 ATP binding site; other site 187410002018 Q-loop/lid; other site 187410002019 ABC transporter signature motif; other site 187410002020 Walker B; other site 187410002021 D-loop; other site 187410002022 H-loop/switch region; other site 187410002023 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 187410002024 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 187410002025 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 187410002026 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 187410002027 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 187410002028 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 187410002029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410002030 DNA binding site 187410002031 UTRA domain; Region: UTRA; cl06649 187410002032 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 187410002033 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; cl14056 187410002034 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 187410002035 ATP cone domain; Region: ATP-cone; pfam03477 187410002036 Class III ribonucleotide reductase; Region: RNR_III; cd01675 187410002037 effector binding site; other site 187410002038 active site 187410002039 Zn binding site; other site 187410002040 glycine loop; other site 187410002041 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 187410002042 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 187410002043 Walker A/P-loop; other site 187410002044 ATP binding site; other site 187410002045 Q-loop/lid; other site 187410002046 ABC transporter signature motif; other site 187410002047 Walker B; other site 187410002048 D-loop; other site 187410002049 H-loop/switch region; other site 187410002050 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 187410002051 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 187410002052 Walker A/P-loop; other site 187410002053 ATP binding site; other site 187410002054 Q-loop/lid; other site 187410002055 ABC transporter signature motif; other site 187410002056 Walker B; other site 187410002057 D-loop; other site 187410002058 H-loop/switch region; other site 187410002059 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 187410002060 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410002061 dimer interface; other site 187410002062 conserved gate region; other site 187410002063 putative PBP binding loops; other site 187410002064 ABC-ATPase subunit interface; other site 187410002065 Domain of unknown function (DUF386); Region: DUF386; cl01047 187410002066 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 187410002067 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 187410002068 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 187410002069 Protein of unknown function (DUF1260); Region: DUF1260; cl01170 187410002070 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 187410002071 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187410002072 HIGH motif; other site 187410002073 active site 187410002074 nucleotide binding site; other site 187410002075 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 187410002076 active site 187410002077 KMSKS motif; other site 187410002078 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 187410002079 tRNA binding surface; other site 187410002080 anticodon binding site; other site 187410002081 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 187410002082 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 187410002083 leucyl aminopeptidase; Provisional; Region: PRK00913 187410002084 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...; Region: Peptidase_M17; cd00433 187410002085 interface (dimer of trimers); other site 187410002086 Substrate-binding/catalytic site; other site 187410002087 Zn-binding sites; other site 187410002088 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 187410002089 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 187410002090 integrase; Provisional; Region: PRK09692 187410002091 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 187410002092 Int/Topo IB signature motif; other site 187410002093 active site 187410002094 Uncharacterized conserved protein [Function unknown]; Region: COG1479 187410002095 Protein of unknown function DUF262; Region: DUF262; pfam03235 187410002096 Protein of unknown function DUF262; Region: DUF262; pfam03235 187410002097 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 187410002098 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 187410002099 transposase/IS protein; Provisional; Region: PRK09183 187410002100 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...; Region: AAA; cd00009 187410002101 Walker A motif; other site 187410002102 ATP binding site; other site 187410002103 Walker B motif; other site 187410002104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410002105 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410002106 Integrase core domain; Region: rve; cl01316 187410002107 Transposase IS200 like; Region: Transposase_17; cl00848 187410002108 Domain of unknown function (DUF329); Region: DUF329; cl01144 187410002109 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 187410002110 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 187410002111 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 187410002112 CoA-binding site; other site 187410002113 ATP-binding; other site 187410002114 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 187410002115 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...; Region: IMPDH; cd00381 187410002116 active site 187410002117 type IV pilin biogenesis protein; Provisional; Region: PRK10573 187410002118 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 187410002119 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 187410002120 hypothetical protein; Provisional; Region: PRK10436 187410002121 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 187410002122 Walker A motif; other site 187410002123 ATP binding site; other site 187410002124 Walker B motif; other site 187410002125 putative major pilin subunit; Provisional; Region: PRK10574 187410002126 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 187410002127 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 187410002128 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 5-...; Region: QPRTase; cd01572 187410002129 dimerization interface; other site 187410002130 active site 187410002131 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 187410002132 amidase catalytic site; other site 187410002133 Zn binding residues; other site 187410002134 substrate binding site; other site 187410002135 CobD/Cbib protein; Region: CobD_Cbib; cl00561 187410002136 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410002137 Amino acid permease; Region: AA_permease; pfam00324 187410002138 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 187410002139 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410002140 DNA binding site 187410002141 FCD domain; Region: FCD; cl11656 187410002142 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 187410002143 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 187410002144 dimer interface; other site 187410002145 TPP-binding site; other site 187410002146 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 187410002147 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 187410002148 E3 interaction surface; other site 187410002149 lipoyl attachment site; other site 187410002150 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 187410002151 E3 interaction surface; other site 187410002152 lipoyl attachment site; other site 187410002153 e3 binding domain; Region: E3_binding; pfam02817 187410002154 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 187410002155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410002156 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 187410002157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410002158 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 187410002159 Transposase IS200 like; Region: Transposase_17; cl00848 187410002160 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 187410002161 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...; Region: AcnB_Swivel; cd01576 187410002162 substrate binding site; other site 187410002163 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 187410002164 substrate binding site; other site 187410002165 ligand binding site; other site 187410002166 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 187410002167 hypothetical protein; Provisional; Region: PRK11689 187410002168 EamA-like transporter family; Region: EamA; cl01037 187410002169 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 187410002170 spermidine synthase; Provisional; Region: PRK00811 187410002171 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 187410002172 S-adenosylmethionine binding site; other site 187410002173 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 187410002174 multicopper oxidase; Provisional; Region: PRK10965 187410002175 Multicopper oxidase; Region: Cu-oxidase; cl11412 187410002176 Multicopper oxidase; Region: Cu-oxidase; cl11412 187410002177 Multicopper oxidase; Region: Cu-oxidase; cl11412 187410002178 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410002179 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_cladeA; cd00883 187410002180 active site clefts 187410002181 zinc binding site; other site 187410002182 dimer interface; other site 187410002183 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 187410002184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410002185 Walker A/P-loop; other site 187410002186 ATP binding site; other site 187410002187 Q-loop/lid; other site 187410002188 ABC transporter signature motif; other site 187410002189 Walker B; other site 187410002190 D-loop; other site 187410002191 H-loop/switch region; other site 187410002192 ABC-2 type transporter; Region: ABC2_membrane; cl11417 187410002193 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 187410002194 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 187410002195 tetramerization interface; other site 187410002196 active site 187410002197 pantoate--beta-alanine ligase; Region: panC; TIGR00018 187410002198 Pantoate-beta-alanine ligase; Region: PanC; cd00560 187410002199 active site 187410002200 ATP-binding site; other site 187410002201 pantoate-binding site; other site 187410002202 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 187410002203 oligomerization interface; other site 187410002204 active site 187410002205 metal-binding site 187410002206 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 187410002207 catalytic center binding site; other site 187410002208 ATP binding site; other site 187410002209 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 187410002210 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 187410002211 active site 187410002212 NTP binding site; other site 187410002213 metal binding triad; metal-binding site 187410002214 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187410002215 active site 187410002216 nucleotide binding site; other site 187410002217 HIGH motif; other site 187410002218 KMSKS motif; other site 187410002219 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 187410002220 Sugar fermentation stimulation protein; Region: SfsA; cl00647 187410002221 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 187410002222 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 187410002223 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 187410002224 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 187410002225 ATP binding site; other site 187410002226 putative Mg++ binding site; other site 187410002227 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 187410002228 nucleotide binding region; other site 187410002229 ATP-binding site; other site 187410002230 Helicase associated domain (HA2); Region: HA2; cl04503 187410002231 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 187410002232 penicillin-binding protein 1b; Reviewed; Region: mrcB; PRK09506 187410002233 Transglycosylase; Region: Transgly; cl07896 187410002234 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 187410002235 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 187410002236 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 187410002237 Walker A/P-loop; other site 187410002238 ATP binding site; other site 187410002239 Q-loop/lid; other site 187410002240 ABC transporter signature motif; other site 187410002241 Walker B; other site 187410002242 D-loop; other site 187410002243 H-loop/switch region; other site 187410002244 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...; Region: FhuD; cd01146 187410002245 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 187410002246 siderophore binding site; other site 187410002247 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 187410002248 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410002249 ABC-ATPase subunit interface; other site 187410002250 dimer interface; other site 187410002251 putative PBP binding regions; other site 187410002252 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410002253 ABC-ATPase subunit interface; other site 187410002254 dimer interface; other site 187410002255 putative PBP binding regions; other site 187410002256 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 187410002257 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 187410002258 inhibitor-cofactor binding pocket; inhibition site 187410002259 pyridoxal 5'-phosphate binding site; other site 187410002260 catalytic residue; other site 187410002261 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-...; Region: EriC; cd01031 187410002262 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 187410002263 Cl- selectivity filter; other site 187410002264 Cl- binding residues; other site 187410002265 pore gating glutamate residue; other site 187410002266 dimer interface; other site 187410002267 H+/Cl- coupling transport residue; other site 187410002268 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 187410002269 hypothetical protein; Provisional; Region: PRK10578 187410002270 UPF0126 domain; Region: UPF0126; pfam03458 187410002271 UPF0126 domain; Region: UPF0126; pfam03458 187410002272 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal...; Region: BtuF; cd01144 187410002273 cobalamin binding residues; other site 187410002274 putative BtuC binding residues; other site 187410002275 dimer interface; other site 187410002276 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 187410002277 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 187410002278 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 187410002279 serine endoprotease; Provisional; Region: PRK10942 187410002280 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...; Region: Tryp_SPc; cl00149 187410002281 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 C-...; Region: PDZ_serine_protease; cd00987 187410002282 protein binding site; other site 187410002283 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 C-...; Region: PDZ_serine_protease; cd00987 187410002284 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 187410002285 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 187410002286 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410002287 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 trans-...; Region: HisKA; cd00082 187410002288 dimer interface; other site 187410002289 phosphorylation site 187410002290 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 187410002291 ATP binding site; other site 187410002292 Mg2+ binding site; other site 187410002293 G-X-G motif; other site 187410002294 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 187410002295 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 187410002296 active site 187410002297 phosphorylation site 187410002298 intermolecular recognition site; other site 187410002299 dimerization interface; other site 187410002300 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 187410002301 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410002302 GDP/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 187410002303 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 187410002304 synthetase active site; other site 187410002305 NTP binding site; other site 187410002306 metal-binding site 187410002307 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...; Region: TGS_RelA_SpoT; cd01668 187410002308 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 187410002309 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 187410002310 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00737 187410002311 CTP synthetase; Validated; Region: pyrG; PRK05380 187410002312 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...; Region: CTGs; cd03113 187410002313 Catalytic site; other site 187410002314 active site 187410002315 UTP binding site; other site 187410002316 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 187410002317 active site 187410002318 putative oxyanion hole; other site 187410002319 catalytic triad; other site 187410002320 phosphopyruvate hydratase; Provisional; Region: eno; PRK00077 187410002321 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 187410002322 dimer interface; other site 187410002323 metal-binding site 187410002324 substrate binding pocket; other site 187410002325 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 187410002326 E-class dimer interface; other site 187410002327 P-class dimer interface; other site 187410002328 active site 187410002329 Cu2+ binding site; other site 187410002330 Zn2+ binding site; other site 187410002331 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 187410002332 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; cl14056 187410002333 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 187410002334 active site 187410002335 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 187410002336 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410002337 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 187410002338 FAD binding pocket; other site 187410002339 FAD binding motif; other site 187410002340 catalytic residues; other site 187410002341 NAD binding pocket; other site 187410002342 phosphate binding motif; other site 187410002343 beta-alpha-beta structure motif; other site 187410002344 sulfite reductase subunit beta; Provisional; Region: PRK13504 187410002345 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 187410002346 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 187410002347 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 187410002348 nickel responsive regulator; Provisional; Region: PRK00630 187410002349 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 187410002350 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 187410002351 Active Sites; active site 187410002352 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 187410002353 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 187410002354 CysD dimerization site; other site 187410002355 G1 box; other site 187410002356 putative GEF interaction site; other site 187410002357 GTP/Mg2+ binding site; other site 187410002358 Switch I region; other site 187410002359 G2 box; other site 187410002360 G3 box; other site 187410002361 Switch II region; other site 187410002362 G4 box; other site 187410002363 G5 box; other site 187410002364 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...; Region: CysN_NodQ_II; cd03695 187410002365 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...; Region: CysN_NoDQ_III; cd04095 187410002366 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation...; Region: APSK; cd02027 187410002367 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 187410002368 ligand-binding site; other site 187410002369 Protein of unknown function (DUF3561); Region: DUF3561; cl08142 187410002370 Septum formation initiator; Region: DivIC; cl11433 187410002371 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 187410002372 substrate binding site; other site 187410002373 dimer interface; other site 187410002374 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...; Region: MECDP_synthase; cd00554 187410002375 homotrimer interaction site; other site 187410002376 zinc binding site; other site 187410002377 CDP-binding sites; other site 187410002378 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 187410002379 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 187410002380 Permutation of conserved domain; other site 187410002381 active site 187410002382 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 187410002383 Survival protein SurE; Region: SurE; cl00448 187410002384 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 187410002385 S-adenosylmethionine binding site; other site 187410002386 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 187410002387 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 187410002388 putative peptidoglycan binding site; other site 187410002389 Peptidase family M23; Region: Peptidase_M23; pfam01551 187410002390 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 187410002391 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 187410002392 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187410002393 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 187410002394 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...; Region: Sigma70_r4; cd06171 187410002395 DNA binding residues 187410002396 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 187410002397 MutS domain I; Region: MutS_I; pfam01624 187410002398 MutS domain II; Region: MutS_II; pfam05188 187410002399 MutS domain III; Region: MutS_III; cl04977 187410002400 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 187410002401 Walker A/P-loop; other site 187410002402 ATP binding site; other site 187410002403 Q-loop/lid; other site 187410002404 ABC transporter signature motif; other site 187410002405 Walker B; other site 187410002406 D-loop; other site 187410002407 H-loop/switch region; other site 187410002408 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 187410002409 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 187410002410 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 187410002411 putative NAD(P) binding site; other site 187410002412 catalytic Zn binding site; other site 187410002413 structural Zn binding site; other site 187410002414 short chain dehydrogenase; Provisional; Region: PRK06841 187410002415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410002416 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 187410002417 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 187410002418 DAK2 domain; Region: Dak2; cl03685 187410002419 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 187410002420 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...; Region: Sigma70_r4; cl01055 187410002421 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 187410002422 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 187410002423 transmembrane helices; other site 187410002424 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 187410002425 dimerization interface; other site 187410002426 putative DNA binding site; other site 187410002427 putative Zn2+ binding site; other site 187410002428 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...; Region: PBPb; cd00134 187410002429 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 187410002430 substrate binding pocket; other site 187410002431 membrane-bound complex binding site; other site 187410002432 hinge residues; other site 187410002433 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 187410002434 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 187410002435 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 187410002436 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 187410002437 N-terminal plug; other site 187410002438 ligand-binding site; other site 187410002439 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 187410002440 methionine aminopeptidase; Reviewed; Region: PRK07281 187410002441 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 187410002442 active site 187410002443 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 187410002444 fumarate hydratase; Provisional; Region: PTZ00226 187410002445 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 187410002446 Fumarase C-terminus; Region: Fumerase_C; cl00795 187410002447 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 187410002448 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 187410002449 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 187410002450 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 187410002451 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 D-arabino-6-...; Region: AP2Ec; cd00019 187410002452 AP (apurinic/apyrimidinic) site pocket; other site 187410002453 DNA interaction; other site 187410002454 Metal-binding active site; metal-binding site 187410002455 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 187410002456 TM-ABC transporter signature motif; other site 187410002457 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 187410002458 TM-ABC transporter signature motif; other site 187410002459 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410002460 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...; Region: ABC_Carb_Monos_I; cd03216 187410002461 Walker A/P-loop; other site 187410002462 ATP binding site; other site 187410002463 Q-loop/lid; other site 187410002464 ABC transporter signature motif; other site 187410002465 Walker B; other site 187410002466 D-loop; other site 187410002467 H-loop/switch region; other site 187410002468 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 187410002469 Transposase IS200 like; Region: Transposase_17; cl00848 187410002470 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410002471 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 187410002472 ligand binding site; other site 187410002473 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 187410002474 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410002475 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 187410002476 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 187410002477 intersubunit interface; other site 187410002478 active site 187410002479 Zn2+ binding site; other site 187410002480 DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 187410002481 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_DmsA-EC; cd02770 187410002482 putative [Fe4-S4] binding site; other site 187410002483 putative molybdopterin cofactor binding site; other site 187410002484 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_CT_DmsA-EC; cd02794 187410002485 putative molybdopterin cofactor binding site; other site 187410002486 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 187410002487 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 187410002488 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 187410002489 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 187410002490 Cytochrome b562; Region: Cytochrom_B562; cl01546 187410002491 Catalase (peroxidase I) [Inorganic ion transport and metabolism]; Region: KatG; COG0376 187410002492 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 187410002493 dimer interface; other site 187410002494 active site 187410002495 heme binding site; other site 187410002496 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 187410002497 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410002498 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 187410002499 ligand binding site; other site 187410002500 dimerization interface; other site 187410002501 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 187410002502 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410002503 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...; Region: ABC_Carb_Monos_I; cd03216 187410002504 Walker A/P-loop; other site 187410002505 ATP binding site; other site 187410002506 Q-loop/lid; other site 187410002507 ABC transporter signature motif; other site 187410002508 Walker B; other site 187410002509 D-loop; other site 187410002510 H-loop/switch region; other site 187410002511 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 187410002512 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 187410002513 TM-ABC transporter signature motif; other site 187410002514 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 187410002515 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 187410002516 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 187410002517 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 187410002518 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of...; Region: L-fuc_L-ara-isomerases; cd00578 187410002519 hexamer (dimer of trimers) interface; other site 187410002520 substrate binding site; other site 187410002521 trimer interface; other site 187410002522 Mn binding site; other site 187410002523 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 187410002524 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410002525 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 187410002526 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 187410002527 putative MFS family transporter protein; Provisional; Region: PRK03633 187410002528 putative substrate translocation pore; other site 187410002529 Competence-damaged protein; Region: CinA; cl00666 187410002530 recombinase A; Provisional; Region: recA; PRK09354 187410002531 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 187410002532 hexamer interface; other site 187410002533 Walker A motif; other site 187410002534 ATP binding site; other site 187410002535 Walker B motif; other site 187410002536 RecX family; Region: RecX; cl00936 187410002537 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 187410002538 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...; Region: AlaRS_core; cd00673 187410002539 motif 1; other site 187410002540 active site 187410002541 motif 2; other site 187410002542 motif 3; other site 187410002543 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 187410002544 DHHA1 domain; Region: DHHA1; pfam02272 187410002545 Global regulator protein family; Region: CsrA; cl00670 187410002546 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 187410002547 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; cl11391 187410002548 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 187410002549 motif II; other site 187410002550 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 187410002551 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 187410002552 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 187410002553 Transposase IS200 like; Region: Transposase_17; cl00848 187410002554 hypothetical protein; Provisional; Region: PRK11573 187410002555 Domain of unknown function DUF21; Region: DUF21; pfam01595 187410002556 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 187410002557 Transporter associated domain; Region: CorC_HlyC; pfam03471 187410002558 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 187410002559 signal recognition particle protein; Provisional; Region: PRK10867 187410002560 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 187410002561 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 187410002562 P loop; other site 187410002563 GTP binding site; other site 187410002564 Signal peptide binding domain; Region: SRP_SPB; pfam02978 187410002565 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 187410002566 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 187410002567 RimM N-terminal domain; Region: RimM; pfam01782 187410002568 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...; Region: PRCH; cl09959 187410002569 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 187410002570 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 187410002571 Transposase IS200 like; Region: Transposase_17; cl00848 187410002572 Protein of unknown function, DUF481; Region: DUF481; cl01213 187410002573 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 187410002574 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 187410002575 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 187410002576 active site 187410002577 phosphorylation site 187410002578 intermolecular recognition site; other site 187410002579 dimerization interface; other site 187410002580 LytTr DNA-binding domain; Region: LytTR; cl04498 187410002581 NeuB family; Region: NeuB; cl00496 187410002582 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 187410002583 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 187410002584 Chorismate mutase type II; Region: CM_2; cl00693 187410002585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410002586 transposase/IS protein; Provisional; Region: PRK09183 187410002587 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...; Region: AAA; cd00009 187410002588 Walker A motif; other site 187410002589 ATP binding site; other site 187410002590 Walker B motif; other site 187410002591 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410002592 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410002593 Integrase core domain; Region: rve; cl01316 187410002594 Transposase IS200 like; Region: Transposase_17; cl00848 187410002595 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 187410002596 30S subunit binding site; other site 187410002597 outer membrane protein assembly complex subunit YfiO; Provisional; Region: PRK10866 187410002598 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 187410002599 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 187410002600 RNA binding surface; other site 187410002601 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 187410002602 active site 187410002603 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 187410002604 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 187410002605 protein disaggregation chaperone; Provisional; Region: PRK10865 187410002606 Clp amino terminal domain; Region: Clp_N; pfam02861 187410002607 Clp amino terminal domain; Region: Clp_N; pfam02861 187410002608 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...; Region: AAA; cd00009 187410002609 Walker A motif; other site 187410002610 ATP binding site; other site 187410002611 Walker B motif; other site 187410002612 arginine finger; other site 187410002613 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...; Region: AAA; cd00009 187410002614 Walker A motif; other site 187410002615 ATP binding site; other site 187410002616 Walker B motif; other site 187410002617 arginine finger; other site 187410002618 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 187410002619 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 187410002620 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 187410002621 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 187410002622 active site 187410002623 signature motif; other site 187410002624 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 187410002625 active site 187410002626 signature motif; other site 187410002627 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 187410002628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410002629 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410002630 DTW domain; Region: DTW; cl01221 187410002631 thioredoxin 2; Provisional; Region: PRK10996 187410002632 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 187410002633 catalytic residues; other site 187410002634 putative methyltransferase; Provisional; Region: PRK10864 187410002635 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 187410002636 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 187410002637 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 187410002638 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 187410002639 putative substrate translocation pore; other site 187410002640 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 187410002641 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 187410002642 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410002643 hypothetical protein; Provisional; Region: PRK10408 187410002644 AzlC protein; Region: AzlC; cl00570 187410002645 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 187410002646 putative substrate translocation pore; other site 187410002647 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 187410002648 amidase; Provisional; Region: PRK09201 187410002649 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; cl11426 187410002650 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 187410002651 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...; Region: SIS_RpiR; cd05013 187410002652 putative active site; other site 187410002653 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...; Region: PBPb; cd00134 187410002654 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 187410002655 substrate binding pocket; other site 187410002656 membrane-bound complex binding site; other site 187410002657 hinge residues; other site 187410002658 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 187410002659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410002660 dimer interface; other site 187410002661 conserved gate region; other site 187410002662 putative PBP binding loops; other site 187410002663 ABC-ATPase subunit interface; other site 187410002664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410002665 dimer interface; other site 187410002666 conserved gate region; other site 187410002667 putative PBP binding loops; other site 187410002668 ABC-ATPase subunit interface; other site 187410002669 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 187410002670 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; Region: ABC_HisP_GlnQ_permeases; cd03262 187410002671 Walker A/P-loop; other site 187410002672 ATP binding site; other site 187410002673 Q-loop/lid; other site 187410002674 ABC transporter signature motif; other site 187410002675 Walker B; other site 187410002676 D-loop; other site 187410002677 H-loop/switch region; other site 187410002678 transposase/IS protein; Provisional; Region: PRK09183 187410002679 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...; Region: AAA; cd00009 187410002680 Walker A motif; other site 187410002681 ATP binding site; other site 187410002682 Walker B motif; other site 187410002683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410002684 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410002685 Integrase core domain; Region: rve; cl01316 187410002686 allantoate amidohydrolase; Reviewed; Region: PRK09290 187410002687 Peptidase dimerization domain; Region: M20_dimer; cl09126 187410002688 Peptidase dimerization domain; Region: M20_dimer; cl09126 187410002689 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 187410002690 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410002691 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 187410002692 haemagglutination activity domain; Region: Haemagg_act; cl05436 187410002693 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 187410002694 Adhesin biosynthesis transcription regulatory protein; Region: PapB; pfam03333 187410002695 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 187410002696 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 187410002697 active site 187410002698 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 187410002699 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 187410002700 dimer interface; other site 187410002701 active site 187410002702 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 187410002703 putative active site; other site 187410002704 putative dimer interface; other site 187410002705 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187410002706 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 187410002707 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 187410002708 E3 interaction surface; other site 187410002709 lipoyl attachment site; other site 187410002710 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 187410002711 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 187410002712 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 187410002713 FMN-binding domain; Region: FMN_bind; cl01081 187410002714 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 187410002715 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 187410002716 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 187410002717 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 187410002718 catalytic loop; other site 187410002719 iron binding site; other site 187410002720 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+...; Region: NADH_quinone_reductase; cd06188 187410002721 FAD binding pocket; other site 187410002722 FAD binding motif; other site 187410002723 phosphate binding motif; other site 187410002724 beta-alpha-beta structure motif; other site 187410002725 NAD binding pocket; other site 187410002726 ApbE family; Region: ApbE; cl00643 187410002727 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 187410002728 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 187410002729 putative active site; other site 187410002730 catalytic site; other site 187410002731 putative metal binding site; other site 187410002732 DNA polymerase IV; Validated; Region: PRK02406 187410002733 DNA Polymerase IV/Kappa; Region: Pol_IV_kappa; cd03586 187410002734 active site 187410002735 DNA binding site 187410002736 Peptidase dimerization domain; Region: M20_dimer; cl09126 187410002737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410002738 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 187410002739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 187410002740 Chitin binding domain; Region: Chitin_bind_3; pfam03067 187410002741 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 187410002742 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410002743 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 187410002744 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 187410002745 Transcriptional regulator Crl; Region: Crl; cl11653 187410002746 gamma-glutamyl kinase; Provisional; Region: PRK05429 187410002747 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 187410002748 nucleotide binding site; other site 187410002749 homotetrameric interface; other site 187410002750 putative phosphate binding site; other site 187410002751 putative allosteric binding site; other site 187410002752 PUA domain; Region: PUA; cl00607 187410002753 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 187410002754 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 187410002755 putative catalytic cysteine; other site 187410002756 YcgR protein; Region: YcgR; pfam07317 187410002757 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 187410002758 PilZ domain; Region: PilZ; cl01260 187410002759 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 187410002760 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 187410002761 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410002762 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...; Region: SK; cd00464 187410002763 shikimate kinase; Reviewed; Region: aroK; PRK00131 187410002764 ADP binding site; other site 187410002765 magnesium binding site; other site 187410002766 putative shikimate binding site; other site 187410002767 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 187410002768 Putative exonuclease, RdgC; Region: RdgC; cl01122 187410002769 fructokinase; Reviewed; Region: PRK09557 187410002770 ROK family; Region: ROK; cl09121 187410002771 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410002772 Walker A/P-loop; other site 187410002773 ATP binding site; other site 187410002774 Q-loop/lid; other site 187410002775 exonuclease subunit SbcC; Provisional; Region: PRK10246 187410002776 exonuclease subunit SbcC; Provisional; Region: PRK10246 187410002777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410002778 ABC transporter signature motif; other site 187410002779 Walker B; other site 187410002780 D-loop; other site 187410002781 H-loop/switch region; other site 187410002782 exonuclease subunit SbcD; Provisional; Region: PRK10966 187410002783 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 187410002784 active site 187410002785 metal-binding site 187410002786 DNA binding site 187410002787 Type 5 capsule protein repressor C terminal; Region: SbcD_C; pfam12320 187410002788 transcriptional regulator PhoB; Provisional; Region: PRK10161 187410002789 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 187410002790 active site 187410002791 phosphorylation site 187410002792 intermolecular recognition site; other site 187410002793 dimerization interface; other site 187410002794 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...; Region: trans_reg_C; cd00383 187410002795 DNA binding site 187410002796 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 187410002797 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 187410002798 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 187410002799 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 trans-...; Region: HisKA; cd00082 187410002800 dimer interface; other site 187410002801 phosphorylation site 187410002802 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 187410002803 ATP binding site; other site 187410002804 Mg2+ binding site; other site 187410002805 G-X-G motif; other site 187410002806 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 187410002807 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 187410002808 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410002809 maltodextrin glucosidase; Provisional; Region: PRK10785 187410002810 CD and pullulan-degrading enzymes N-terminus domain. Members of this subgroup include: Cyclomaltodextrinase (CDase), maltogenic amylase, and neopullulanase all of which are capable of hydrolyzing all or two of the following three types of substrates:...; Region: CD_pullulan_degrading_enzymes_N_term; cd02857 187410002811 homodimer; other site 187410002812 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 187410002813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410002814 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 187410002815 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 187410002816 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 187410002817 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 187410002818 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic...; Region: PRX_Typ2cys; cd03015 187410002819 dimer interface; other site 187410002820 decamer (pentamer of dimers) interface; other site 187410002821 catalytic triad; other site 187410002822 peroxidatic and resolving cysteines; other site 187410002823 Protein of unknown function, DUF479; Region: DUF479; cl01203 187410002824 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 187410002825 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 187410002826 Preprotein translocase subunit; Region: YajC; cl00806 187410002827 hypothetical protein; Provisional; Region: PRK10629 187410002828 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 187410002829 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 187410002830 Protein export membrane protein; Region: SecD_SecF; cl14618 187410002831 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 187410002832 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 187410002833 Protein export membrane protein; Region: SecD_SecF; cl14618 187410002834 Transposase IS200 like; Region: Transposase_17; cl00848 187410002835 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 187410002836 ATP cone domain; Region: ATP-cone; pfam03477 187410002837 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 187410002838 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 187410002839 catalytic motif; other site 187410002840 Zn binding site; other site 187410002841 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 5,10-...; Region: DHFR; cl00161 187410002842 6,7-dimethyl-8-ribityllumazine synthase; Region: DMRL_synthase; cl00317 187410002843 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 187410002844 putative RNA binding site; other site 187410002845 thiamine monophosphate kinase; Provisional; Region: PRK05731 187410002846 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 187410002847 ATP binding site; other site 187410002848 dimerization interface; other site 187410002849 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 187410002850 tetramer interfaces; other site 187410002851 binuclear metal-binding site; other site 187410002852 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410002853 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410002854 Integrase core domain; Region: rve; cl01316 187410002855 transposase/IS protein; Provisional; Region: PRK09183 187410002856 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...; Region: AAA; cd00009 187410002857 Walker A motif; other site 187410002858 ATP binding site; other site 187410002859 Walker B motif; other site 187410002860 Transposase IS200 like; Region: Transposase_17; cl00848 187410002861 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 187410002862 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 187410002863 TPP-binding site; other site 187410002864 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 187410002865 PYR/PP interface; other site 187410002866 dimer interface; other site 187410002867 TPP binding site; other site 187410002868 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 187410002869 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 187410002870 substrate binding pocket; other site 187410002871 chain length determination region; other site 187410002872 substrate-Mg2+ binding site; other site 187410002873 catalytic residues; other site 187410002874 aspartate-rich region 1; other site 187410002875 active site lid residues 187410002876 aspartate-rich region 2; other site 187410002877 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 187410002878 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01269 187410002879 THUMP domain; Region: THUMP; cl12076 187410002880 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 187410002881 Ligand Binding Site; other site 187410002882 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 187410002883 active site residue 187410002884 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 187410002885 conserved cys residue; other site 187410002886 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 187410002887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410002888 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 187410002889 Protein of unknown function (DUF520); Region: DUF520; cl00723 187410002890 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 187410002891 Major Facilitator Superfamily; Region: MFS_1; pfam07690 187410002892 putative substrate translocation pore; other site 187410002893 UbiA prenyltransferase family; Region: UbiA; cl00337 187410002894 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 187410002895 Subunit I/III interface; other site 187410002896 Subunit III/IV interface; other site 187410002897 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 187410002898 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 187410002899 D-pathway; other site 187410002900 Putative ubiquinol binding site; other site 187410002901 Low-spin heme (heme b) binding site; other site 187410002902 Putative water exit pathway; other site 187410002903 Binuclear center (heme o3/CuB); other site 187410002904 K-pathway; other site 187410002905 Putative proton exit pathway; other site 187410002906 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 187410002907 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 187410002908 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 187410002909 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 187410002910 muropeptide transporter; Reviewed; Region: ampG; PRK11902 187410002911 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 187410002912 putative substrate translocation pore; other site 187410002913 hypothetical protein; Provisional; Region: PRK11627 187410002914 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 187410002915 BolA-like protein; Region: BolA; cl00386 187410002916 trigger factor; Provisional; Region: tig; PRK01490 187410002917 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 187410002918 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 187410002919 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 187410002920 oligomer interface; other site 187410002921 active site residues 187410002922 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 187410002923 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 187410002924 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...; Region: AAA; cd00009 187410002925 Walker A motif; other site 187410002926 ATP binding site; other site 187410002927 Walker B motif; other site 187410002928 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 187410002929 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 187410002930 Found in ATP-dependent protease La (LON); Region: LON; cl01056 187410002931 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...; Region: AAA; cd00009 187410002932 Walker A motif; other site 187410002933 ATP binding site; other site 187410002934 Walker B motif; other site 187410002935 arginine finger; other site 187410002936 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 187410002937 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 higher...; Region: HU_IHF; cd00591 187410002938 IHF dimer interface; other site 187410002939 IHF - DNA interface; other site 187410002940 peptidyl-prolyl cis-trans isomerase (rotamase D); Provisional; Region: PRK10788 187410002941 SurA N-terminal domain; Region: SurA_N; pfam09312 187410002942 PPIC-type PPIASE domain; Region: Rotamase; cl08278 187410002943 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 187410002944 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...; Region: 4HBT; cd00586 187410002945 active site 187410002946 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 187410002947 Ligand Binding Site; other site 187410002948 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 187410002949 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 187410002950 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 187410002951 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 187410002952 active site 187410002953 motif I; other site 187410002954 motif II; other site 187410002955 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; cl11391 187410002956 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 187410002957 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 187410002958 pyridoxal 5'-phosphate binding pocket; other site 187410002959 catalytic residue; other site 187410002960 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 187410002961 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410002962 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 187410002963 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410002964 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410002965 Walker A/P-loop; other site 187410002966 ATP binding site; other site 187410002967 Q-loop/lid; other site 187410002968 ABC transporter signature motif; other site 187410002969 Walker B; other site 187410002970 D-loop; other site 187410002971 H-loop/switch region; other site 187410002972 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 187410002973 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410002974 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...; Region: ABCC_Glucan_exporter_like; cd03254 187410002975 Walker A/P-loop; other site 187410002976 ATP binding site; other site 187410002977 Q-loop/lid; other site 187410002978 ABC transporter signature motif; other site 187410002979 Walker B; other site 187410002980 D-loop; other site 187410002981 H-loop/switch region; other site 187410002982 Nitrogen regulatory protein P-II; Region: P-II; cl00412 187410002983 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 187410002984 acyl-CoA thioesterase II; Provisional; Region: PRK10526 187410002985 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 187410002986 active site 187410002987 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 187410002988 catalytic triad; other site 187410002989 dimer interface; other site 187410002990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 187410002991 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 187410002992 DNA binding site 187410002993 active site 187410002994 Haemolysin expression modulating protein; Region: HHA; cl11501 187410002995 Biofilm formation regulator YbaJ; Region: YbaJ; cl11675 187410002996 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 187410002997 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 187410002998 Protein export membrane protein; Region: SecD_SecF; cl14618 187410002999 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 187410003000 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 187410003001 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187410003002 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 187410003003 DsrE/DsrF-like family; Region: DrsE; cl00672 187410003004 potassium efflux protein KefA; Provisional; Region: PRK11281 187410003005 Mechanosensitive ion channel; Region: MS_channel; pfam00924 187410003006 Protein of unknown function (DUF2496); Region: DUF2496; cl11670 187410003007 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 187410003008 Protein of unknown function (DUF454); Region: DUF454; cl01063 187410003009 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410003010 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 187410003011 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...; Region: AAA; cd00009 187410003012 Walker A motif; other site 187410003013 ATP binding site; other site 187410003014 Walker B motif; other site 187410003015 arginine finger; other site 187410003016 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 187410003017 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 187410003018 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 187410003019 Uncharacterized BCR, YbaB family COG0718; Region: DUF149; cl00494 187410003020 recombination protein RecR; Reviewed; Region: recR; PRK00076 187410003021 RecR protein; Region: RecR; pfam02132 187410003022 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 187410003023 putative active site; other site 187410003024 putative metal-binding site; other site 187410003025 tetramer interface; other site 187410003026 heat shock protein 90; Provisional; Region: PRK05218 187410003027 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 187410003028 ATP binding site; other site 187410003029 Mg2+ binding site; other site 187410003030 G-X-G motif; other site 187410003031 adenylate kinase; Reviewed; Region: adk; PRK00279 187410003032 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 187410003033 AMP-binding site; other site 187410003034 ATP-AMP (Ap5A)-binding site; other site 187410003035 ferrochelatase; Reviewed; Region: hemH; PRK00035 187410003036 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 187410003037 C-terminal domain interface; other site 187410003038 active site 187410003039 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 187410003040 active site 187410003041 N-terminal domain interface; other site 187410003042 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 187410003043 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 187410003044 catalytic loop; other site 187410003045 iron binding site; other site 187410003046 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD...; Region: flavin_oxioreductase; cd06189 187410003047 FAD binding pocket; other site 187410003048 FAD binding motif; other site 187410003049 phosphate binding motif; other site 187410003050 beta-alpha-beta structure motif; other site 187410003051 NAD binding pocket; other site 187410003052 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 187410003053 substrate binding site; other site 187410003054 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 187410003055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003056 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 187410003057 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 187410003058 inhibitor-cofactor binding pocket; inhibition site 187410003059 pyridoxal 5'-phosphate binding site; other site 187410003060 catalytic residue; other site 187410003061 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 187410003062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003063 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 187410003064 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 187410003065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003066 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 187410003067 active site 187410003068 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 187410003069 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 187410003070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003071 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 187410003072 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 187410003073 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 187410003074 Substrate binding site; other site 187410003075 Cupin domain; Region: Cupin_2; cl09118 187410003076 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 187410003077 metal-binding site 187410003078 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 187410003079 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 187410003080 active site 187410003081 substrate binding site; other site 187410003082 metal-binding site 187410003083 Chain length determinant protein; Region: Wzz; cl01623 187410003084 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 187410003085 substrate binding site; other site 187410003086 ATP binding site; other site 187410003087 putative cation:proton antiport protein; Provisional; Region: PRK10669 187410003088 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 187410003089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003090 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 187410003091 Major Facilitator Superfamily; Region: MFS_1; pfam07690 187410003092 putative substrate translocation pore; other site 187410003093 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 187410003094 putative deacylase active site; other site 187410003095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 187410003096 GumN protein; Region: GumN; cl12050 187410003097 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 187410003098 metal-binding site 187410003099 copper exporting ATPase; Provisional; Region: copA; PRK10671 187410003100 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 187410003101 metal-binding site 187410003102 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 187410003103 metal-binding site 187410003104 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187410003105 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; cl11391 187410003106 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 187410003107 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 187410003108 DNA binding residues 187410003109 dimer interface; other site 187410003110 copper binding site; other site 187410003111 NfeD-like; Region: NfeD; cl00686 187410003112 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 187410003113 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 187410003114 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 187410003115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003116 short chain dehydrogenase; Provisional; Region: PRK06914 187410003117 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 187410003118 active site 187410003119 catalytic triad; other site 187410003120 oxyanion hole; other site 187410003121 switch loop; other site 187410003122 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 187410003123 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 187410003124 Walker A/P-loop; other site 187410003125 ATP binding site; other site 187410003126 Q-loop/lid; other site 187410003127 ABC transporter signature motif; other site 187410003128 Walker B; other site 187410003129 D-loop; other site 187410003130 H-loop/switch region; other site 187410003131 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 187410003132 Predicted permease; Region: FtsX; cl11418 187410003133 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 187410003134 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410003135 AIR carboxylase; Region: AIRC; cl00310 187410003136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 187410003137 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 187410003138 putative active site; other site 187410003139 putative metal binding site; other site 187410003140 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 187410003141 substrate binding site; other site 187410003142 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 187410003143 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 187410003144 active site 187410003145 HIGH motif; other site 187410003146 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 187410003147 KMSKS motif; other site 187410003148 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 187410003149 tRNA binding surface; other site 187410003150 anticodon binding site; other site 187410003151 Transposase IS200 like; Region: Transposase_17; cl00848 187410003152 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 187410003153 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 187410003154 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 187410003155 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 187410003156 homodimer interface; other site 187410003157 NADP binding site; other site 187410003158 substrate binding site; other site 187410003159 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 187410003160 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 187410003161 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 187410003162 putative acyl-acceptor binding pocket; other site 187410003163 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 187410003164 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 187410003165 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 187410003166 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410003167 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 187410003168 active site 187410003169 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 187410003170 active site 187410003171 catalytic residues; other site 187410003172 transposase/IS protein; Provisional; Region: PRK09183 187410003173 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...; Region: AAA; cd00009 187410003174 Walker A motif; other site 187410003175 ATP binding site; other site 187410003176 Walker B motif; other site 187410003177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410003178 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410003179 Integrase core domain; Region: rve; cl01316 187410003180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187410003181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410003182 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 187410003183 putative effector binding pocket; other site 187410003184 putative dimerization interface; other site 187410003185 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...; Region: Aldo_ket_red; cd06660 187410003186 active site 187410003187 catalytic tetrad; other site 187410003188 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...; Region: Aldo_ket_red; cd06660 187410003189 active site 187410003190 catalytic tetrad; other site 187410003191 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 187410003192 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 187410003193 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 187410003194 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 187410003195 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 187410003196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410003197 MULE transposase domain; Region: MULE; pfam10551 187410003198 Uncharacterized conserved protein [Function unknown]; Region: COG2850 187410003199 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases...; Region: PL1_Passenger_AT; cd01343 187410003200 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 187410003201 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410003202 Protein of unknown function (DUF796); Region: DUF796; cl01226 187410003203 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 187410003204 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 187410003205 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 187410003206 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 187410003207 Transglycosylase; Region: Transgly; cl07896 187410003208 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 187410003209 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 187410003210 Transposase IS200 like; Region: Transposase_17; cl00848 187410003211 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 187410003212 MG2 domain; Region: A2M_N; pfam01835 187410003213 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 187410003214 Alpha-2-macroglobulin family; Region: A2M; pfam00207 187410003215 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 187410003216 surface patch; other site 187410003217 thioester region; other site 187410003218 specificity defining residues; other site 187410003219 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 187410003220 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 187410003221 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...; Region: SIS_RpiR; cd05013 187410003222 putative active site; other site 187410003223 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 187410003224 tetrameric interface; other site 187410003225 NAD binding site; other site 187410003226 catalytic residues; other site 187410003227 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 187410003228 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 187410003229 PYR/PP interface; other site 187410003230 dimer interface; other site 187410003231 TPP binding site; other site 187410003232 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 187410003233 TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 187410003234 TPP-binding site; other site 187410003235 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410003236 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 187410003237 ligand binding site; other site 187410003238 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410003239 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...; Region: ABC_Carb_Monos_I; cd03216 187410003240 Walker A/P-loop; other site 187410003241 ATP binding site; other site 187410003242 Q-loop/lid; other site 187410003243 ABC transporter signature motif; other site 187410003244 Walker B; other site 187410003245 D-loop; other site 187410003246 H-loop/switch region; other site 187410003247 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 187410003248 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 187410003249 TM-ABC transporter signature motif; other site 187410003250 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 187410003251 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003252 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 187410003253 substrate binding site; other site 187410003254 ATP binding site; other site 187410003255 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 187410003256 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 187410003257 KduI/IolB family; Region: KduI; cl01508 187410003258 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410003259 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 187410003260 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 187410003261 Walker A/P-loop; other site 187410003262 ATP binding site; other site 187410003263 Q-loop/lid; other site 187410003264 ABC transporter signature motif; other site 187410003265 Walker B; other site 187410003266 D-loop; other site 187410003267 H-loop/switch region; other site 187410003268 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 187410003269 Glycogen synthesis protein; Region: GlgS; cl11663 187410003270 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 187410003271 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...; Region: LuxR_C_like; cd06170 187410003272 DNA binding residues 187410003273 dimerization interface; other site 187410003274 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 187410003275 DNA binding site 187410003276 RNA-binding motif; other site 187410003277 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 187410003278 DNA binding site 187410003279 RNA-binding motif; other site 187410003280 CrcB-like protein; Region: CRCB; cl09114 187410003281 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 187410003282 lipoyl synthase; Provisional; Region: PRK05481 187410003283 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 187410003284 FeS/SAM binding site; other site 187410003285 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 187410003286 Protein of unknown function (DUF493); Region: DUF493; cl01102 187410003287 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 187410003288 Beta-lactamase; Region: Beta-lactamase; cl01009 187410003289 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 187410003290 rare lipoprotein A; Provisional; Region: PRK10672 187410003291 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 187410003292 Sporulation related domain; Region: SPOR; cl10051 187410003293 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 187410003294 penicillin-binding protein 2; Provisional; Region: PRK10795 187410003295 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 187410003296 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 187410003297 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 187410003298 Domain of unknown function DUF143; Region: DUF143; cl00519 187410003299 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 187410003300 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 187410003301 active site 187410003302 substrate binding site; other site 187410003303 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 187410003304 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 187410003305 Rare lipoprotein B family; Region: RplB; cl01125 187410003306 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 187410003307 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 187410003308 HIGH motif; other site 187410003309 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187410003310 KMSKS motif; other site 187410003311 active site 187410003312 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 187410003313 tRNA binding surface; other site 187410003314 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 187410003315 hypothetical protein; Provisional; Region: PRK11032 187410003316 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 187410003317 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 187410003318 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...; Region: ABC_HisP_GlnQ_permeases; cd03262 187410003319 Walker A/P-loop; other site 187410003320 ATP binding site; other site 187410003321 Q-loop/lid; other site 187410003322 ABC transporter signature motif; other site 187410003323 Walker B; other site 187410003324 D-loop; other site 187410003325 H-loop/switch region; other site 187410003326 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 187410003327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410003328 dimer interface; other site 187410003329 conserved gate region; other site 187410003330 putative PBP binding loops; other site 187410003331 ABC-ATPase subunit interface; other site 187410003332 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 187410003333 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410003334 dimer interface; other site 187410003335 conserved gate region; other site 187410003336 putative PBP binding loops; other site 187410003337 ABC-ATPase subunit interface; other site 187410003338 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 187410003339 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...; Region: PBPb; cd00134 187410003340 substrate binding pocket; other site 187410003341 membrane-bound complex binding site; other site 187410003342 hinge residues; other site 187410003343 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 187410003344 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 187410003345 putative active site; other site 187410003346 catalytic triad; other site 187410003347 putative dimer interface; other site 187410003348 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 187410003349 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 187410003350 Transporter associated domain; Region: CorC_HlyC; pfam03471 187410003351 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 187410003352 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 187410003353 PhoH-like protein; Region: PhoH; cl12134 187410003354 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 187410003355 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 187410003356 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 187410003357 FeS/SAM binding site; other site 187410003358 TRAM domain; Region: TRAM; cl01282 187410003359 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 187410003360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003361 asparagine synthetase B; Provisional; Region: asnB; PRK09431 187410003362 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 187410003363 active site 187410003364 dimer interface; other site 187410003365 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...; Region: Asn_Synthase_B_C; cd01991 187410003366 Ligand Binding Site; other site 187410003367 Molecular Tunnel; other site 187410003368 UMP phosphatase; Provisional; Region: PRK10444 187410003369 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 187410003370 active site 187410003371 motif I; other site 187410003372 motif II; other site 187410003373 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 187410003374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410003375 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 187410003376 ROK family; Region: ROK; cl09121 187410003377 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 187410003378 active site 187410003379 dimer interface; other site 187410003380 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination...; Region: GlcN6P_deaminase; cd01399 187410003381 active site 187410003382 trimer interface; other site 187410003383 allosteric site; other site 187410003384 active site lid 187410003385 hexamer (dimer of trimers) interface; other site 187410003386 N-acetyl glucosamine specific PTS system components IIABC; Provisional; Region: PRK10255 187410003387 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 187410003388 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 187410003389 active site turn 187410003390 phosphorylation site 187410003391 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 187410003392 HPr interaction site; other site 187410003393 glycerol kinase (GK) interaction site; other site 187410003394 active site 187410003395 phosphorylation site 187410003396 Transposase IS200 like; Region: Transposase_17; cl00848 187410003397 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 187410003398 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187410003399 HIGH motif; other site 187410003400 active site 187410003401 nucleotide binding site; other site 187410003402 catalytic core domain of non-descriminating glutamyl-tRNA and glutaminyl-tRNA synthetase; Region: Gln_GluRS_non_core; cd00807 187410003403 KMSKS motif; other site 187410003404 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 187410003405 outer membrane porin, OprD family; Region: OprD; cl14190 187410003406 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 187410003407 metal binding site 2; metal-binding site 187410003408 putative DNA binding helix; other site 187410003409 metal binding site 1; metal-binding site 187410003410 dimer interface; other site 187410003411 structural Zn2+ binding site; other site 187410003412 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410003413 LexA regulated protein; Provisional; Region: PRK11675 187410003414 hypothetical protein; Provisional; Region: PRK10673 187410003415 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 187410003416 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 187410003417 Int/Topo IB signature motif; other site 187410003418 active site 187410003419 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410003420 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 187410003421 transposase/IS protein; Provisional; Region: PRK09183 187410003422 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...; Region: AAA; cd00009 187410003423 Walker A motif; other site 187410003424 ATP binding site; other site 187410003425 Walker B motif; other site 187410003426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410003427 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410003428 Integrase core domain; Region: rve; cl01316 187410003429 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 187410003430 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 187410003431 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...; Region: PBPb; cl11400 187410003432 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 187410003433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410003434 dimer interface; other site 187410003435 conserved gate region; other site 187410003436 putative PBP binding loops; other site 187410003437 ABC-ATPase subunit interface; other site 187410003438 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 187410003439 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 187410003440 Walker A/P-loop; other site 187410003441 ATP binding site; other site 187410003442 Q-loop/lid; other site 187410003443 ABC transporter signature motif; other site 187410003444 Walker B; other site 187410003445 D-loop; other site 187410003446 H-loop/switch region; other site 187410003447 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 187410003448 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 187410003449 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 187410003450 dimer interface; other site 187410003451 putative radical transfer pathway; other site 187410003452 diiron center; other site 187410003453 tyrosyl radical; other site 187410003454 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 187410003455 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 187410003456 Class I ribonucleotide reductase; Region: RNR_I; cd01679 187410003457 active site 187410003458 dimer interface; other site 187410003459 catalytic residues; other site 187410003460 effector binding site; other site 187410003461 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 187410003462 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...; Region: NrdH; cd02976 187410003463 catalytic residues; other site 187410003464 Protein of unknown function (DUF2002); Region: DUF2002; cl11580 187410003465 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 187410003466 MbeD/MobD like; Region: MbeD_MobD; pfam04899 187410003467 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 187410003468 DNA binding site 187410003469 RNA-binding motif; other site 187410003470 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_19; cd08518 187410003471 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 187410003472 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410003473 dimer interface; other site 187410003474 conserved gate region; other site 187410003475 putative PBP binding loops; other site 187410003476 ABC-ATPase subunit interface; other site 187410003477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 187410003478 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 187410003479 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 187410003480 Walker A/P-loop; other site 187410003481 ATP binding site; other site 187410003482 Q-loop/lid; other site 187410003483 ABC transporter signature motif; other site 187410003484 Walker B; other site 187410003485 D-loop; other site 187410003486 H-loop/switch region; other site 187410003487 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 187410003488 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 187410003489 Walker A/P-loop; other site 187410003490 ATP binding site; other site 187410003491 Q-loop/lid; other site 187410003492 ABC transporter signature motif; other site 187410003493 Walker B; other site 187410003494 D-loop; other site 187410003495 H-loop/switch region; other site 187410003496 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 187410003497 alpha-gamma subunit interface; other site 187410003498 beta-gamma subunit interface; other site 187410003499 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...; Region: Urease_beta; cd00407 187410003500 alpha-beta subunit interface; other site 187410003501 urease subunit alpha; Reviewed; Region: ureC; PRK13309 187410003502 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 187410003503 subunit interactions; other site 187410003504 active site 187410003505 flap region; other site 187410003506 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 187410003507 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 C-...; Region: UreE; cd00571 187410003508 dimer interface; other site 187410003509 catalytic residues; other site 187410003510 UreF; Region: UreF; cl00531 187410003511 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 187410003512 Urea transporter; Region: UT; cl01829 187410003513 High-affinity nickel-transport protein; Region: NicO; cl00964 187410003514 acid-resistance protein; Provisional; Region: hdeB; PRK11566 187410003515 voltage-gated potassium channel; Provisional; Region: PRK10537 187410003516 Ion channel; Region: Ion_trans_2; cl11596 187410003517 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003518 CrcB-like protein; Region: CRCB; cl09114 187410003519 CrcB-like protein; Region: CRCB; cl09114 187410003520 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N...; Region: PTS_IIB_chitobiose_lichenan; cd05564 187410003521 active site 187410003522 P-loop; other site 187410003523 phosphorylation site 187410003524 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 187410003525 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 187410003526 methionine cluster; other site 187410003527 active site 187410003528 phosphorylation site 187410003529 metal-binding site 187410003530 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 187410003531 Cupin domain; Region: Cupin_2; cl09118 187410003532 YdjC-like protein; Region: YdjC; cl01344 187410003533 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 187410003534 SeqA protein; Region: SeqA; cl11470 187410003535 phosphoglucomutase; Validated; Region: PRK07564 187410003536 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 187410003537 active site 187410003538 substrate binding site; other site 187410003539 metal-binding site 187410003540 EamA-like transporter family; Region: EamA; cl01037 187410003541 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 187410003542 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 187410003543 active site 187410003544 phosphorylation site 187410003545 intermolecular recognition site; other site 187410003546 dimerization interface; other site 187410003547 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...; Region: trans_reg_C; cd00383 187410003548 DNA binding site 187410003549 sensor protein KdpD; Provisional; Region: PRK10490 187410003550 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 187410003551 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 187410003552 Ligand Binding Site; other site 187410003553 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 trans-...; Region: HisKA; cd00082 187410003554 dimer interface; other site 187410003555 phosphorylation site 187410003556 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 187410003557 ATP binding site; other site 187410003558 Mg2+ binding site; other site 187410003559 G-X-G motif; other site 187410003560 K+-transporting ATPase, c chain; Region: KdpC; cl00944 187410003561 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 187410003562 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187410003563 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; cl00903 187410003564 Potassium-transporting ATPase A subunit; Region: KdpA; pfam03814 187410003565 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 187410003566 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 187410003567 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 187410003568 DNA photolyase; Region: DNA_photolyase; pfam00875 187410003569 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 187410003570 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187410003571 Uncharacterized conserved protein [Function unknown]; Region: COG0327 187410003572 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 187410003573 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 187410003574 Allophanate hydrolase subunit 1; Region: AHS1; cl00896 187410003575 similar to hypothetical protein; residues 1 to 28 of 28 are 60.71 pct identical to residues 191 to 218 of 218 from GenPept : >gb|AAL19656.1| (AE008729) putative carboxylase [Salmonella typhimurium LT2] 187410003576 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 187410003577 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 187410003578 LamB/YcsF family; Region: LamB_YcsF; cl00664 187410003579 Protein of unknown function (DUF969); Region: DUF969; cl01573 187410003580 Protein of unknown function (DUF979); Region: DUF979; cl01572 187410003581 Protein of unknown function (DUF979); Region: DUF979; cl01572 187410003582 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 187410003583 putative substrate binding pocket; other site 187410003584 AC domain interface; other site 187410003585 catalytic triad; other site 187410003586 AB domain interface; other site 187410003587 interchain disulfide; other site 187410003588 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 187410003589 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 187410003590 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 187410003591 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 187410003592 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 187410003593 ATP binding site; other site 187410003594 Mg++ binding site; other site 187410003595 motif III; other site 187410003596 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 187410003597 nucleotide binding region; other site 187410003598 ATP-binding site; other site 187410003599 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 187410003600 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 187410003601 S-adenosylmethionine binding site; other site 187410003602 L-aspartate oxidase; Provisional; Region: PRK09077 187410003603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410003604 domain; Region: Succ_DH_flav_C; pfam02910 187410003605 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 187410003606 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187410003607 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...; Region: Sigma70_r4; cd06171 187410003608 DNA binding residues 187410003609 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 187410003610 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 187410003611 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 187410003612 MucB/RseB family; Region: MucB_RseB; cl01145 187410003613 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 187410003614 GTP-binding protein LepA; Provisional; Region: PRK05433 187410003615 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 187410003616 G1 box; other site 187410003617 putative GEF interaction site; other site 187410003618 GTP/Mg2+ binding site; other site 187410003619 Switch I region; other site 187410003620 G2 box; other site 187410003621 G3 box; other site 187410003622 Switch II region; other site 187410003623 G4 box; other site 187410003624 G5 box; other site 187410003625 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-...; Region: lepA_II; cd03699 187410003626 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 187410003627 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 187410003628 signal peptidase I; Provisional; Region: PRK10861 187410003629 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 187410003630 Catalytic site; other site 187410003631 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 187410003632 ribonuclease III; Reviewed; Region: rnc; PRK00102 187410003633 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 post-...; Region: RIBOc; cd00593 187410003634 dimerization interface; other site 187410003635 active site 187410003636 metal-binding site 187410003637 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...; Region: DSRM; cd00048 187410003638 dsRNA binding site; other site 187410003639 GTP-binding protein Era; Reviewed; Region: era; PRK00089 187410003640 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 187410003641 G1 box; other site 187410003642 GTP/Mg2+ binding site; other site 187410003643 Switch I region; other site 187410003644 G2 box; other site 187410003645 Switch II region; other site 187410003646 G3 box; other site 187410003647 G4 box; other site 187410003648 G5 box; other site 187410003649 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 187410003650 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 187410003651 Recombination protein O N terminal; Region: RecO_N; pfam11967 187410003652 Recombination protein O C terminal; Region: RecO_C; pfam02565 187410003653 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 187410003654 active site 187410003655 hydrophilic channel; other site 187410003656 dimerization interface; other site 187410003657 catalytic residues; other site 187410003658 active site lid 187410003659 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 187410003660 Transposase IS200 like; Region: Transposase_17; cl00848 187410003661 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 187410003662 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 187410003663 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...; Region: SIS_RpiR; cd05013 187410003664 putative active site; other site 187410003665 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 187410003666 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 187410003667 putative active site; other site 187410003668 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; cl11391 187410003669 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 187410003670 nucleoside/Zn binding site; other site 187410003671 dimer interface; other site 187410003672 catalytic motif; other site 187410003673 putative transglycosylase; Provisional; Region: PRK10859 187410003674 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...; Region: PBPb; cd00134 187410003675 substrate binding pocket; other site 187410003676 membrane-bound complex binding site; other site 187410003677 hinge residues; other site 187410003678 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 187410003679 N-acetyl-D-glucosamine binding site; other site 187410003680 catalytic residue; other site 187410003681 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 187410003682 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 187410003683 dimerization interface; other site 187410003684 ATP binding site; other site 187410003685 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal...; Region: PurM-like; cl10019 187410003686 dimerization interface; other site 187410003687 ATP binding site; other site 187410003688 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 187410003689 putative active site; other site 187410003690 catalytic triad; other site 187410003691 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 187410003692 Transposase IS200 like; Region: Transposase_17; cl00848 187410003693 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 trans...; Region: HisKA; cd00082 187410003694 dimer interface; other site 187410003695 phosphorylation site 187410003696 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 187410003697 ATP binding site; other site 187410003698 Mg2+ binding site; other site 187410003699 G-X-G motif; other site 187410003700 hypothetical protein; Provisional; Region: PRK10722 187410003701 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 187410003702 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 187410003703 active site 187410003704 phosphorylation site 187410003705 intermolecular recognition site; other site 187410003706 dimerization interface; other site 187410003707 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...; Region: AAA; cd00009 187410003708 Walker A motif; other site 187410003709 ATP binding site; other site 187410003710 Walker B motif; other site 187410003711 arginine finger; other site 187410003712 NAD synthetase; Provisional; Region: PRK13981 187410003713 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 187410003714 multimer interface; other site 187410003715 active site 187410003716 catalytic triad; other site 187410003717 protein interface 1; other site 187410003718 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...; Region: NAD_synthase; cd00553 187410003719 homodimer interface; other site 187410003720 NAD binding pocket; other site 187410003721 ATP binding pocket; other site 187410003722 Mg binding site; other site 187410003723 active-site loop 187410003724 Nitrogen regulatory protein P-II; Region: P-II; cl00412 187410003725 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410003726 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410003727 Integrase core domain; Region: rve; cl01316 187410003728 transposase/IS protein; Provisional; Region: PRK09183 187410003729 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...; Region: AAA; cd00009 187410003730 Walker A motif; other site 187410003731 ATP binding site; other site 187410003732 Walker B motif; other site 187410003733 nitric oxide dioxygenase; Provisional; Region: PRK13289 187410003734 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 187410003735 heme-binding site; other site 187410003736 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 187410003737 FAD binding pocket; other site 187410003738 FAD binding motif; other site 187410003739 phosphate binding motif; other site 187410003740 beta-alpha-beta structure motif; other site 187410003741 NAD binding pocket; other site 187410003742 Heme binding pocket; other site 187410003743 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...; Region: SHMT; cd00378 187410003744 dimer interface; other site 187410003745 glycine-pyridoxal phosphate binding site; other site 187410003746 active site 187410003747 folate binding site; other site 187410003748 Surface antigen; Region: Surface_Ag_2; cl01155 187410003749 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128; cl11521 187410003750 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 187410003751 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 187410003752 PRD domain; Region: PRD; pfam00874 187410003753 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 187410003754 High-affinity nickel-transport protein; Region: NicO; cl00964 187410003755 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 187410003756 active site 187410003757 dimerization interface; other site 187410003758 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 187410003759 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 187410003760 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410003761 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 187410003762 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 187410003763 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 187410003764 pyridoxal 5'-phosphate binding pocket; other site 187410003765 catalytic residue; other site 187410003766 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 187410003767 trimerization site; other site 187410003768 active site 187410003769 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 187410003770 co-chaperone HscB; Provisional; Region: hscB; PRK05014 187410003771 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...; Region: DnaJ; cd06257 187410003772 HSP70 interaction site; other site 187410003773 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 187410003774 chaperone protein HscA; Provisional; Region: hscA; PRK05183 187410003775 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 187410003776 catalytic loop; other site 187410003777 iron binding site; other site 187410003778 Protein of unknown function (DUF528); Region: DUF528; cl01123 187410003779 aminopeptidase B; Provisional; Region: PRK05015 187410003780 Peptidase; Region: DUF3663; pfam12404 187410003781 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...; Region: Peptidase_M17; cd00433 187410003782 interface (dimer of trimers); other site 187410003783 Substrate-binding/catalytic site; other site 187410003784 Zn-binding sites; other site 187410003785 SseB protein; Region: SseB; cl06279 187410003786 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410003787 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 187410003788 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases...; Region: PL1_Passenger_AT; cd01343 187410003789 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410003790 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 187410003791 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta)...; Region: PL_Passenger_AT; cl00185 187410003792 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 187410003793 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410003794 Beta/Gamma crystallin; Region: Crystall; cl02528 187410003795 Beta/Gamma crystallin; Region: Crystall; cl02528 187410003796 Exotoxin A binding; Region: Exotox-A_bind; pfam09101 187410003797 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 187410003798 active site 187410003799 multimer interface; other site 187410003800 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 187410003801 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 187410003802 FeS/SAM binding site; other site 187410003803 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 187410003804 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 187410003805 binding surface 187410003806 TPR motif; other site 187410003807 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 187410003808 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 187410003809 non-specific DNA binding site; other site 187410003810 salt bridge; other site 187410003811 sequence-specific DNA binding site; other site 187410003812 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; cl11686 187410003813 1-hydroxy-2-methyl-2-(e)-butenyl 4-diphosphate synthase [Lipid metabolism]; Region: gcpE; COG0821 187410003814 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 187410003815 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 187410003816 dimer interface; other site 187410003817 motif 1; other site 187410003818 active site 187410003819 motif 2; other site 187410003820 motif 3; other site 187410003821 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 187410003822 anticodon binding site; other site 187410003823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 187410003824 outer membrane protein assembly complex subunit YfgL; Provisional; Region: PRK11138 187410003825 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 187410003826 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 187410003827 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 187410003828 GTP-binding protein EngA; Reviewed; Region: engA; PRK00093 187410003829 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 187410003830 G1 box; other site 187410003831 GTP/Mg2+ binding site; other site 187410003832 Switch I region; other site 187410003833 G2 box; other site 187410003834 Switch II region; other site 187410003835 G3 box; other site 187410003836 G4 box; other site 187410003837 G5 box; other site 187410003838 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 187410003839 G1 box; other site 187410003840 GTP/Mg2+ binding site; other site 187410003841 Switch I region; other site 187410003842 G2 box; other site 187410003843 G3 box; other site 187410003844 Switch II region; other site 187410003845 G4 box; other site 187410003846 G5 box; other site 187410003847 Membrane transport protein; Region: Mem_trans; cl09117 187410003848 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 187410003849 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 187410003850 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 187410003851 generic binding surface II; other site 187410003852 generic binding surface I; other site 187410003853 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 187410003854 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 187410003855 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 187410003856 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...; Region: IMPDH; cd00381 187410003857 active site 187410003858 GMP synthase; Reviewed; Region: guaA; PRK00074 187410003859 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 187410003860 AMP/PPi binding site; other site 187410003861 candidate oxyanion hole; other site 187410003862 catalytic triad; other site 187410003863 potential glutamine specificity residues; other site 187410003864 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 187410003865 ATP Binding subdomain; other site 187410003866 Ligand Binding sites; other site 187410003867 Dimerization subdomain; other site 187410003868 Transposase IS200 like; Region: Transposase_17; cl00848 187410003869 Protein of unknown function (DUF796); Region: DUF796; cl01226 187410003870 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 187410003871 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 187410003872 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 187410003873 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 187410003874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410003875 MULE transposase domain; Region: MULE; pfam10551 187410003876 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 187410003877 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 187410003878 substrate binding site; other site 187410003879 dimer interface; other site 187410003880 ATP binding site; other site 187410003881 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 187410003882 lipid kinase; Reviewed; Region: PRK13054 187410003883 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 187410003884 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 187410003885 Peptidase family U32; Region: Peptidase_U32; pfam01136 187410003886 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 187410003887 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 187410003888 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 187410003889 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 187410003890 active site 187410003891 phosphorylation site 187410003892 intermolecular recognition site; other site 187410003893 dimerization interface; other site 187410003894 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...; Region: trans_reg_C; cd00383 187410003895 DNA binding site 187410003896 multidrug efflux system protein MdtE; Provisional; Region: PRK10504 187410003897 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 187410003898 putative substrate translocation pore; other site 187410003899 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 187410003900 Protein export membrane protein; Region: SecD_SecF; cl14618 187410003901 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 187410003902 Protein export membrane protein; Region: SecD_SecF; cl14618 187410003903 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 187410003904 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...; Region: Biotinyl_lipoyl_domains; cl11404 187410003905 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 187410003906 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...; Region: ABC_PotA_N; cd03300 187410003907 Walker A/P-loop; other site 187410003908 ATP binding site; other site 187410003909 Q-loop/lid; other site 187410003910 ABC transporter signature motif; other site 187410003911 Walker B; other site 187410003912 D-loop; other site 187410003913 H-loop/switch region; other site 187410003914 TOBE domain; Region: TOBE_2; cl01440 187410003915 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 187410003916 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410003917 DNA binding site 187410003918 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 187410003919 pyridoxal 5'-phosphate binding site; other site 187410003920 homodimer interface; other site 187410003921 catalytic residue; other site 187410003922 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 187410003923 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 187410003924 inhibitor-cofactor binding pocket; inhibition site 187410003925 pyridoxal 5'-phosphate binding site; other site 187410003926 catalytic residue; other site 187410003927 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 187410003928 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 187410003929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410003930 dimer interface; other site 187410003931 conserved gate region; other site 187410003932 putative PBP binding loops; other site 187410003933 ABC-ATPase subunit interface; other site 187410003934 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410003935 dimer interface; other site 187410003936 conserved gate region; other site 187410003937 putative PBP binding loops; other site 187410003938 ABC-ATPase subunit interface; other site 187410003939 putative chaperone; Provisional; Region: PRK11678 187410003940 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 187410003941 MgtE intracellular N domain; Region: MgtE_N; pfam03448 187410003942 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 187410003943 Divalent cation transporter; Region: MgtE; cl00786 187410003944 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 187410003945 exopolyphosphatase; Provisional; Region: PRK10854 187410003946 exopolyphosphatase; Region: exo_poly_only; TIGR03706 187410003947 polyphosphate kinase; Provisional; Region: PRK05443 187410003948 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 187410003949 active site 187410003950 signature motif; other site 187410003951 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 187410003952 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 187410003953 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410003954 dimer interface; other site 187410003955 conserved gate region; other site 187410003956 putative PBP binding loops; other site 187410003957 ABC-ATPase subunit interface; other site 187410003958 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 187410003959 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410003960 dimer interface; other site 187410003961 conserved gate region; other site 187410003962 putative PBP binding loops; other site 187410003963 ABC-ATPase subunit interface; other site 187410003964 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 187410003965 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 187410003966 Walker A/P-loop; other site 187410003967 ATP binding site; other site 187410003968 Q-loop/lid; other site 187410003969 ABC transporter signature motif; other site 187410003970 Walker B; other site 187410003971 D-loop; other site 187410003972 H-loop/switch region; other site 187410003973 Uncharacterized protein family (UPF0153); Region: UPF0153; cl00497 187410003974 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 187410003975 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410003976 Formyl transferase; Region: Formyl_trans_N; cl00395 187410003977 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 187410003978 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 187410003979 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...; Region: PurM; cd02196 187410003980 dimerization interface; other site 187410003981 putative ATP binding site; other site 187410003982 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410003983 Transposase IS200 like; Region: Transposase_17; cl00848 187410003984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410003985 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 187410003986 catalytic residues; other site 187410003987 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 187410003988 Peptidase family M48; Region: Peptidase_M48; cl12018 187410003989 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 187410003990 Domain of unknown function DUF20; Region: UPF0118; cl00465 187410003991 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...; Region: PRX_BCP; cd03017 187410003992 catalytic triad; other site 187410003993 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 187410003994 dihydrodipicolinate synthase; Region: dapA; TIGR00674 187410003995 dimer interface; other site 187410003996 active site 187410003997 catalytic residue; other site 187410003998 lipoprotein; Provisional; Region: PRK11679 187410003999 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 187410004000 Transposase IS200 like; Region: Transposase_17; cl00848 187410004001 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 187410004002 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 187410004003 ATP binding site; other site 187410004004 active site 187410004005 substrate binding site; other site 187410004006 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 187410004007 Protein of unknown function (DUF441); Region: DUF441; cl01041 187410004008 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 187410004009 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 187410004010 Putative ATPase (DUF699); Region: DUF699; pfam05127 187410004011 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410004012 hypothetical protein; Provisional; Region: PRK13664 187410004013 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 187410004014 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 187410004015 Peptidase dimerization domain; Region: M20_dimer; cl09126 187410004016 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 187410004017 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 187410004018 putative catalytic residues; other site 187410004019 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 187410004020 TPR motif; other site 187410004021 binding surface 187410004022 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 187410004023 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 187410004024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004025 dimer interface; other site 187410004026 conserved gate region; other site 187410004027 ABC-ATPase subunit interface; other site 187410004028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004029 dimer interface; other site 187410004030 conserved gate region; other site 187410004031 putative PBP binding loops; other site 187410004032 ABC-ATPase subunit interface; other site 187410004033 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 187410004034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410004035 Walker A/P-loop; other site 187410004036 ATP binding site; other site 187410004037 Q-loop/lid; other site 187410004038 ABC transporter signature motif; other site 187410004039 Walker B; other site 187410004040 D-loop; other site 187410004041 H-loop/switch region; other site 187410004042 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 187410004043 Sulfatase; Region: Sulfatase; cl10460 187410004044 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 187410004045 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 187410004046 FeS/SAM binding site; other site 187410004047 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 187410004048 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 187410004049 Protein export membrane protein; Region: SecD_SecF; cl14618 187410004050 Protein export membrane protein; Region: SecD_SecF; cl14618 187410004051 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 187410004052 transcriptional regulator NarP; Provisional; Region: PRK10403 187410004053 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 187410004054 active site 187410004055 phosphorylation site 187410004056 intermolecular recognition site; other site 187410004057 dimerization interface; other site 187410004058 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...; Region: LuxR_C_like; cd06170 187410004059 DNA binding residues 187410004060 dimerization interface; other site 187410004061 ferredoxin-type protein; Provisional; Region: PRK10194 187410004062 NapD protein; Region: NapD; cl01163 187410004063 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 187410004064 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 187410004065 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 187410004066 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 187410004067 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...; Region: ADPRase_NUDT5; cd03424 187410004068 dimer interface; other site 187410004069 ADP-ribose binding site; other site 187410004070 active site 187410004071 nudix motif; other site 187410004072 metal-binding site 187410004073 malic enzyme; Reviewed; Region: PRK07232 187410004074 Malic enzyme, N-terminal domain; Region: malic; pfam00390 187410004075 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 187410004076 putative NAD(P) binding site; other site 187410004077 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 187410004078 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 187410004079 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 187410004080 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 187410004081 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 187410004082 Coenzyme A binding pocket; other site 187410004083 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases...; Region: PL1_Passenger_AT; cd01343 187410004084 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 187410004085 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410004086 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 187410004087 Protein of unknown function (DUF1131); Region: DUF1131; cl05867 187410004088 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 187410004089 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 187410004090 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 187410004091 catalytic residue; other site 187410004092 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family...; Region: NanE; cd04729 187410004093 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 187410004094 putative active site cavity; other site 187410004095 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 187410004096 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs...; Region: LRR_RI; cl02423 187410004097 Leucine-rich repeats; other site 187410004098 Substrate binding site; other site 187410004099 N-acetylmannosamine kinase; Provisional; Region: PRK05082 187410004100 ROK family; Region: ROK; cl09121 187410004101 Domain of unknown function (DUF386); Region: DUF386; cl01047 187410004102 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 187410004103 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...; Region: SIS_RpiR; cd05013 187410004104 putative active site; other site 187410004105 putative sialic acid transporter; Provisional; Region: PRK03893 187410004106 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 187410004107 putative substrate translocation pore; other site 187410004108 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 187410004109 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004110 dimer interface; other site 187410004111 conserved gate region; other site 187410004112 putative PBP binding loops; other site 187410004113 ABC-ATPase subunit interface; other site 187410004114 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004115 dimer interface; other site 187410004116 conserved gate region; other site 187410004117 putative PBP binding loops; other site 187410004118 ABC-ATPase subunit interface; other site 187410004119 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 187410004120 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 solute-...; Region: ABC_CysA_sulfate_importer; cd03296 187410004121 Walker A/P-loop; other site 187410004122 ATP binding site; other site 187410004123 Q-loop/lid; other site 187410004124 ABC transporter signature motif; other site 187410004125 Walker B; other site 187410004126 D-loop; other site 187410004127 H-loop/switch region; other site 187410004128 cysteine synthases; Region: cysKM; TIGR01136 187410004129 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 187410004130 dimer interface; other site 187410004131 pyridoxal 5'-phosphate binding site; other site 187410004132 catalytic residue; other site 187410004133 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187410004134 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 187410004135 active site 187410004136 phosphorylation site 187410004137 intermolecular recognition site; other site 187410004138 dimerization interface; other site 187410004139 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...; Region: trans_reg_C; cd00383 187410004140 DNA binding site 187410004141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 187410004142 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 trans-...; Region: HisKA; cd00082 187410004143 dimer interface; other site 187410004144 phosphorylation site 187410004145 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 187410004146 ATP binding site; other site 187410004147 Mg2+ binding site; other site 187410004148 G-X-G motif; other site 187410004149 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 187410004150 VWA subgroup: 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...; Region: vWA_subgroup; cd01465 187410004151 metal ion-dependent adhesion site (MIDAS); other site 187410004152 aspartate aminotransferase; Provisional; Region: PRK06108 187410004153 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 187410004154 pyridoxal 5'-phosphate binding site; other site 187410004155 homodimer interface; other site 187410004156 catalytic residue; other site 187410004157 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 187410004158 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 187410004159 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...; Region: APP_MetAP; cd01066 187410004160 active site 187410004161 Sodium:solute symporter family; Region: SSF; cl00456 187410004162 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 187410004163 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 187410004164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004165 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 187410004166 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar rhodanese-...; Region: RHOD_Pyr_redox; cd01524 187410004167 active site residue 187410004168 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 187410004169 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 187410004170 Walker A/P-loop; other site 187410004171 ATP binding site; other site 187410004172 Q-loop/lid; other site 187410004173 ABC transporter signature motif; other site 187410004174 Walker B; other site 187410004175 D-loop; other site 187410004176 H-loop/switch region; other site 187410004177 Predicted permease; Region: FtsX; cl11418 187410004178 macrolide transporter subunit MacA; Provisional; Region: PRK11578 187410004179 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187410004180 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 187410004181 active site 187410004182 phosphorylation site 187410004183 intermolecular recognition site; other site 187410004184 dimerization interface; other site 187410004185 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...; Region: trans_reg_C; cd00383 187410004186 DNA binding site 187410004187 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 connected by an extended linker. The...; Region: HAMP; cd06225 187410004188 dimerization interface; other site 187410004189 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 trans-...; Region: HisKA; cd00082 187410004190 dimer interface; other site 187410004191 phosphorylation site 187410004192 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 187410004193 ATP binding site; other site 187410004194 Mg2+ binding site; other site 187410004195 G-X-G motif; other site 187410004196 Transposase IS200 like; Region: Transposase_17; cl00848 187410004197 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 187410004198 HPr interaction site; other site 187410004199 glycerol kinase (GK) interaction site; other site 187410004200 active site 187410004201 phosphorylation site 187410004202 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 187410004203 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 187410004204 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 187410004205 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 187410004206 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 187410004207 dimerization domain swap beta strand; other site 187410004208 regulatory protein interface; other site 187410004209 active site 187410004210 regulatory phosphorylation site; other site 187410004211 cysteine synthases; Region: cysKM; TIGR01136 187410004212 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 187410004213 dimer interface; other site 187410004214 pyridoxal 5'-phosphate binding site; other site 187410004215 catalytic residue; other site 187410004216 Protein of unknown function (DUF540); Region: DUF540; cl01126 187410004217 cell division protein ZipA; Provisional; Region: PRK03427 187410004218 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 187410004219 FtsZ protein binding site; other site 187410004220 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 187410004221 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 187410004222 nucleotide binding pocket; other site 187410004223 K-X-D-G motif; other site 187410004224 catalytic site; other site 187410004225 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 187410004226 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 187410004227 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 187410004228 Dimer interface; other site 187410004229 BRCT sequence motif; other site 187410004230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 187410004231 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 187410004232 Transposase IS200 like; Region: Transposase_17; cl00848 187410004233 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 187410004234 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 187410004235 active site 187410004236 HIGH motif; other site 187410004237 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 187410004238 KMSKS motif; other site 187410004239 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 187410004240 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 187410004241 Nucleoside recognition; Region: Gate; cl00486 187410004242 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 187410004243 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 187410004244 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 187410004245 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...; Region: Aldo_ket_red; cd06660 187410004246 active site 187410004247 catalytic tetrad; other site 187410004248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187410004249 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410004250 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 187410004251 dimerization interface; other site 187410004252 Predicted membrane protein [Function unknown]; Region: COG4125 187410004253 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 187410004254 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 187410004255 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 187410004256 ROK family; Region: ROK; cl09121 187410004257 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 187410004258 aspartate aminotransferase; Provisional; Region: PRK07681 187410004259 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 187410004260 pyridoxal 5'-phosphate binding site; other site 187410004261 homodimer interface; other site 187410004262 catalytic residue; other site 187410004263 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 187410004264 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 187410004265 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 187410004266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 187410004267 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 187410004268 ferredoxin-type protein; Provisional; Region: PRK10194 187410004269 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 187410004270 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 187410004271 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 187410004272 DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 187410004273 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_DmsA-EC; cd02770 187410004274 putative [Fe4-S4] binding site; other site 187410004275 putative molybdopterin cofactor binding site; other site 187410004276 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_CT_DmsA-EC; cd02794 187410004277 putative molybdopterin cofactor binding site; other site 187410004278 Protein of unknown function (DUF796); Region: DUF796; cl01226 187410004279 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 187410004280 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 187410004281 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 187410004282 Walker A/P-loop; other site 187410004283 ATP binding site; other site 187410004284 Q-loop/lid; other site 187410004285 ABC transporter signature motif; other site 187410004286 Walker B; other site 187410004287 D-loop; other site 187410004288 H-loop/switch region; other site 187410004289 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 187410004290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004291 dimer interface; other site 187410004292 conserved gate region; other site 187410004293 putative PBP binding loops; other site 187410004294 ABC-ATPase subunit interface; other site 187410004295 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004296 dimer interface; other site 187410004297 conserved gate region; other site 187410004298 putative PBP binding loops; other site 187410004299 ABC-ATPase subunit interface; other site 187410004300 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 187410004301 lytic murein transglycosylase; Region: MltB_2; TIGR02283 187410004302 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 187410004303 N-acetyl-D-glucosamine binding site; other site 187410004304 catalytic residue; other site 187410004305 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...; Region: LuxR_C_like; cd06170 187410004306 DNA binding residues 187410004307 dimerization interface; other site 187410004308 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 187410004309 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187410004310 ligand binding site; other site 187410004311 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 187410004312 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 187410004313 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 187410004314 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 187410004315 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 187410004316 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 187410004317 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...; Region: AAA; cd00009 187410004318 Walker A motif; other site 187410004319 ATP binding site; other site 187410004320 Walker B motif; other site 187410004321 arginine finger; other site 187410004322 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...; Region: AAA; cd00009 187410004323 Walker A motif; other site 187410004324 ATP binding site; other site 187410004325 Walker B motif; other site 187410004326 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 187410004327 Fimbrial protein; Region: Fimbrial; cl01416 187410004328 putative chaperone protein EcpD; Provisional; Region: PRK09926 187410004329 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410004330 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410004331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410004332 MULE transposase domain; Region: MULE; pfam10551 187410004333 Fimbrial protein; Region: Fimbrial; cl01416 187410004334 Protein of unknown function (DUF770); Region: DUF770; cl01402 187410004335 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 187410004336 Protein of unknown function (DUF877); Region: DUF877; pfam05943 187410004337 Protein of unknown function (DUF796); Region: DUF796; cl01226 187410004338 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521; cl01405 187410004339 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 187410004340 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410004341 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410004342 Integrase core domain; Region: rve; cl01316 187410004343 transposase/IS protein; Provisional; Region: PRK09183 187410004344 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...; Region: AAA; cd00009 187410004345 Walker A motif; other site 187410004346 ATP binding site; other site 187410004347 Walker B motif; other site 187410004348 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 187410004349 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 187410004350 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 187410004351 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 187410004352 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 187410004353 Uncharacterized conserved protein [Function unknown]; Region: COG4104 187410004354 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 187410004355 ImpE protein; Region: ImpE; pfam07024 187410004356 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 187410004357 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 187410004358 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 187410004359 PhnA protein; Region: PhnA; pfam03831 187410004360 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 187410004361 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 187410004362 LemA family; Region: LemA; cl00742 187410004363 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 187410004364 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH); Region: ABC_CcmA_heme_exporter; cd03231 187410004365 Walker A/P-loop; other site 187410004366 ATP binding site; other site 187410004367 Q-loop/lid; other site 187410004368 ABC transporter signature motif; other site 187410004369 Walker B; other site 187410004370 D-loop; other site 187410004371 H-loop/switch region; other site 187410004372 CcmB protein; Region: CcmB; cl01016 187410004373 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 187410004374 Heme exporter protein D (CcmD); Region: CcmD; cl11475 187410004375 CcmE; Region: CcmE; cl00994 187410004376 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 187410004377 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 187410004378 catalytic residues; other site 187410004379 central insert; other site 187410004380 Cytochrome C biogenesis protein; Region: CcmH; cl01179 187410004381 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 187410004382 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 187410004383 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 187410004384 binding surface 187410004385 TPR motif; other site 187410004386 VacJ like lipoprotein; Region: VacJ; cl01073 187410004387 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 187410004388 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 187410004389 Protein of unknown function (DUF406); Region: DUF406; cl11449 187410004390 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 187410004391 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 187410004392 dimer interface; other site 187410004393 active site 187410004394 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 187410004395 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 187410004396 substrate binding site; other site 187410004397 oxyanion hole (OAH) forming residues; other site 187410004398 trimer interface; other site 187410004399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004400 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 187410004401 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 187410004402 catalytic core; other site 187410004403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 187410004404 Smr domain; Region: Smr; cl02619 187410004405 HemK family putative methylases; Region: hemK_fam; TIGR00536 187410004406 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 187410004407 S-adenosylmethionine binding site; other site 187410004408 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 187410004409 Tetramer interface; other site 187410004410 active site 187410004411 FMN-binding site; other site 187410004412 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 187410004413 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 187410004414 Sulfite exporter TauE/SafE; Region: TauE; cl00498 187410004415 Protein of unknown function, DUF462; Region: DUF462; cl01190 187410004416 YfcL protein; Region: YfcL; pfam08891 187410004417 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410004418 5-methylaminomethyl-2-thiouridine methyltransferase; Reviewed; Region: mnmC; PRK01747 187410004419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004420 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 187410004421 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 187410004422 dimer interface; other site 187410004423 active site 187410004424 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 187410004425 aspartate racemase; Region: asp_race; TIGR00035 187410004426 Fimbrial protein; Region: Fimbrial; cl01416 187410004427 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 187410004428 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 187410004429 EamA-like transporter family; Region: EamA; cl01037 187410004430 Cupin domain; Region: Cupin_2; cl09118 187410004431 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 187410004432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410004433 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 187410004434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004435 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 187410004436 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 187410004437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004438 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 187410004439 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 187410004440 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 187410004441 dimerization interface 3.5A; other site 187410004442 active site 187410004443 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 187410004444 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 187410004445 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 187410004446 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 187410004447 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187410004448 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 187410004449 hypothetical protein; Provisional; Region: PRK11633 187410004450 Sporulation related domain; Region: SPOR; cl10051 187410004451 Colicin V production protein; Region: Colicin_V; cl00567 187410004452 amidophosphoribosyltransferase; Provisional; Region: PRK09246 187410004453 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 187410004454 active site 187410004455 tetramer interface; other site 187410004456 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410004457 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 187410004458 Flavoprotein; Region: Flavoprotein; cl08021 187410004459 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 187410004460 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...; Region: PBPb; cd00134 187410004461 substrate binding pocket; other site 187410004462 membrane-bound complex binding site; other site 187410004463 hinge residues; other site 187410004464 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 187410004465 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004466 dimer interface; other site 187410004467 conserved gate region; other site 187410004468 putative PBP binding loops; other site 187410004469 ABC-ATPase subunit interface; other site 187410004470 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 187410004471 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004472 dimer interface; other site 187410004473 conserved gate region; other site 187410004474 putative PBP binding loops; other site 187410004475 ABC-ATPase subunit interface; other site 187410004476 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 187410004477 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; Region: ABC_HisP_GlnQ_permeases; cd03262 187410004478 Walker A/P-loop; other site 187410004479 ATP binding site; other site 187410004480 Q-loop/lid; other site 187410004481 ABC transporter signature motif; other site 187410004482 Walker B; other site 187410004483 D-loop; other site 187410004484 H-loop/switch region; other site 187410004485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004486 conserved hypothetical protein TIGR01777; Region: yfcH 187410004487 Domain of unknown function (DUF1731); Region: DUF1731; pfam08338 187410004488 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 187410004489 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 187410004490 active site 187410004491 metal-binding site 187410004492 homotetramer interface; other site 187410004493 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_38; cd04697 187410004494 nudix motif; other site 187410004495 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 187410004496 ascorbate-specific PTS system enzyme IIC; Reviewed; Region: PRK12997 187410004497 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410004498 MULE transposase domain; Region: MULE; pfam10551 187410004499 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 187410004500 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 187410004501 active site 187410004502 phosphorylation site 187410004503 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410004504 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410004505 DNA binding site 187410004506 domain linker motif; other site 187410004507 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 187410004508 putative dimerization interface; other site 187410004509 putative ligand binding site; other site 187410004510 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 187410004511 phosphate acetyltransferase; Reviewed; Region: PRK05632 187410004512 DRTGG domain; Region: DRTGG; cl12147 187410004513 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 187410004514 acetate kinase; Reviewed; Region: PRK12440 187410004515 Acetokinase family; Region: Acetate_kinase; cl01029 187410004516 Protein of unknown function, DUF412; Region: DUF412; cl01183 187410004517 YfbU domain; Region: YfbU; cl01137 187410004518 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 187410004519 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 187410004520 motif II; other site 187410004521 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 187410004522 transmembrane helices; other site 187410004523 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 187410004524 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; cl09110 187410004525 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; cl09110 187410004526 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 187410004527 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 187410004528 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 187410004529 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 187410004530 pyridoxal 5'-phosphate binding site; other site 187410004531 homodimer interface; other site 187410004532 catalytic residue; other site 187410004533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410004534 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 187410004535 putative dimerization interface; other site 187410004536 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 187410004537 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 187410004538 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 187410004539 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 187410004540 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 187410004541 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 187410004542 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...; Region: TRX_Fd_NuoE; cd03064 187410004543 putative dimer interface; other site 187410004544 [2Fe-2S] cluster binding site; other site 187410004545 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 187410004546 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 187410004547 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 187410004548 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 187410004549 NADH dehydrogenase subunit G; Validated; Region: PRK08166 187410004550 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 187410004551 catalytic loop; other site 187410004552 iron binding site; other site 187410004553 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 187410004554 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 187410004555 [4Fe-4S] binding site; other site 187410004556 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 187410004557 NADH dehydrogenase; Region: NADHdh; cl00469 187410004558 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 187410004559 4Fe-4S binding domain; Region: Fer4; pfam00037 187410004560 4Fe-4S binding domain; Region: Fer4; pfam00037 187410004561 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; cl00676 187410004562 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 187410004563 NADH dehydrogenase subunit L; Reviewed; Region: PRK06590 187410004564 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 187410004565 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 187410004566 NADH dehydrogenase subunit M; Reviewed; Region: PRK05846 187410004567 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 187410004568 NADH dehydrogenase subunit N; Provisional; Region: PRK05777 187410004569 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 187410004570 Domain of unknown function (DUF386); Region: DUF386; cl01047 187410004571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004572 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 187410004573 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 187410004574 ATP-binding site; other site 187410004575 Gluconate-6-phosphate binding site; other site 187410004576 Domain of unknown function (DUF386); Region: DUF386; cl01047 187410004577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 187410004579 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 187410004580 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410004581 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410004582 DNA binding site 187410004583 domain linker motif; other site 187410004584 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 187410004585 putative ligand binding site; other site 187410004586 putative dimerization interface; other site 187410004587 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 187410004588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004589 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 187410004590 d-galactonate transporter; Region: 2A0114; TIGR00893 187410004591 putative substrate translocation pore; other site 187410004592 Domain of unknown function (DUF336); Region: DUF336; cl01249 187410004593 Dehydratase family; Region: ILVD_EDD; cl00340 187410004594 6-phosphogluconate dehydratase; Region: edd; TIGR01196 187410004595 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 187410004596 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 187410004597 chorismate binding enzyme; Region: Chorismate_bind; cl10555 187410004598 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 187410004599 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 187410004600 dimer interface; other site 187410004601 tetramer interface; other site 187410004602 PYR/PP interface; other site 187410004603 TPP binding site; other site 187410004604 TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 187410004605 TPP-binding site; other site 187410004606 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 187410004607 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 187410004608 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 187410004609 enoyl-CoA hydratase; Provisional; Region: PRK06142 187410004610 substrate binding site; other site 187410004611 oxyanion hole (OAH) forming residues; other site 187410004612 trimer interface; other site 187410004613 O-succinylbenzoate synthase; Provisional; Region: PRK05105 187410004614 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway...; Region: OSBS; cd03320 187410004615 active site 187410004616 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410004617 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 187410004618 glycosyl transferase family protein; Provisional; Region: PRK08136 187410004619 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 187410004620 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 187410004621 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410004622 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 187410004623 transposase/IS protein; Provisional; Region: PRK09183 187410004624 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...; Region: AAA; cd00009 187410004625 Walker A motif; other site 187410004626 ATP binding site; other site 187410004627 Walker B motif; other site 187410004628 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410004629 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410004630 Integrase core domain; Region: rve; cl01316 187410004631 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 187410004632 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 187410004633 putative active site; other site 187410004634 heme pocket; other site 187410004635 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 187410004636 putative active site; other site 187410004637 heme pocket; other site 187410004638 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 187410004639 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 187410004640 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; Region: ABC_HisP_GlnQ_permeases; cd03262 187410004641 Walker A/P-loop; other site 187410004642 ATP binding site; other site 187410004643 Q-loop/lid; other site 187410004644 ABC transporter signature motif; other site 187410004645 Walker B; other site 187410004646 D-loop; other site 187410004647 H-loop/switch region; other site 187410004648 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 187410004649 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004650 dimer interface; other site 187410004651 conserved gate region; other site 187410004652 putative PBP binding loops; other site 187410004653 ABC-ATPase subunit interface; other site 187410004654 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 187410004655 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...; Region: PBPb; cd00134 187410004656 substrate binding pocket; other site 187410004657 membrane-bound complex binding site; other site 187410004658 hinge residues; other site 187410004659 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 187410004660 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 187410004661 TPR motif; other site 187410004662 binding surface 187410004663 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 187410004664 putative active site; other site 187410004665 Ferritin-like domain; Region: Ferritin; pfam00210 187410004666 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 187410004667 dimerization interface; other site 187410004668 DPS ferroxidase diiron center; other site 187410004669 ion pore; other site 187410004670 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 187410004671 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 187410004672 S-adenosylmethionine binding site; other site 187410004673 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 187410004674 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410004675 threonine and homoserine efflux system; Provisional; Region: PRK10532 187410004676 Surface antigen; Region: Surface_Ag_2; cl01155 187410004677 Cation efflux family; Region: Cation_efflux; cl00316 187410004678 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 187410004679 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 187410004680 putative NAD(P) binding site; other site 187410004681 catalytic Zn binding site; other site 187410004682 structural Zn binding site; other site 187410004683 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410004684 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 187410004685 putative ligand binding site; other site 187410004686 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410004687 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...; Region: ABC_Carb_Monos_I; cd03216 187410004688 Walker A/P-loop; other site 187410004689 ATP binding site; other site 187410004690 Q-loop/lid; other site 187410004691 ABC transporter signature motif; other site 187410004692 Walker B; other site 187410004693 D-loop; other site 187410004694 H-loop/switch region; other site 187410004695 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 187410004696 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 187410004697 TM-ABC transporter signature motif; other site 187410004698 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410004699 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410004700 DNA binding site 187410004701 domain linker motif; other site 187410004702 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 187410004703 dimerization interface; other site 187410004704 ligand binding site; other site 187410004705 transcriptional activator TtdR; Provisional; Region: PRK09801 187410004706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410004707 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_9; cd08479 187410004708 putative effector binding pocket; other site 187410004709 putative dimerization interface; other site 187410004710 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 187410004711 BCCT family transporter; Region: BCCT; cl00569 187410004712 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 187410004713 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron...; Region: PDR_like; cd06185 187410004714 FMN-binding pocket; other site 187410004715 flavin binding motif; other site 187410004716 phosphate binding motif; other site 187410004717 beta-alpha-beta structure motif; other site 187410004718 NAD binding pocket; other site 187410004719 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 187410004720 catalytic loop; other site 187410004721 iron binding site; other site 187410004722 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 187410004723 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410004724 Surface antigen; Region: Bac_surface_Ag; cl03097 187410004725 haemagglutination activity domain; Region: Haemagg_act; cl05436 187410004726 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 187410004727 Uncharacterized protein conserved in bacteria (DUF2247); Region: DUF2247; cl01763 187410004728 Possible hemagglutinin (DUF638); Region: DUF638; pfam04829 187410004729 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 187410004730 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 187410004731 Walker A/P-loop; other site 187410004732 ATP binding site; other site 187410004733 Q-loop/lid; other site 187410004734 ABC transporter signature motif; other site 187410004735 Walker B; other site 187410004736 D-loop; other site 187410004737 H-loop/switch region; other site 187410004738 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 187410004739 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 187410004740 active site 187410004741 substrate binding site; other site 187410004742 metal-binding site 187410004743 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410004744 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410004745 DNA binding site 187410004746 domain linker motif; other site 187410004747 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_3; cd06279 187410004748 putative dimerization interface; other site 187410004749 putative ligand binding site; other site 187410004750 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 187410004751 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 187410004752 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004753 dimer interface; other site 187410004754 putative PBP binding loops; other site 187410004755 ABC-ATPase subunit interface; other site 187410004756 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410004757 dimer interface; other site 187410004758 conserved gate region; other site 187410004759 putative PBP binding loops; other site 187410004760 ABC-ATPase subunit interface; other site 187410004761 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; cl09152 187410004762 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 187410004763 Mechanosensitive ion channel; Region: MS_channel; pfam00924 187410004764 CRISPR associated protein Cas1; Region: Cas_Cas1; cl00656 187410004765 CRISPR-associated endonuclease Cas1; Region: cas1; TIGR00287 187410004766 CRISPR-associated helicase Cas3; Region: cas3_yersinia; TIGR02562 187410004767 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 187410004768 CRISPR-associated protein (Cas_Csy1); Region: Cas_Csy1; cl09829 187410004769 CRISPR-associated protein (Cas_Csy2); Region: Cas_Csy2; cl12127 187410004770 CRISPR-associated protein (Cas_Csy3); Region: Cas_Csy3; cl09832 187410004771 CRISPR-associated protein (Cas_Csy4); Region: Cas_Csy4; cl09835 187410004772 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...; Region: Aldo_ket_red; cd06660 187410004773 active site 187410004774 catalytic tetrad; other site 187410004775 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 187410004776 benzoate transport; Region: 2A0115; TIGR00895 187410004777 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 187410004778 putative substrate translocation pore; other site 187410004779 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 187410004780 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 187410004781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410004782 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 187410004783 dimerization interface; other site 187410004784 Autoinducer binding domain; Region: Autoind_bind; pfam03472 187410004785 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...; Region: LuxR_C_like; cd06170 187410004786 DNA binding residues 187410004787 dimerization interface; other site 187410004788 Autoinducer synthetase; Region: Autoind_synth; pfam00765 187410004789 EamA-like transporter family; Region: EamA; cl01037 187410004790 hypothetical protein; Provisional; Region: PRK00142 187410004791 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 187410004792 active site residue 187410004793 Domain of unknown function DUF20; Region: UPF0118; cl00465 187410004794 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 187410004795 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 187410004796 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...; Region: LuxR_C_like; cd06170 187410004797 DNA binding residues 187410004798 dimerization interface; other site 187410004799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004800 sarcosine oxidase, monomeric form; Region: soxA_mon; TIGR01377 187410004801 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410004802 MULE transposase domain; Region: MULE; pfam10551 187410004803 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 187410004804 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 187410004805 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 187410004806 active site 187410004807 substrate binding pocket; other site 187410004808 dimer interface; other site 187410004809 DinI-like family; Region: DinI; cl11630 187410004810 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410004811 MULE transposase domain; Region: MULE; pfam10551 187410004812 ribonuclease E; Reviewed; Region: rne; PRK10811 187410004813 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 187410004814 homodimer interface; other site 187410004815 oligonucleotide binding site; other site 187410004816 ribonuclease E; Reviewed; Region: rne; PRK10811 187410004817 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 187410004818 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 187410004819 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 187410004820 active site 187410004821 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 187410004822 active site 187410004823 dimer interface; other site 187410004824 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 187410004825 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 187410004826 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 187410004827 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 187410004828 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 187410004829 dimer interface; other site 187410004830 active site 187410004831 CoA binding pocket; other site 187410004832 Acyl transferase domain; Region: Acyl_transf_1; cl08282 187410004833 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 187410004834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004835 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 187410004836 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187410004837 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 187410004838 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 187410004839 dimer interface; other site 187410004840 active site 187410004841 Transposase IS200 like; Region: Transposase_17; cl00848 187410004842 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 187410004843 Aminotransferase class IV; Region: Aminotran_4; pfam01063 187410004844 pyridoxal 5'-phosphate binding site; other site 187410004845 catalytic residue; other site 187410004846 YceG-like family; Region: YceG; pfam02618 187410004847 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 187410004848 dimerization interface; other site 187410004849 thymidylate kinase; Validated; Region: tmk; PRK00698 187410004850 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...; Region: TMPK; cd01672 187410004851 TMP-binding site; other site 187410004852 ATP-binding site; other site 187410004853 DNA polymerase III subunit delta'; Validated; Region: PRK07993 187410004854 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410004855 C terminal; Region: DNApol3-delta_C; pfam09115 187410004856 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 187410004857 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 187410004858 active site 187410004859 glucose-specific PTS system IIBC components; Provisional; Region: PRK11089 187410004860 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 187410004861 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 187410004862 active site turn 187410004863 phosphorylation site 187410004864 Transposase IS200 like; Region: Transposase_17; cl00848 187410004865 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 187410004866 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 187410004867 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 187410004868 shikimate binding site; other site 187410004869 NAD(P) binding site; other site 187410004870 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 187410004871 nucleotide binding site/active site; other site 187410004872 HIT family signature motif; other site 187410004873 catalytic residue; other site 187410004874 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 187410004875 Protein of unknown function (DUF1425); Region: DUF1425; pfam07233 187410004876 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; cl01354 187410004877 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 187410004878 Phosphotransferase enzyme family; Region: APH; pfam01636 187410004879 active site 187410004880 substrate binding site; other site 187410004881 ATP binding site; other site 187410004882 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 187410004883 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 187410004884 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 187410004885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004886 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410004887 MULE transposase domain; Region: MULE; pfam10551 187410004888 Rickettsia 17 kDa surface antigen; Region: Rick_17kDa_Anti; cl10470 187410004889 transcription-repair coupling factor; Provisional; Region: PRK10689 187410004890 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 187410004891 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 187410004892 ATP binding site; other site 187410004893 putative Mg++ binding site; other site 187410004894 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 187410004895 nucleotide binding region; other site 187410004896 ATP-binding site; other site 187410004897 TRCF domain; Region: TRCF; pfam03461 187410004898 Predicted permease; Region: FtsX; cl11418 187410004899 LolC/E family; Region: lolCE; TIGR02212 187410004900 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 187410004901 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 187410004902 Walker A/P-loop; other site 187410004903 ATP binding site; other site 187410004904 Q-loop/lid; other site 187410004905 ABC transporter signature motif; other site 187410004906 Walker B; other site 187410004907 D-loop; other site 187410004908 H-loop/switch region; other site 187410004909 Predicted permease; Region: FtsX; cl11418 187410004910 LolC/E family; Region: lolCE; TIGR02212 187410004911 ROK family; Region: ROK; cl09121 187410004912 ROK family; Region: ROK; cl09121 187410004913 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes...; Region: SIRT5_Af1_CobB; cd01412 187410004914 NAD-dependent deacetylase; Provisional; Region: PRK14138 187410004915 NAD+ binding site; other site 187410004916 substrate binding site; other site 187410004917 Zn binding site; other site 187410004918 Peptidase dimerization domain; Region: M20_dimer; cl09126 187410004919 peptidase T; Region: peptidase-T; TIGR01882 187410004920 Uncharacterized conserved protein [Function unknown]; Region: COG2850 187410004921 Cupin superfamily protein; Region: Cupin_4; pfam08007 187410004922 sensor protein PhoQ; Provisional; Region: PRK10815 187410004923 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 187410004924 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 trans-...; Region: HisKA; cl00080 187410004925 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 187410004926 ATP binding site; other site 187410004927 Mg2+ binding site; other site 187410004928 G-X-G motif; other site 187410004929 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 187410004930 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 187410004931 active site 187410004932 phosphorylation site 187410004933 intermolecular recognition site; other site 187410004934 dimerization interface; other site 187410004935 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...; Region: trans_reg_C; cd00383 187410004936 DNA binding site 187410004937 adenylosuccinate lyase; Provisional; Region: PRK09285 187410004938 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 187410004939 tetramer interface; other site 187410004940 active site 187410004941 Protein of unknown function (DUF489); Region: DUF489; cl01097 187410004942 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 187410004943 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 187410004944 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X...; Region: Nudix_Hydrolase_2; cd03675 187410004945 nudix motif; other site 187410004946 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 187410004947 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-...; Region: PseudoU_synth_RluE; cd02566 187410004948 probable active site; other site 187410004949 isocitrate dehydrogenase; Validated; Region: PRK07362 187410004950 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 187410004951 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410004952 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410004953 DNA binding site 187410004954 domain linker motif; other site 187410004955 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 187410004956 putative dimerization interface; other site 187410004957 putative ligand binding site; other site 187410004958 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 187410004959 PAS fold; Region: PAS_3; pfam08447 187410004960 putative active site; other site 187410004961 heme pocket; other site 187410004962 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410004963 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 187410004964 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 187410004965 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 187410004966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410004967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410004968 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 187410004969 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 187410004970 catalytic core; other site 187410004971 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 187410004972 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 187410004973 Protein of unknown function (DUF2843); Region: DUF2843; pfam11004 187410004974 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 187410004975 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410004976 Extracytoplasmic function sigma factor YlaC; Region: YlaC; pfam10777 187410004977 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 187410004978 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 187410004979 NAD(P) binding site; other site 187410004980 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 187410004981 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 187410004982 domain; Region: Glyco_hydro_2; pfam00703 187410004983 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 187410004984 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 187410004985 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 187410004986 DNA binding site 187410004987 RNA-binding motif; other site 187410004988 Dextransucrase DSRB; Region: DSRB; cl11680 187410004989 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 187410004990 MgtC family; Region: MgtC; pfam02308 187410004991 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 187410004992 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 187410004993 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187410004994 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; cl11391 187410004995 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 187410004996 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 187410004997 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 187410004998 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 187410004999 flagellar motor protein MotB; Reviewed; Region: motB; PRK12799 187410005000 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187410005001 ligand binding site; other site 187410005002 flagellar motor protein MotB; Reviewed; Region: motB; PRK12799 187410005003 chemotaxis protein CheA; Provisional; Region: PRK10547 187410005004 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 187410005005 putative binding surface; other site 187410005006 active site 187410005007 CheY binding; Region: CheY-binding; pfam09078 187410005008 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 187410005009 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 187410005010 ATP binding site; other site 187410005011 Mg2+ binding site; other site 187410005012 G-X-G motif; other site 187410005013 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 187410005014 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 187410005015 putative CheA interaction surface; other site 187410005016 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 187410005017 putative substrate translocation pore; other site 187410005018 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 187410005019 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 187410005020 homotrimer interaction site; other site 187410005021 putative active site; other site 187410005022 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 187410005023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 187410005024 YheO-like PAS domain; Region: PAS_6; pfam08348 187410005025 HTH DNA binding domain; Region: HTH_10; pfam04967 187410005026 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 187410005027 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 187410005028 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410005029 Predicted membrane protein [Function unknown]; Region: COG5373 187410005030 hypothetical protein; Provisional; Region: PRK10215 187410005031 methyl-accepting protein IV; Provisional; Region: PRK09793 187410005032 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cd00181 187410005033 dimerization interface; other site 187410005034 ligand (aspartate) binding pocket; other site 187410005035 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 connected by an extended linker. The...; Region: HAMP; cd06225 187410005036 dimerization interface; other site 187410005037 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 187410005038 methyl-accepting protein IV; Provisional; Region: PRK09793 187410005039 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cd00181 187410005040 dimerization interface; other site 187410005041 ligand (aspartate) binding pocket; other site 187410005042 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410005043 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 187410005044 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 187410005045 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 187410005046 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 187410005047 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410005048 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 187410005049 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 187410005050 active site 187410005051 phosphorylation site 187410005052 intermolecular recognition site; other site 187410005053 dimerization interface; other site 187410005054 CheB methylesterase; Region: CheB_methylest; pfam01339 187410005055 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 187410005056 active site 187410005057 phosphorylation site 187410005058 intermolecular recognition site; other site 187410005059 dimerization interface; other site 187410005060 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 187410005061 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 187410005062 amidase catalytic site; other site 187410005063 Zn binding residues; other site 187410005064 substrate binding site; other site 187410005065 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 187410005066 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 187410005067 YadA-like C-terminal region; Region: YadA; pfam03895 187410005068 alanine racemase; Reviewed; Region: PRK13340 187410005069 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 187410005070 active site 187410005071 pyridoxal 5'-phosphate (PLP) binding site; other site 187410005072 dimer interface; other site 187410005073 substrate binding site; other site 187410005074 catalytic residues; other site 187410005075 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 187410005076 nucleophile elbow; other site 187410005077 transposase/IS protein; Provisional; Region: PRK09183 187410005078 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...; Region: AAA; cd00009 187410005079 Walker A motif; other site 187410005080 ATP binding site; other site 187410005081 Walker B motif; other site 187410005082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410005083 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410005084 Integrase core domain; Region: rve; cl01316 187410005085 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 187410005086 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 187410005087 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 187410005088 Spore Coat Protein U domain; Region: SCPU; cl02253 187410005089 Spore Coat Protein U domain; Region: SCPU; cl02253 187410005090 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 187410005091 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410005092 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410005093 Spore Coat Protein U domain; Region: SCPU; cl02253 187410005094 Spore Coat Protein U domain; Region: SCPU; cl02253 187410005095 Spore Coat Protein U domain; Region: SCPU; cl02253 187410005096 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 187410005097 mce related protein; Region: MCE; pfam02470 187410005098 mce related protein; Region: MCE; pfam02470 187410005099 mce related protein; Region: MCE; pfam02470 187410005100 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 187410005101 mce related protein; Region: MCE; pfam02470 187410005102 mce related protein; Region: MCE; pfam02470 187410005103 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 187410005104 Paraquat-inducible protein A; Region: PqiA; pfam04403 187410005105 Paraquat-inducible protein A; Region: PqiA; pfam04403 187410005106 GAF domain; Region: GAF; cl00853 187410005107 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl00174 187410005108 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl00174 187410005109 carboxy-terminal protease; Provisional; Region: PRK11186 187410005110 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 187410005111 protein binding site; other site 187410005112 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 187410005113 Catalytic dyad; other site 187410005114 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 187410005115 Peptidase family M48; Region: Peptidase_M48; cl12018 187410005116 Fimbrial protein; Region: Fimbrial; cl01416 187410005117 putative chaperone protein EcpD; Provisional; Region: PRK09926 187410005118 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410005119 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410005120 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 187410005121 Fimbrial protein; Region: Fimbrial; cl01416 187410005122 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410005123 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410005124 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410005125 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 187410005126 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 187410005127 putative substrate translocation pore; other site 187410005128 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 187410005129 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410005130 Transcriptional regulator [Transcription]; Region: IclR; COG1414 187410005131 Bacterial transcriptional regulator; Region: IclR; pfam01614 187410005132 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 187410005133 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 187410005134 amidase catalytic site; other site 187410005135 Zn binding residues; other site 187410005136 substrate binding site; other site 187410005137 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 187410005138 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 187410005139 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 187410005140 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 187410005141 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 187410005142 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 187410005143 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 187410005144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410005145 Walker A/P-loop; other site 187410005146 ATP binding site; other site 187410005147 Q-loop/lid; other site 187410005148 ABC transporter signature motif; other site 187410005149 Walker B; other site 187410005150 D-loop; other site 187410005151 H-loop/switch region; other site 187410005152 TOBE domain; Region: TOBE_2; cl01440 187410005153 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410005154 dimer interface; other site 187410005155 conserved gate region; other site 187410005156 putative PBP binding loops; other site 187410005157 ABC-ATPase subunit interface; other site 187410005158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410005159 dimer interface; other site 187410005160 conserved gate region; other site 187410005161 putative PBP binding loops; other site 187410005162 ABC-ATPase subunit interface; other site 187410005163 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 187410005164 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 187410005165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410005166 KduI/IolB family; Region: KduI; cl01508 187410005167 Cupin domain; Region: Cupin_2; cl09118 187410005168 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410005169 MULE transposase domain; Region: MULE; pfam10551 187410005170 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 187410005171 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 187410005172 motif II; other site 187410005173 Phosphotransferase enzyme family; Region: APH; pfam01636 187410005174 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 187410005175 active site 187410005176 ATP binding site; other site 187410005177 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410005178 ABC-ATPase subunit interface; other site 187410005179 dimer interface; other site 187410005180 putative PBP binding regions; other site 187410005181 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410005182 ABC-ATPase subunit interface; other site 187410005183 dimer interface; other site 187410005184 putative PBP binding regions; other site 187410005185 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 187410005186 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 iron-...; Region: ABC_Metallic_Cations; cd03235 187410005187 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 187410005188 metal-binding site 187410005189 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 187410005190 N-acetyl-D-glucosamine binding site; other site 187410005191 catalytic residue; other site 187410005192 MarC family integral membrane protein; Region: MarC; cl00919 187410005193 threonyl-tRNA synthetase; Validated; Region: PRK03772 187410005194 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...; Region: TGS_ThrRS_N; cd01667 187410005195 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 187410005196 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 187410005197 active site 187410005198 dimer interface; other site 187410005199 motif 1; other site 187410005200 motif 2; other site 187410005201 motif 3; other site 187410005202 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 187410005203 anticodon binding site; other site 187410005204 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 187410005205 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 187410005206 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 187410005207 Ribosomal protein L20; Region: Ribosomal_L20; cl00393 187410005208 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 187410005209 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 187410005210 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 187410005211 dimer interface; other site 187410005212 motif 1; other site 187410005213 active site 187410005214 motif 2; other site 187410005215 motif 3; other site 187410005216 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 187410005217 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 187410005218 putative tRNA-binding site; other site 187410005219 B3/4 domain; Region: B3_4; cl11458 187410005220 tRNA synthetase B5 domain; Region: B5; cl08394 187410005221 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 187410005222 dimer interface; other site 187410005223 motif 1; other site 187410005224 motif 3; other site 187410005225 motif 2; other site 187410005226 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 187410005227 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 higher...; Region: HU_IHF; cd00591 187410005228 IHF dimer interface; other site 187410005229 IHF - DNA interface; other site 187410005230 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 187410005231 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410005232 ABC-ATPase subunit interface; other site 187410005233 dimer interface; other site 187410005234 putative PBP binding regions; other site 187410005235 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue...; Region: GSH_Peroxidase; cd00340 187410005236 catalytic residues; other site 187410005237 dimer interface; other site 187410005238 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 187410005239 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 187410005240 Walker A/P-loop; other site 187410005241 ATP binding site; other site 187410005242 Q-loop/lid; other site 187410005243 ABC transporter signature motif; other site 187410005244 Walker B; other site 187410005245 D-loop; other site 187410005246 H-loop/switch region; other site 187410005247 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 187410005248 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 187410005249 inhibitor-cofactor binding pocket; inhibition site 187410005250 pyridoxal 5'-phosphate binding site; other site 187410005251 catalytic residue; other site 187410005252 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 187410005253 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 187410005254 Ligand binding site; other site 187410005255 Putative Catalytic site; other site 187410005256 DXD motif; other site 187410005257 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 187410005258 Formyl transferase; Region: Formyl_trans_N; cl00395 187410005259 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 187410005260 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 187410005261 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 187410005262 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 187410005263 hypothetical protein; Provisional; Region: PRK02971 187410005264 hypothetical protein; Provisional; Region: PRK02971 187410005265 NlpC/P60 family; Region: NLPC_P60; cl11438 187410005266 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 187410005267 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 187410005268 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 187410005269 NeuB family; Region: NeuB; cl00496 187410005270 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 187410005271 Domain of unknown function (DUF299); Region: DUF299; cl00780 187410005272 phosphoenolpyruvate synthase; Validated; Region: PRK06464 187410005273 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 187410005274 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 187410005275 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 187410005276 Domain of unknown function DUF20; Region: UPF0118; cl00465 187410005277 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 187410005278 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 187410005279 FAD binding domain; Region: FAD_binding_4; cl10516 187410005280 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 187410005281 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 187410005282 CoenzymeA binding site; other site 187410005283 subunit interaction site; other site 187410005284 PHB binding site; other site 187410005285 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 187410005286 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 187410005287 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 187410005288 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 187410005289 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 187410005290 Walker A/P-loop; other site 187410005291 ATP binding site; other site 187410005292 Q-loop/lid; other site 187410005293 ABC transporter signature motif; other site 187410005294 Walker B; other site 187410005295 D-loop; other site 187410005296 H-loop/switch region; other site 187410005297 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 187410005298 FeS assembly protein SufD, group 1; Region: sufD; TIGR01981 187410005299 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 187410005300 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 187410005301 pyridoxal 5'-phosphate binding pocket; other site 187410005302 catalytic residue; other site 187410005303 Fe-S metabolism associated domain; Region: SufE; cl00951 187410005304 hypothetical protein; Provisional; Region: PRK10190 187410005305 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187410005306 transposase/IS protein; Provisional; Region: PRK09183 187410005307 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...; Region: AAA; cd00009 187410005308 Walker A motif; other site 187410005309 ATP binding site; other site 187410005310 Walker B motif; other site 187410005311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410005312 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410005313 Integrase core domain; Region: rve; cl01316 187410005314 Transposase IS200 like; Region: Transposase_17; cl00848 187410005315 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 187410005316 pyruvate kinase; Provisional; Region: PRK09206 187410005317 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; cd00288 187410005318 domain interfaces; other site 187410005319 active site 187410005320 multidrug efflux protein; Reviewed; Region: PRK01766 187410005321 MatE; Region: MatE; pfam01554 187410005322 MatE; Region: MatE; pfam01554 187410005323 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 187410005324 Lumazine binding domain; Region: Lum_binding; pfam00677 187410005325 Lumazine binding domain; Region: Lum_binding; pfam00677 187410005326 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 187410005327 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 187410005328 S-adenosylmethionine binding site; other site 187410005329 inner membrane transport protein YdhC; Provisional; Region: PRK11043 187410005330 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 187410005331 putative substrate translocation pore; other site 187410005332 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 187410005333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410005334 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 187410005335 dimerization interface; other site 187410005336 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 187410005337 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410005338 DNA binding site 187410005339 domain linker motif; other site 187410005340 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 187410005341 dimerization interface; other site 187410005342 ligand binding site; other site 187410005343 superoxide dismutase; Provisional; Region: PRK10543 187410005344 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 187410005345 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 187410005346 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 187410005347 NlpC/P60 family; Region: NLPC_P60; cl11438 187410005348 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 187410005349 putative GSH binding site; other site 187410005350 catalytic residues; other site 187410005351 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 187410005352 RNase T is a DEDDh-type DnaQ-like 3'-5' exoribonuclease E implicated in the 3' maturation of small stable RNAs and 23srRNA, and in the end turnover of tRNA. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4...; Region: RNaseT; cd06134 187410005353 dimer interface; other site 187410005354 putative active site; other site 187410005355 putative substrate binding site; other site 187410005356 catalytic site; other site 187410005357 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 187410005358 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 187410005359 active site 187410005360 FMN binding site; other site 187410005361 substrate binding site; other site 187410005362 catalytic residue; other site 187410005363 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 187410005364 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187410005365 putative cell division protein; Provisional; Region: PRK11598 187410005366 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 187410005367 Sulfatase; Region: Sulfatase; cl10460 187410005368 transcriptional regulator SlyA; Provisional; Region: PRK03573 187410005369 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410005370 Rickettsia 17 kDa surface antigen; Region: Rick_17kDa_Anti; cl10470 187410005371 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 187410005372 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 187410005373 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 187410005374 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 187410005375 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 187410005376 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 187410005377 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 187410005378 active site 187410005379 HIGH motif; other site 187410005380 dimer interface; other site 187410005381 KMSKS motif; other site 187410005382 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 187410005383 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 187410005384 dimer interface; other site 187410005385 pyridoxal binding site; other site 187410005386 ATP binding site; other site 187410005387 glutathionine S-transferase; Provisional; Region: PRK10542 187410005388 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 187410005389 C-terminal domain interface; other site 187410005390 GSH binding site (G-site); other site 187410005391 dimer interface; other site 187410005392 GST_C 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_C_Beta; cd03188 187410005393 dimer interface; other site 187410005394 N-terminal domain interface; other site 187410005395 substrate binding pocket (H-site); other site 187410005396 Competence regulator Spx (YjbD); Region: ComReg_Spx; cl08125 187410005397 Yip1 domain; Region: Yip1; cl12048 187410005398 inner membrane transporter YhiP; Provisional; Region: PRK10207 187410005399 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 187410005400 putative substrate translocation pore; other site 187410005401 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 187410005402 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 187410005403 Uncharacterized conserved protein [Function unknown]; Region: COG2128 187410005404 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 187410005405 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 187410005406 Walker A/P-loop; other site 187410005407 ATP binding site; other site 187410005408 Q-loop/lid; other site 187410005409 ABC transporter signature motif; other site 187410005410 Walker B; other site 187410005411 D-loop; other site 187410005412 H-loop/switch region; other site 187410005413 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 187410005414 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 187410005415 Walker A/P-loop; other site 187410005416 ATP binding site; other site 187410005417 Q-loop/lid; other site 187410005418 ABC transporter signature motif; other site 187410005419 Walker B; other site 187410005420 D-loop; other site 187410005421 H-loop/switch region; other site 187410005422 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 187410005423 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410005424 putative PBP binding loops; other site 187410005425 dimer interface; other site 187410005426 ABC-ATPase subunit interface; other site 187410005427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410005428 dimer interface; other site 187410005429 conserved gate region; other site 187410005430 putative PBP binding loops; other site 187410005431 ABC-ATPase subunit interface; other site 187410005432 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 187410005433 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 187410005434 peptide binding site; other site 187410005435 Transposase IS200 like; Region: Transposase_17; cl00848 187410005436 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 187410005437 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...; Region: AAA; cd00009 187410005438 Walker A motif; other site 187410005439 ATP binding site; other site 187410005440 Walker B motif; other site 187410005441 arginine finger; other site 187410005442 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 187410005443 phage shock protein PspA; Provisional; Region: PRK10698 187410005444 phage shock protein A; Region: phageshock_pspA; TIGR02977 187410005445 Phage shock protein B; Region: PspB; cl05946 187410005446 PspC domain; Region: PspC; cl00864 187410005447 phage shock protein C; Region: phageshock_pspC; TIGR02978 187410005448 Phage shock protein PspD (Phageshock_PspD); Region: Phageshock_PspD; cl11512 187410005449 YcjX-like family, DUF463; Region: DUF463; cl01193 187410005450 hypothetical protein; Provisional; Region: PRK05415 187410005451 Domain of unknown function (DUF697); Region: DUF697; cl12064 187410005452 RES domain; Region: RES; cl02411 187410005453 Uncharacterized conserved protein [Function unknown]; Region: COG5642 187410005454 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 187410005455 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 187410005456 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 187410005457 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 187410005458 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...; Region: AAA; cd00009 187410005459 Walker A motif; other site 187410005460 ATP binding site; other site 187410005461 Walker B motif; other site 187410005462 arginine finger; other site 187410005463 Transposase IS200 like; Region: Transposase_17; cl00848 187410005464 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 187410005465 dimer interface; other site 187410005466 catalytic triad; other site 187410005467 peroxidatic and resolving cysteines; other site 187410005468 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...; Region: L-Ala-DL-Glu_epimerase; cd03319 187410005469 o-succinylbenzoic acid (OSB) synthetase; Region: menC_lowGC/arch; TIGR01928 187410005470 active site 187410005471 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A (MpaA) and related proteins. MpaA is a member of the M14 family of metallocarboxypeptidases (MCPs), however it has an exceptional type of activity, it hydrolyzes the gamma-D-...; Region: M14_MpaA_like; cd06904 187410005472 putative active site; other site 187410005473 Zn-binding site; other site 187410005474 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 187410005475 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 187410005476 peptide binding site; other site 187410005477 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 187410005478 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 187410005479 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 187410005480 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 187410005481 DNA binding residues 187410005482 dimer interface; other site 187410005483 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 187410005484 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 187410005485 substrate binding pocket; other site 187410005486 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 187410005487 C32 tRNA thiolase; Provisional; Region: PRK10696 187410005488 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...; Region: Alpha_ANH_like_II; cd01993 187410005489 Ligand Binding Site; other site 187410005490 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 187410005491 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 187410005492 dimer interface; other site 187410005493 PYR/PP interface; other site 187410005494 TPP binding site; other site 187410005495 substrate binding site; other site 187410005496 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 187410005497 Domain of unknown function; Region: EKR; pfam10371 187410005498 4Fe-4S binding domain; Region: Fer4; pfam00037 187410005499 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 alpha-; Region: HCP_like; cl00255 187410005500 TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This subfamily also includes proteins characterized as...; Region: TPP_PFOR_PNO; cd03377 187410005501 TPP-binding site; other site 187410005502 dimer interface; other site 187410005503 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 187410005504 MgtC family; Region: MgtC; pfam02308 187410005505 Domain of unknown function (DUF333); Region: DUF333; pfam03891 187410005506 META domain; Region: META; cl01245 187410005507 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 187410005508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410005509 hypothetical protein; Provisional; Region: PRK10695 187410005510 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 187410005511 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 187410005512 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 187410005513 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 187410005514 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 187410005515 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 187410005516 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 187410005517 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410005518 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 187410005519 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 187410005520 ATP binding site; other site 187410005521 putative Mg++ binding site; other site 187410005522 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 187410005523 nucleotide binding region; other site 187410005524 ATP-binding site; other site 187410005525 Helicase associated domain (HA2); Region: HA2; cl04503 187410005526 Domain of unknown function (DUF1605); Region: DUF1605; pfam07717 187410005527 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 187410005528 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 187410005529 non-specific DNA binding site; other site 187410005530 salt bridge; other site 187410005531 sequence-specific DNA binding site; other site 187410005532 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...; Region: Tryp_SPc; cl00149 187410005533 active site 187410005534 substrate binding sites; other site 187410005535 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 187410005536 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 187410005537 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 187410005538 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 187410005539 transposase/IS protein; Provisional; Region: PRK09183 187410005540 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...; Region: AAA; cd00009 187410005541 Walker A motif; other site 187410005542 ATP binding site; other site 187410005543 Walker B motif; other site 187410005544 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410005545 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410005546 Integrase core domain; Region: rve; cl01316 187410005547 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 187410005548 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 187410005549 putative catalytic cysteine; other site 187410005550 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 187410005551 putative active site; other site 187410005552 metal-binding site 187410005553 MarC family integral membrane protein; Region: MarC; cl00919 187410005554 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 187410005555 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 187410005556 peptide binding site; other site 187410005557 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410005558 dimer interface; other site 187410005559 conserved gate region; other site 187410005560 putative PBP binding loops; other site 187410005561 ABC-ATPase subunit interface; other site 187410005562 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410005563 dimer interface; other site 187410005564 conserved gate region; other site 187410005565 ABC-ATPase subunit interface; other site 187410005566 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 187410005567 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 187410005568 Walker A/P-loop; other site 187410005569 ATP binding site; other site 187410005570 Q-loop/lid; other site 187410005571 ABC transporter signature motif; other site 187410005572 Walker B; other site 187410005573 D-loop; other site 187410005574 H-loop/switch region; other site 187410005575 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 187410005576 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 187410005577 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 187410005578 Walker A/P-loop; other site 187410005579 ATP binding site; other site 187410005580 Q-loop/lid; other site 187410005581 ABC transporter signature motif; other site 187410005582 Walker B; other site 187410005583 D-loop; other site 187410005584 H-loop/switch region; other site 187410005585 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 187410005586 Protein of unknown function, DUF440; Region: DUF440; cl11472 187410005587 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 187410005588 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 187410005589 active site 187410005590 signature motif; other site 187410005591 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 187410005592 active site 187410005593 signature motif; other site 187410005594 Surface antigen; Region: Surface_Ag_2; cl01155 187410005595 YCII-related domain; Region: YCII; cl00999 187410005596 transport protein TonB; Provisional; Region: PRK10819 187410005597 Gram-negative bacterial tonB protein; Region: TonB; cl10048 187410005598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410005599 MULE transposase domain; Region: MULE; pfam10551 187410005600 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...; Region: BFIT_BACH; cd03442 187410005601 Intracellular septation protein A; Region: IspA; cl01098 187410005602 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 187410005603 Surface antigen; Region: Surface_Ag_2; cl01155 187410005604 Putative phospholipid-binding domain; Region: BON; cl02771 187410005605 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 187410005606 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...; Region: Tryptophan_synthase_alpha; cd04724 187410005607 substrate binding site; other site 187410005608 active site 187410005609 catalytic residues; other site 187410005610 heterodimer interface; other site 187410005611 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 187410005612 pyridoxal 5'-phosphate binding site; other site 187410005613 catalytic residue; other site 187410005614 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 187410005615 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 187410005616 active site 187410005617 ribulose/triose binding site; other site 187410005618 phosphate binding site; other site 187410005619 substrate (anthranilate) binding pocket; other site 187410005620 product (indole) binding pocket; other site 187410005621 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 187410005622 active site 187410005623 anthranilate synthase component I; Provisional; Region: PRK13564 187410005624 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 187410005625 chorismate binding enzyme; Region: Chorismate_bind; cl10555 187410005626 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 187410005627 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 187410005628 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 187410005629 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 187410005630 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 187410005631 RNA binding surface; other site 187410005632 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 187410005633 probable active site; other site 187410005634 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 187410005635 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 187410005636 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...; Region: CobA_CobO_BtuR; cd00561 187410005637 homodimer interface; other site 187410005638 Walker A motif; other site 187410005639 ATP binding site; other site 187410005640 hydroxycobalamin binding site; other site 187410005641 Walker B motif; other site 187410005642 short chain dehydrogenase; Provisional; Region: PRK08945 187410005643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410005644 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 187410005645 putative periplasmic protease; Provisional; Region: PRK11778 187410005646 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 187410005647 tandem repeat interface; other site 187410005648 oligomer interface; other site 187410005649 active site residues 187410005650 Protein of unknown function (DUF2498); Region: DUF2498; cl11671 187410005651 DNA topoisomerase I; Validated; Region: PRK09001 187410005652 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 187410005653 active site 187410005654 interdomain interaction site; other site 187410005655 putative metal-binding site; other site 187410005656 nucleotide binding site; other site 187410005657 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...; Region: TOP1Ac; cd00186 187410005658 domain I; other site 187410005659 DNA binding groove 187410005660 phosphate binding site; other site 187410005661 domain II; other site 187410005662 domain III; other site 187410005663 nucleotide binding site; other site 187410005664 catalytic site; other site 187410005665 domain IV; other site 187410005666 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 187410005667 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 187410005668 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 187410005669 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 187410005670 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 187410005671 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410005672 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 187410005673 substrate binding site; other site 187410005674 putative dimerization interface; other site 187410005675 aconitate hydratase; Validated; Region: PRK09277 187410005676 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 187410005677 substrate binding site; other site 187410005678 ligand binding site; other site 187410005679 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 187410005680 substrate binding site; other site 187410005681 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 187410005682 dimerization interface; other site 187410005683 active site 187410005684 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 187410005685 active site 187410005686 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 187410005687 tetratricopeptide repeat protein; Provisional; Region: PRK11788 187410005688 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 187410005689 TPR motif; other site 187410005690 binding surface 187410005691 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 187410005692 active site 187410005693 dimer interface; other site 187410005694 translation initiation factor Sui1; Validated; Region: PRK06824 187410005695 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 187410005696 Predicted RNA interaction site; other site 187410005697 putative binding site; other site 187410005698 Mutations affecting start-site selection; other site 187410005699 lipoprotein; Provisional; Region: PRK10540 187410005700 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; cd00398 187410005701 intersubunit interface; other site 187410005702 active site 187410005703 Zn2+ binding site; other site 187410005704 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 187410005705 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea, which are member of the MipB/TalC subfamily of class I aldolases. FSA catalyze an aldol cleavage of fructose 6-phosphate and do not utilize fructose, fructose 1...; Region: Transaldolase_FSA; cd00956 187410005706 active site 187410005707 intersubunit interactions; other site 187410005708 catalytic residue; other site 187410005709 Protein of unknown function (DUF466); Region: DUF466; cl01082 187410005710 Carbon starvation protein CstA; Region: CstA; cl00856 187410005711 exoribonuclease II; Provisional; Region: PRK05054 187410005712 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 187410005713 RNB domain; Region: RNB; pfam00773 187410005714 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 187410005715 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 187410005716 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 187410005717 putative substrate translocation pore; other site 187410005718 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187410005719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410005720 endonuclease III; Provisional; Region: PRK10702 187410005721 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 187410005722 minor groove reading motif; other site 187410005723 helix-hairpin-helix signature motif; other site 187410005724 substrate binding pocket; other site 187410005725 active site 187410005726 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 187410005727 FMN-binding domain; Region: FMN_bind; cl01081 187410005728 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 187410005729 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 187410005730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410005731 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 187410005732 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 187410005733 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 187410005734 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 alpha-; Region: HCP_like; cl00255 187410005735 electron transport complex protein RnfB; Provisional; Region: PRK05113 187410005736 Putative Fe-S cluster; Region: FeS; pfam04060 187410005737 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 187410005738 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 187410005739 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 187410005740 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...; Region: Peptidase_C39_like; cd02259 187410005741 putative active site; other site 187410005742 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410005743 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410005744 Walker A/P-loop; other site 187410005745 ATP binding site; other site 187410005746 Q-loop/lid; other site 187410005747 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410005748 H-loop/switch region; other site 187410005749 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine'...; Region: Peptidase_C39_likeA; cd02417 187410005750 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 187410005751 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410005752 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410005753 Walker A/P-loop; other site 187410005754 ATP binding site; other site 187410005755 Q-loop/lid; other site 187410005756 ABC transporter signature motif; other site 187410005757 Walker B; other site 187410005758 D-loop; other site 187410005759 H-loop/switch region; other site 187410005760 L-arabinose isomerase; Provisional; Region: PRK02929 187410005761 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 187410005762 putative hexamer (dimer of trimers) interface; other site 187410005763 trimer interface; other site 187410005764 putative substrate binding site; other site 187410005765 putative metal binding site; other site 187410005766 ribulokinase; Provisional; Region: PRK04123 187410005767 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 187410005768 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 187410005769 family; Region: Peripla_BP_1; pfam00532 187410005770 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 187410005771 ligand binding site; other site 187410005772 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 187410005773 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...; Region: ABC_Carb_Monos_I; cd03216 187410005774 Walker A/P-loop; other site 187410005775 ATP binding site; other site 187410005776 Q-loop/lid; other site 187410005777 ABC transporter signature motif; other site 187410005778 Walker B; other site 187410005779 D-loop; other site 187410005780 H-loop/switch region; other site 187410005781 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 187410005782 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 187410005783 TM-ABC transporter signature motif; other site 187410005784 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 187410005785 Cupin domain; Region: Cupin_2; cl09118 187410005786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410005787 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410005788 putative oxidoreductase; Provisional; Region: PRK11579 187410005789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410005790 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 187410005791 Membrane transport protein; Region: Mem_trans; cl09117 187410005792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 187410005793 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 187410005794 mannose-6-phosphate isomerase; Provisional; Region: PLN03067; cl11740 187410005795 mannose-6-phosphate isomerase; Provisional; Region: PLN03067; cl11740 187410005796 fumarate hydratase; Reviewed; Region: fumC; PRK00485 187410005797 Class II fumarases; Region: Fumarase_classII; cd01362 187410005798 active site 187410005799 tetramer interface; other site 187410005800 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 187410005801 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 187410005802 putative substrate translocation pore; other site 187410005803 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 187410005804 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410005805 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 187410005806 dimerization interface; other site 187410005807 substrate binding pocket; other site 187410005808 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 187410005809 ROK family; Region: ROK; cl09121 187410005810 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 187410005811 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 187410005812 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 187410005813 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 187410005814 Cl- selectivity filter; other site 187410005815 Cl- binding residues; other site 187410005816 pore gating glutamate residue; other site 187410005817 dimer interface; other site 187410005818 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410005819 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410005820 DNA binding site 187410005821 domain linker motif; other site 187410005822 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 187410005823 dimerization interface (closed form); other site 187410005824 ligand binding site; other site 187410005825 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 187410005826 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...; Region: PBPb; cl11400 187410005827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410005828 dimer interface; other site 187410005829 conserved gate region; other site 187410005830 putative PBP binding loops; other site 187410005831 ABC-ATPase subunit interface; other site 187410005832 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 187410005833 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 187410005834 Walker A/P-loop; other site 187410005835 ATP binding site; other site 187410005836 Q-loop/lid; other site 187410005837 ABC transporter signature motif; other site 187410005838 Walker B; other site 187410005839 D-loop; other site 187410005840 H-loop/switch region; other site 187410005841 AMP nucleosidase; Provisional; Region: PRK08292 187410005842 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 187410005843 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 187410005844 ribonuclease E; Reviewed; Region: rne; PRK10811 187410005845 Virulence factor SrfB; Region: SrfB; pfam07520 187410005846 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfC; COG4458 187410005847 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 187410005848 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 187410005849 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 187410005850 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 187410005851 PYR/PP interface; other site 187410005852 dimer interface; other site 187410005853 TPP binding site; other site 187410005854 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 187410005855 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 187410005856 TPP-binding site; other site 187410005857 dimer interface; other site 187410005858 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 187410005859 putative valine binding site; other site 187410005860 dimer interface; other site 187410005861 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 187410005862 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 187410005863 motif II; other site 187410005864 tellurite resistance protein terB; Region: terB; cd07176 187410005865 putative metal binding site; other site 187410005866 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH...; Region: alkPPc; cd00016 187410005867 dimer interface; other site 187410005868 Alkaline phosphatase homologues; Region: alkPPc; smart00098 187410005869 active site 187410005870 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 187410005871 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 187410005872 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 187410005873 DNA binding site 187410005874 active site 187410005875 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 187410005876 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 187410005877 ligand binding site; other site 187410005878 flexible hinge region; other site 187410005879 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 187410005880 putative switch regulator; other site 187410005881 non-specific DNA interactions; other site 187410005882 DNA binding site 187410005883 sequence specific DNA binding site; other site 187410005884 putative cAMP binding site; other site 187410005885 universal stress protein UspE; Provisional; Region: PRK11175 187410005886 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 187410005887 Ligand Binding Site; other site 187410005888 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 187410005889 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 187410005890 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 187410005891 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 187410005892 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 187410005893 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 187410005894 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 187410005895 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410005896 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 187410005897 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 187410005898 active site 187410005899 phosphorylation site 187410005900 intermolecular recognition site; other site 187410005901 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...; Region: trans_reg_C; cd00383 187410005902 DNA binding site 187410005903 sensor protein RstB; Provisional; Region: PRK10604 187410005904 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410005905 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 trans-...; Region: HisKA; cl00080 187410005906 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 187410005907 ATP binding site; other site 187410005908 Mg2+ binding site; other site 187410005909 G-X-G motif; other site 187410005910 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 187410005911 Peptidase family M32 is a subclass of metallocarboxypeptidases which are distributed mainly in bacteria and archaea, and contain a HEXXH motif that coordinates a divalent cation such as Zn2+ or Co2+, so far only observed in the active site of neutral...; Region: M32_Taq; cd06460 187410005912 active site 187410005913 zinc binding site; other site 187410005914 Transposase IS200 like; Region: Transposase_17; cl00848 187410005915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410005916 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410005917 Integrase core domain; Region: rve; cl01316 187410005918 transposase/IS protein; Provisional; Region: PRK09183 187410005919 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...; Region: AAA; cd00009 187410005920 Walker A motif; other site 187410005921 ATP binding site; other site 187410005922 Walker B motif; other site 187410005923 Thymidine kinase; Region: TK; cl00631 187410005924 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 187410005925 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 187410005926 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 187410005927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410005928 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 187410005929 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 187410005930 response regulator of RpoS; Provisional; Region: PRK10693 187410005931 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 187410005932 active site 187410005933 phosphorylation site 187410005934 intermolecular recognition site; other site 187410005935 dimerization interface; other site 187410005936 hypothetical protein; Provisional; Region: PRK01617 187410005937 SEC-C motif; Region: SEC-C; cl12132 187410005938 Formyl transferase; Region: Formyl_trans_N; cl00395 187410005939 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 187410005940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410005941 MULE transposase domain; Region: MULE; pfam10551 187410005942 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 187410005943 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410005944 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 187410005945 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 187410005946 active site 187410005947 8-oxo-dGMP binding site; other site 187410005948 nudix motif; other site 187410005949 metal-binding site 187410005950 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 187410005951 DNA topoisomerase III; Provisional; Region: PRK09031 187410005952 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 187410005953 active site 187410005954 putative interdomain interaction site; other site 187410005955 putative metal-binding site; other site 187410005956 putative nucleotide binding site; other site 187410005957 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...; Region: TOP1Ac; cd00186 187410005958 domain I; other site 187410005959 DNA binding groove 187410005960 phosphate binding site; other site 187410005961 domain II; other site 187410005962 domain III; other site 187410005963 nucleotide binding site; other site 187410005964 catalytic site; other site 187410005965 domain IV; other site 187410005966 selenophosphate synthetase; Provisional; Region: PRK00943 187410005967 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 187410005968 dimerization interface; other site 187410005969 putative ATP binding site; other site 187410005970 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 beta-...; Region: Arsenite_oxidase; cd02135 187410005971 putative FMN binding site; other site 187410005972 protease 4; Provisional; Region: PRK10949 187410005973 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 187410005974 tandem repeat interface; other site 187410005975 oligomer interface; other site 187410005976 active site residues 187410005977 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 187410005978 tandem repeat interface; other site 187410005979 oligomer interface; other site 187410005980 active site residues 187410005981 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cd00411 187410005982 active site/substrate binding site 187410005983 tetramer interface; other site 187410005984 Isochorismatase family; Region: Isochorismatase; pfam00857 187410005985 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 187410005986 catalytic triad; other site 187410005987 metal-binding site 187410005988 conserved cis-peptide bond; other site 187410005989 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 187410005990 SelR domain; Region: SelR; cl00369 187410005991 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 187410005992 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 187410005993 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 187410005994 Aldose 1-epimerase; Region: Aldose_epim; cl00476 187410005995 MltA-interacting protein MipA; Region: MipA; cl01504 187410005996 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 187410005997 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410005998 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 187410005999 Protein of unknown function (DUF444); Region: DUF444; pfam04285 187410006000 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 187410006001 EamA-like transporter family; Region: EamA; cl01037 187410006002 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 187410006003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410006004 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_4; cd08473 187410006005 putative effector binding pocket; other site 187410006006 putative dimerization interface; other site 187410006007 Pirin-related protein [General function prediction only]; Region: COG1741 187410006008 Cupin domain; Region: Cupin_2; cl09118 187410006009 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 187410006010 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 187410006011 putative substrate translocation pore; other site 187410006012 Major Facilitator Superfamily; Region: MFS_1; pfam07690 187410006013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006014 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 187410006015 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; cl01044 187410006016 SpoVR like protein; Region: SpoVR; pfam04293 187410006017 similar to hypothetical protein 187410006018 fatty acid metabolism regulator; Provisional; Region: PRK04984 187410006019 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410006020 DNA binding site 187410006021 FCD domain; Region: FCD; cl11656 187410006022 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 187410006023 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 187410006024 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 187410006025 pyridoxal 5'-phosphate binding pocket; other site 187410006026 catalytic residue; other site 187410006027 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 187410006028 putative substrate translocation pore; other site 187410006029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410006030 MULE transposase domain; Region: MULE; pfam10551 187410006031 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 187410006032 Phage-related protein, tail component [Function unknown]; Region: COG4733 187410006033 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 187410006034 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 187410006035 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 187410006036 Prophage antirepressor [Transcription]; Region: COG3617 187410006037 BRO family, N-terminal domain; Region: Bro-N; pfam02498 187410006038 Arc-like DNA binding domain; Region: Arc; pfam03869 187410006039 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cl02432 187410006040 ligand binding surface; other site 187410006041 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 187410006042 MPN+ (JAMM) motif; other site 187410006043 Zinc-binding site; other site 187410006044 NlpC/P60 family; Region: NLPC_P60; cl11438 187410006045 Phage minor tail protein L; Region: Phage_tail_L; cl01908 187410006046 Phage minor tail protein; Region: Phage_min_tail; cl01940 187410006047 Phage-related minor tail protein [Function unknown]; Region: COG5281 187410006048 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 187410006049 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 187410006050 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 187410006051 Phage tail protein; Region: Phage_tail_3; pfam08813 187410006052 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 187410006053 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 187410006054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410006055 MULE transposase domain; Region: MULE; pfam10551 187410006056 Uncharacterized conserved protein (DUF2280); Region: DUF2280; cl02353 187410006057 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 187410006058 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 187410006059 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 187410006060 Prophage antirepressor [Transcription]; Region: COG3617 187410006061 BRO family, N-terminal domain; Region: Bro-N; pfam02498 187410006062 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 187410006063 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 187410006064 NinB protein; Region: NinB; pfam05772 187410006065 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 187410006066 transposase/IS protein; Provisional; Region: PRK09183 187410006067 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...; Region: AAA; cd00009 187410006068 Walker A motif; other site 187410006069 ATP binding site; other site 187410006070 Walker B motif; other site 187410006071 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410006072 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410006073 Integrase core domain; Region: rve; cl01316 187410006074 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 187410006075 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 187410006076 Phage integrase family; Region: Phage_integrase; pfam00589 187410006077 Int/Topo IB signature motif; other site 187410006078 Uncharacterized protein family (UPF0153); Region: UPF0153; cl00497 187410006079 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 187410006080 lytic murein transglycosylase; Region: MltB_2; TIGR02283 187410006081 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 187410006082 N-acetyl-D-glucosamine binding site; other site 187410006083 catalytic residue; other site 187410006084 YcgL domain; Region: YcgL; cl01189 187410006085 septum formation inhibitor; Reviewed; Region: minC; PRK03511 187410006086 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 187410006087 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 187410006088 cell division inhibitor MinD; Provisional; Region: PRK10818 187410006089 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...; Region: MinD; cd02036 187410006090 Switch I; other site 187410006091 Switch II; other site 187410006092 Septum formation topological specificity factor MinE; Region: MinE; cl00538 187410006093 ribonuclease D; Provisional; Region: PRK10829 187410006094 Ribonuclease (RNase) D is a bacterial enzyme involved in the maturation of small stable RNAs and the 3' maturation of tRNA. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and...; Region: RNaseD_exo; cd06142 187410006095 putative active site; other site 187410006096 catalytic site; other site 187410006097 putative substrate binding site; other site 187410006098 HRDC domain; Region: HRDC; cl02578 187410006099 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 187410006100 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410006101 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 187410006102 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 187410006103 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 187410006104 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; cl12029 187410006105 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; cl12029 187410006106 helicase superfamily c-terminal domain; Region: HELICc2; cl09250 187410006107 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 187410006108 homotrimer interaction site; other site 187410006109 putative active site; other site 187410006110 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 187410006111 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 187410006112 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 187410006113 KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best...; Region: KDPG_aldolase; cd00452 187410006114 active site 187410006115 intersubunit interface; other site 187410006116 catalytic residue; other site 187410006117 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 187410006118 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 187410006119 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 187410006120 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 187410006121 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...; Region: SIS_RpiR; cd05013 187410006122 putative active site; other site 187410006123 pyruvate kinase; Provisional; Region: PRK05826 187410006124 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; cl10032 187410006125 domain interfaces; other site 187410006126 active site 187410006127 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK08734 187410006128 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 187410006129 putative acyl-acceptor binding pocket; other site 187410006130 hypothetical protein; Provisional; Region: PRK11649 187410006131 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 187410006132 Peptidase family M23; Region: Peptidase_M23; pfam01551 187410006133 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 187410006134 metal-binding site 187410006135 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 187410006136 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 iron-...; Region: ABC_Metallic_Cations; cd03235 187410006137 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410006138 ABC-ATPase subunit interface; other site 187410006139 dimer interface; other site 187410006140 putative PBP binding regions; other site 187410006141 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 187410006142 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...; Region: AAA; cd00009 187410006143 Walker A motif; other site 187410006144 ATP binding site; other site 187410006145 Walker B motif; other site 187410006146 arginine finger; other site 187410006147 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 187410006148 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 187410006149 RuvA N terminal domain; Region: RuvA_N; pfam01330 187410006150 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 187410006151 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 187410006152 active site 187410006153 putative DNA-binding cleft; other site 187410006154 dimer interface; other site 187410006155 Domain of unknown function DUF28; Region: DUF28; cl00361 187410006156 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_7; cd04664 187410006157 nudix motif; other site 187410006158 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 187410006159 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 187410006160 dimer interface; other site 187410006161 anticodon binding site; other site 187410006162 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 187410006163 homodimer interface; other site 187410006164 motif 1; other site 187410006165 active site 187410006166 motif 2; other site 187410006167 GAD domain; Region: GAD; pfam02938 187410006168 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 187410006169 active site 187410006170 motif 3; other site 187410006171 Protein of unknown function DUF72; Region: DUF72; cl00777 187410006172 MAPEG family; Region: MAPEG; cl09190 187410006173 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 187410006174 S-adenosylmethionine binding site; other site 187410006175 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410006176 CutC family; Region: CutC; cl01218 187410006177 YecM protein; Region: YecM; cl01191 187410006178 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 187410006179 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 187410006180 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 187410006181 active site 187410006182 HIGH motif; other site 187410006183 KMSK motif region; other site 187410006184 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 187410006185 tRNA binding surface; other site 187410006186 anticodon binding site; other site 187410006187 haemagglutination activity domain; Region: Haemagg_act; cl05436 187410006188 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 187410006189 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 187410006190 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410006191 Surface antigen; Region: Bac_surface_Ag; cl03097 187410006192 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 187410006193 hypothetical protein; Provisional; Region: PRK11239 187410006194 Protein of unknown function, DUF480; Region: DUF480; cl01209 187410006195 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 187410006196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006197 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410006198 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 187410006199 multidrug resistance protein MdtH; Provisional; Region: PRK11646 187410006200 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 187410006201 putative substrate translocation pore; other site 187410006202 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 187410006203 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 187410006204 putative hydrolase; Validated; Region: PRK09248 187410006205 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 187410006206 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 187410006207 ROK family; Region: ROK; cl09121 187410006208 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 187410006209 active site 187410006210 catalytic site; other site 187410006211 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410006212 dimer interface; other site 187410006213 conserved gate region; other site 187410006214 putative PBP binding loops; other site 187410006215 ABC-ATPase subunit interface; other site 187410006216 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410006217 dimer interface; other site 187410006218 conserved gate region; other site 187410006219 putative PBP binding loops; other site 187410006220 ABC-ATPase subunit interface; other site 187410006221 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 187410006222 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 187410006223 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 187410006224 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 187410006225 putative active site; other site 187410006226 catalytic site; other site 187410006227 putative metal binding site; other site 187410006228 putative sulfate transporter YchM; Provisional; Region: PRK11660 187410006229 Permease family; Region: Xan_ur_permease; cl00967 187410006230 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 187410006231 NeuB family; Region: NeuB; cl00496 187410006232 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 187410006233 Uncharacterized conserved protein [Function unknown]; Region: COG2912 187410006234 putative transcriptional regulator; Provisional; Region: PRK10941 187410006235 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 187410006236 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 187410006237 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410006238 peptide chain release factor 1; Validated; Region: prfA; PRK00591 187410006239 RF-1 domain; Region: RF-1; cl02875 187410006240 RF-1 domain; Region: RF-1; cl02875 187410006241 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 187410006242 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 187410006243 tRNA; other site 187410006244 putative tRNA binding site; other site 187410006245 putative NADP binding site; other site 187410006246 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 187410006247 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 187410006248 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 187410006249 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 187410006250 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410006251 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 187410006252 Protein of unknown function (DUF2583); Region: DUF2583; cl11676 187410006253 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 187410006254 putative active site; other site 187410006255 catalytic residue; other site 187410006256 GTP-dependent nucleic acid-binding protein EngD; Reviewed; Region: PRK09601 187410006257 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 187410006258 G1 box; other site 187410006259 GTP/Mg2+ binding site; other site 187410006260 Switch I region; other site 187410006261 G2 box; other site 187410006262 Switch II region; other site 187410006263 G3 box; other site 187410006264 G4 box; other site 187410006265 G5 box; other site 187410006266 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 187410006267 Integrase core domain; Region: rve; cl01316 187410006268 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 187410006269 active site residue 187410006270 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 187410006271 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410006272 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 187410006273 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 187410006274 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 187410006275 active site 187410006276 phosphorylation site 187410006277 intermolecular recognition site; other site 187410006278 dimerization interface; other site 187410006279 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...; Region: trans_reg_C; cd00383 187410006280 DNA binding site 187410006281 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 187410006282 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410006283 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 trans-...; Region: HisKA; cd00082 187410006284 dimer interface; other site 187410006285 phosphorylation site 187410006286 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 187410006287 ATP binding site; other site 187410006288 Mg2+ binding site; other site 187410006289 G-X-G motif; other site 187410006290 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 187410006291 Cupin domain; Region: Cupin_2; cl09118 187410006292 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 187410006293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006294 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410006295 hypothetical protein; Provisional; Region: PRK09273 187410006296 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 187410006297 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 187410006298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 187410006299 Sel1 repeat; Region: Sel1; cl02723 187410006300 Sel1 repeat; Region: Sel1; cl02723 187410006301 Sel1 repeat; Region: Sel1; cl02723 187410006302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410006303 MULE transposase domain; Region: MULE; pfam10551 187410006304 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 187410006305 active site 187410006306 TDP-binding site; other site 187410006307 acceptor substrate-binding pocket; other site 187410006308 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 187410006309 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 187410006310 active site 187410006311 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187410006312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006313 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410006314 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187410006315 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187410006316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006318 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 187410006319 active site 187410006320 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 187410006321 active site 187410006322 salicylate synthase; Region: salicyl_syn; TIGR03494 187410006323 chorismate binding enzyme; Region: Chorismate_bind; cl10555 187410006324 HutD; Region: HutD; cl01532 187410006325 formiminoglutamate deiminase; Region: hutF; TIGR02022 187410006326 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 187410006327 active site 187410006328 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 187410006329 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410006330 DNA binding site 187410006331 UTRA domain; Region: UTRA; cl06649 187410006332 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 187410006333 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 187410006334 active site 187410006335 N-formylglutamate amidohydrolase; Region: FGase; cl01522 187410006336 transposase/IS protein; Provisional; Region: PRK09183 187410006337 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...; Region: AAA; cd00009 187410006338 Walker A motif; other site 187410006339 ATP binding site; other site 187410006340 Walker B motif; other site 187410006341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410006342 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410006343 Integrase core domain; Region: rve; cl01316 187410006344 Peptidase M14 Succinylglutamate desuccinylase (ASTE, also known as N-succinyl-L-glutamate amidohydrolase, N2-succinylglutamate desuccinylase, and SGDS; EC 3.5.1.96) belongs to the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily...; Region: M14_ASTE; cd03855 187410006345 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 187410006346 putative active site; other site 187410006347 Zn-binding site; other site 187410006348 Succinylarginine dihydrolase; Region: AstB; cl01511 187410006349 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 187410006350 NAD(P) binding site; other site 187410006351 catalytic residues; other site 187410006352 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 187410006353 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 187410006354 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 187410006355 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 187410006356 inhibitor-cofactor binding pocket; inhibition site 187410006357 pyridoxal 5'-phosphate binding site; other site 187410006358 catalytic residue; other site 187410006359 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 187410006360 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410006361 DNA binding site 187410006362 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 187410006363 pyridoxal 5'-phosphate binding site; other site 187410006364 homodimer interface; other site 187410006365 catalytic residue; other site 187410006366 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 187410006367 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410006368 Histidine kinase; Region: HisKA_3; pfam07730 187410006369 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 187410006370 ATP binding site; other site 187410006371 Mg2+ binding site; other site 187410006372 G-X-G motif; other site 187410006373 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 187410006374 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 187410006375 PhoH-like protein; Region: PhoH; cl12134 187410006376 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 187410006377 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410006378 hemin storage system protein; Provisional; Region: hmsS; PRK14584 187410006379 N-glycosyltransferase; Provisional; Region: hmsR; PRK14583 187410006380 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 187410006381 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 187410006382 DXD motif; other site 187410006383 outer membrane N-deacetylase; Provisional; Region: hmsF; PRK14581 187410006384 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 187410006385 outer membrane protein; Provisional; Region: hmsH; PRK14574 187410006386 putative endopeptidase; Provisional; Region: PRK14576 187410006387 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 187410006388 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...; Region: APP_MetAP; cd01066 187410006389 active site 187410006390 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 187410006391 tellurite resistance protein TehB; Provisional; Region: PRK12335 187410006392 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 187410006393 S-adenosylmethionine binding site; other site 187410006394 Cytochrome c; Region: Cytochrom_C; cl11414 187410006395 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...; Region: TlpA_like_family; cd02966 187410006396 catalytic residues; other site 187410006397 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 187410006398 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 187410006399 Walker A/P-loop; other site 187410006400 ATP binding site; other site 187410006401 Q-loop/lid; other site 187410006402 ABC transporter signature motif; other site 187410006403 Walker B; other site 187410006404 D-loop; other site 187410006405 H-loop/switch region; other site 187410006406 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 187410006407 Predicted permease; Region: FtsX; cl11418 187410006408 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 187410006409 Predicted permease; Region: FtsX; cl11418 187410006410 Predicted membrane protein [Function unknown]; Region: COG4393 187410006411 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 187410006412 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 187410006413 Fe2+ transport protein; Region: Iron_transport; cl01377 187410006414 Iron permease FTR1 family; Region: FTR1; cl00475 187410006415 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 187410006416 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 187410006417 Glutaminase; Region: Glutaminase; cl00907 187410006418 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 187410006419 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410006420 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 187410006421 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410006422 Amino acid permease; Region: AA_permease; pfam00324 187410006423 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 187410006424 pyridoxal 5'-phosphate binding site; other site 187410006425 homodimer interface; other site 187410006426 catalytic residue; other site 187410006427 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 187410006428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187410006429 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410006430 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 187410006431 dimerization interface; other site 187410006432 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 187410006433 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 187410006434 active site 187410006435 benzoate transport; Region: 2A0115; TIGR00895 187410006436 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 187410006437 putative substrate translocation pore; other site 187410006438 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 187410006439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410006440 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 187410006441 putative dimerization interface; other site 187410006442 putative substrate binding pocket; other site 187410006443 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 187410006444 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 187410006445 putative active site; other site 187410006446 putative catalytic site; other site 187410006447 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 187410006448 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 187410006449 transcriptional regulator FimZ; Provisional; Region: PRK09935 187410006450 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 187410006451 active site 187410006452 phosphorylation site 187410006453 intermolecular recognition site; other site 187410006454 dimerization interface; other site 187410006455 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...; Region: LuxR_C_like; cd06170 187410006456 DNA binding residues 187410006457 dimerization interface; other site 187410006458 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 187410006459 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...; Region: PBPb; cd00134 187410006460 substrate binding pocket; other site 187410006461 membrane-bound complex binding site; other site 187410006462 hinge residues; other site 187410006463 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...; Region: PBPb; cd00134 187410006464 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 187410006465 substrate binding pocket; other site 187410006466 membrane-bound complex binding site; other site 187410006467 hinge residues; other site 187410006468 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 187410006469 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 trans-...; Region: HisKA; cl00080 187410006470 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 187410006471 ATP binding site; other site 187410006472 Mg2+ binding site; other site 187410006473 G-X-G motif; other site 187410006474 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 187410006475 active site 187410006476 phosphorylation site 187410006477 intermolecular recognition site; other site 187410006478 dimerization interface; other site 187410006479 Fimbrial protein; Region: Fimbrial; cl01416 187410006480 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410006481 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410006482 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 187410006483 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410006484 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410006485 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410006486 integrase; Provisional; Region: PRK09692 187410006487 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 187410006488 Int/Topo IB signature motif; other site 187410006489 active site 187410006490 salicylate synthase Irp9; Reviewed; Region: PRK06772 187410006491 chorismate binding enzyme; Region: Chorismate_bind; cl10555 187410006492 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 187410006493 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 187410006494 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410006495 Walker A/P-loop; other site 187410006496 ATP binding site; other site 187410006497 Q-loop/lid; other site 187410006498 ABC transporter signature motif; other site 187410006499 Walker B; other site 187410006500 D-loop; other site 187410006501 H-loop/switch region; other site 187410006502 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410006503 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 187410006504 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410006505 Walker A/P-loop; other site 187410006506 ATP binding site; other site 187410006507 Q-loop/lid; other site 187410006508 ABC transporter signature motif; other site 187410006509 Walker B; other site 187410006510 D-loop; other site 187410006511 H-loop/switch region; other site 187410006512 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 187410006513 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410006514 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187410006515 Condensation domain; Region: Condensation; cl09290 187410006516 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 187410006517 Nonribosomal peptide synthase; Region: NRPS; pfam08415 187410006518 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410006519 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410006520 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410006521 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187410006522 Condensation domain; Region: Condensation; cl09290 187410006523 Nonribosomal peptide synthase; Region: NRPS; pfam08415 187410006524 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187410006525 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 187410006526 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 187410006527 active site 187410006528 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 187410006529 Acyl transferase domain; Region: Acyl_transf_1; cl08282 187410006530 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410006531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006532 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187410006533 Condensation domain; Region: Condensation; cl09290 187410006534 Nonribosomal peptide synthase; Region: NRPS; pfam08415 187410006535 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410006536 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187410006537 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 187410006538 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 187410006539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006540 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 187410006541 Thioesterase domain; Region: Thioesterase; pfam00975 187410006542 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 187410006543 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410006544 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410006545 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187410006546 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 187410006547 N-terminal plug; other site 187410006548 ligand-binding site; other site 187410006549 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 187410006550 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 187410006551 Haemolysin expression modulating protein; Region: HHA; cl11501 187410006552 transposase/IS protein; Provisional; Region: PRK09183 187410006553 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...; Region: AAA; cd00009 187410006554 Walker A motif; other site 187410006555 ATP binding site; other site 187410006556 Walker B motif; other site 187410006557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410006558 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410006559 Integrase core domain; Region: rve; cl01316 187410006560 TOBE domain; Region: TOBE_2; cl01440 187410006561 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 187410006562 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 187410006563 Walker A/P-loop; other site 187410006564 ATP binding site; other site 187410006565 Q-loop/lid; other site 187410006566 ABC transporter signature motif; other site 187410006567 Walker B; other site 187410006568 D-loop; other site 187410006569 H-loop/switch region; other site 187410006570 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410006571 dimer interface; other site 187410006572 conserved gate region; other site 187410006573 putative PBP binding loops; other site 187410006574 ABC-ATPase subunit interface; other site 187410006575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410006576 dimer interface; other site 187410006577 conserved gate region; other site 187410006578 putative PBP binding loops; other site 187410006579 ABC-ATPase subunit interface; other site 187410006580 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 187410006581 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 187410006582 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 187410006583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006584 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 187410006585 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 187410006586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410006587 DNA binding site 187410006588 UTRA domain; Region: UTRA; cl06649 187410006589 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410006590 Transposase, Mutator family; Region: Transposase_mut; pfam00872 187410006591 MULE transposase domain; Region: MULE; pfam10551 187410006592 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl01450 187410006593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 187410006594 Protein of unknown function (DUF497); Region: DUF497; cl01108 187410006595 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 187410006596 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 187410006597 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 187410006598 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 187410006599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 187410006600 Integrase core domain; Region: rve; cl01316 187410006601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410006602 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 187410006603 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 187410006604 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 187410006605 UvrB/uvrC motif; Region: UVR; pfam02151 187410006606 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 187410006607 response regulator; Provisional; Region: PRK09483 187410006608 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 187410006609 active site 187410006610 phosphorylation site 187410006611 intermolecular recognition site; other site 187410006612 dimerization interface; other site 187410006613 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...; Region: LuxR_C_like; cd06170 187410006614 DNA binding residues 187410006615 dimerization interface; other site 187410006616 GlpM protein; Region: GlpM; cl01212 187410006617 Surface antigen; Region: Surface_Ag_2; cl01155 187410006618 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410006619 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 187410006620 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 187410006621 Kelch motif; Region: Kelch_1; cl02701 187410006622 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410006623 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 187410006624 Imelysin; Region: Peptidase_M75; cl09159 187410006625 Iron permease FTR1 family; Region: FTR1; cl00475 187410006626 Sodium:solute symporter family; Region: SSF; cl00456 187410006627 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 187410006628 Predicted transcriptional regulator [Transcription]; Region: COG3905 187410006629 Proline dehydrogenase; Region: Pro_dh; cl03282 187410006630 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 187410006631 Glutamate binding site; other site 187410006632 NAD binding site; other site 187410006633 catalytic residues; other site 187410006634 Predicted transcriptional regulator [Transcription]; Region: COG4190 187410006635 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 187410006636 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; Region: ABC_HisP_GlnQ_permeases; cd03262 187410006637 Walker A/P-loop; other site 187410006638 ATP binding site; other site 187410006639 Q-loop/lid; other site 187410006640 ABC transporter signature motif; other site 187410006641 Walker B; other site 187410006642 D-loop; other site 187410006643 H-loop/switch region; other site 187410006644 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 187410006645 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410006646 dimer interface; other site 187410006647 conserved gate region; other site 187410006648 putative PBP binding loops; other site 187410006649 ABC-ATPase subunit interface; other site 187410006650 cystine transporter subunit; Provisional; Region: PRK11260 187410006651 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...; Region: PBPb; cd00134 187410006652 substrate binding pocket; other site 187410006653 membrane-bound complex binding site; other site 187410006654 hinge residues; other site 187410006655 1-aminocyclopropane-1-carboxylate deaminase; Provisional; Region: PRK14045 187410006656 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 187410006657 pyridoxal 5'-phosphate binding pocket; other site 187410006658 catalytic residue; other site 187410006659 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 187410006660 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 187410006661 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187410006662 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 187410006663 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...; Region: Sigma70_r4; cd06171 187410006664 DNA binding residues 187410006665 flagellin; Validated; Region: PRK06819 187410006666 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 187410006667 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 187410006668 flagellar capping protein; Reviewed; Region: fliD; PRK08032 187410006669 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 187410006670 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 187410006671 Flagellar protein FliS; Region: FliS; cl00654 187410006672 Flagellar protein FliT; Region: FliT; cl05125 187410006673 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 187410006674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410006675 two-component sensor protein; Provisional; Region: cpxA; PRK09470 187410006676 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 187410006677 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 187410006678 minor groove reading motif; other site 187410006679 helix-hairpin-helix signature motif; other site 187410006680 active site 187410006681 Fic/DOC family; Region: Fic; cl00960 187410006682 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 187410006683 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 187410006684 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 187410006685 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 187410006686 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 187410006687 FliG C-terminal domain; Region: FliG_C; pfam01706 187410006688 flagellar assembly protein H; Validated; Region: fliH; PRK05687 187410006689 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 187410006690 Flagellar assembly protein FliH; Region: FliH; pfam02108 187410006691 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 187410006692 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 187410006693 Walker A motif/ATP binding site; other site 187410006694 Walker B motif; other site 187410006695 Flagellar FliJ protein; Region: FliJ; cl09161 187410006696 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 187410006697 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 187410006698 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 187410006699 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 187410006700 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 187410006701 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 187410006702 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 187410006703 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 187410006704 FliP family; Region: FliP; cl00593 187410006705 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 187410006706 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 187410006707 YcfA-like protein; Region: YcfA; cl00752 187410006708 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 187410006709 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 187410006710 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 187410006711 substrate binding site; other site 187410006712 ATP binding site; other site 187410006713 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 187410006714 TM-ABC transporter signature motif; other site 187410006715 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410006716 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...; Region: ABC_Carb_Monos_I; cd03216 187410006717 Walker A/P-loop; other site 187410006718 ATP binding site; other site 187410006719 Q-loop/lid; other site 187410006720 ABC transporter signature motif; other site 187410006721 Walker B; other site 187410006722 D-loop; other site 187410006723 H-loop/switch region; other site 187410006724 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 187410006725 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410006726 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 187410006727 ligand binding site; other site 187410006728 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 187410006729 TM-ABC transporter signature motif; other site 187410006730 short chain dehydrogenase; Validated; Region: PRK08324 187410006731 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 187410006732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006733 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 187410006734 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 187410006735 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 187410006736 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 187410006737 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 187410006738 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 187410006739 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 187410006740 Rod binding protein; Region: Rod-binding; cl01626 187410006741 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 187410006742 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 187410006743 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 187410006744 Flagellar L-ring protein; Region: FlgH; cl00905 187410006745 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 187410006746 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 187410006747 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12643 187410006748 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 187410006749 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 187410006750 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 187410006751 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 187410006752 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 187410006753 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 187410006754 Flagellar hook capping protein; Region: FlgD; cl04347 187410006755 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 187410006756 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 187410006757 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 187410006758 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl09471 187410006759 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 187410006760 SAF domain; Region: SAF; cl00555 187410006761 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 187410006762 FlgN protein; Region: FlgN; cl09176 187410006763 Flagellar protein FlhE; Region: FlhE; pfam06366 187410006764 FHIPEP family; Region: FHIPEP; cl07980 187410006765 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 187410006766 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 187410006767 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 187410006768 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 187410006769 Copper resistance protein D; Region: CopD; cl00563 187410006770 Copper resistance protein CopC; Region: CopC; cl01012 187410006771 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 187410006772 Ferritin-like domain; Region: Ferritin; pfam00210 187410006773 ferroxidase diiron center; other site 187410006774 DNA polymerase III, theta subunit; Region: DNA_pol3_theta; cl11635 187410006775 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 187410006776 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 187410006777 protease 2; Provisional; Region: PRK10115 187410006778 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 187410006779 hypothetical protein; Provisional; Region: PRK13680 187410006780 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function...; Region: ASCH_yqfb_like; cd06552 187410006781 YebG protein; Region: YebG; cl01217 187410006782 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 187410006783 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 187410006784 ATP binding site; other site 187410006785 Mg++ binding site; other site 187410006786 motif III; other site 187410006787 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 187410006788 nucleotide binding region; other site 187410006789 ATP-binding site; other site 187410006790 DbpA RNA binding domain; Region: DbpA; pfam03880 187410006791 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 187410006792 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410006793 Uncharacterized protein family (UPF0181); Region: UPF0181; cl11477 187410006794 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 187410006795 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 187410006796 chorismate binding enzyme; Region: Chorismate_bind; cl10555 187410006797 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 187410006798 putative active site; other site 187410006799 putative CoA binding site; other site 187410006800 nudix motif; other site 187410006801 metal-binding site 187410006802 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 187410006803 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 187410006804 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 187410006805 Flavin Reductases; Region: FlaRed; cl00801 187410006806 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 187410006807 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 187410006808 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 187410006809 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 187410006810 putative substrate translocation pore; other site 187410006811 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 187410006812 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 187410006813 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 187410006814 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 187410006815 trimer interface; other site 187410006816 putative substrate binding pocket; other site 187410006817 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 187410006818 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 187410006819 putative active site; other site 187410006820 putative metal binding site; other site 187410006821 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 187410006822 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 187410006823 NAD binding site; other site 187410006824 catalytic residues; other site 187410006825 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410006826 Transcriptional regulators [Transcription]; Region: MarR; COG1846 187410006827 Integral membrane protein TerC family; Region: TerC; cl10468 187410006828 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 187410006829 Transporter associated domain; Region: CorC_HlyC; pfam03471 187410006830 Integral membrane protein TerC family; Region: TerC; cl10468 187410006831 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...; Region: PTS_IIA_man; cd00006 187410006832 active pocket/dimerization site; other site 187410006833 active site 187410006834 Mannose/sorbose specific IIB 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 is one of four...; Region: PTS_IIB_man; cd00001 187410006835 active site 187410006836 phosphorylation site 187410006837 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 187410006838 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 187410006839 Protein of unknown function (DUF986); Region: DUF986; cl01983 187410006840 hypothetical protein; Provisional; Region: PRK11469 187410006841 Domain of unknown function DUF; Region: DUF204; pfam02659 187410006842 Domain of unknown function DUF; Region: DUF204; pfam02659 187410006843 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187410006844 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 187410006845 N-terminal plug; other site 187410006846 ligand-binding site; other site 187410006847 PAS domain S-box; Region: sensory_box; TIGR00229 187410006848 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 187410006849 putative active site; other site 187410006850 heme pocket; other site 187410006851 PAS domain S-box; Region: sensory_box; TIGR00229 187410006852 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 187410006853 putative active site; other site 187410006854 heme pocket; other site 187410006855 PAS fold; Region: PAS_4; pfam08448 187410006856 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 187410006857 putative active site; other site 187410006858 heme pocket; other site 187410006859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187410006860 metal-binding site 187410006861 active site 187410006862 I-site; other site 187410006863 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 187410006864 S-adenosylmethionine binding site; other site 187410006865 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 187410006866 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 187410006867 DNA binding site 187410006868 RNA-binding motif; other site 187410006869 Antimicrobial peptide resistance and lipid A acylation protein PagP; Region: PagP; cl06181 187410006870 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410006871 Amino acid permease; Region: AA_permease; pfam00324 187410006872 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 187410006873 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 187410006874 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 187410006875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410006876 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 187410006877 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410006878 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 187410006879 Walker A/P-loop; other site 187410006880 ATP binding site; other site 187410006881 Q-loop/lid; other site 187410006882 ABC transporter signature motif; other site 187410006883 Walker B; other site 187410006884 D-loop; other site 187410006885 H-loop/switch region; other site 187410006886 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 187410006887 ATP binding site; other site 187410006888 YCII-related domain; Region: YCII; cl00999 187410006889 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 187410006890 transposase/IS protein; Provisional; Region: PRK09183 187410006891 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...; Region: AAA; cd00009 187410006892 Walker A motif; other site 187410006893 ATP binding site; other site 187410006894 Walker B motif; other site 187410006895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410006896 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410006897 Integrase core domain; Region: rve; cl01316 187410006898 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410006899 DNA binding site 187410006900 domain linker motif; other site 187410006901 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 187410006902 ligand binding site; other site 187410006903 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410006904 MULE transposase domain; Region: MULE; pfam10551 187410006905 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 187410006906 galactoside permease; Reviewed; Region: lacY; PRK09528 187410006907 putative substrate translocation pore; other site 187410006908 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 187410006909 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-...; Region: GH31; cl11402 187410006910 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 187410006911 hypothetical protein; Region: PHA02054 187410006912 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 187410006913 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 187410006914 DctM-like transporters; Region: DctM; pfam06808 187410006915 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; cl09110 187410006916 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 187410006917 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 187410006918 active site 187410006919 phosphorylation site 187410006920 intermolecular recognition site; other site 187410006921 dimerization interface; other site 187410006922 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...; Region: LuxR_C_like; cd06170 187410006923 DNA binding residues 187410006924 dimerization interface; other site 187410006925 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 187410006926 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 187410006927 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 187410006928 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 187410006929 Major Facilitator Superfamily; Region: MFS_1; pfam07690 187410006930 putative substrate translocation pore; other site 187410006931 hypothetical protein; Provisional; Region: PRK10189 187410006932 MatE; Region: MatE; pfam01554 187410006933 MatE; Region: MatE; pfam01554 187410006934 argininosuccinate synthase; Validated; Region: PRK05370 187410006935 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 187410006936 Ligand Binding Site; other site 187410006937 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 187410006938 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 187410006939 phosphate binding site; other site 187410006940 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 187410006941 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 187410006942 putative active site pocket; other site 187410006943 metal-binding site 187410006944 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 187410006945 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 187410006946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006947 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 187410006948 Protein of unknown function, DUF393; Region: DUF393; cl01136 187410006949 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 187410006950 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 187410006951 putative substrate translocation pore; other site 187410006952 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 187410006953 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410006954 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410006955 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410006956 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410006957 MULE transposase domain; Region: MULE; pfam10551 187410006958 Protein of unknown function (DUF496); Region: DUF496; cl09955 187410006959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006960 exonuclease I; Provisional; Region: sbcB; PRK11779 187410006961 This subfamily is composed of the N-terminal domain of E. coli exonuclease I (ExoI) and similar proteins. ExoI is a monomeric enzyme that hydrolyzes single stranded DNA in the 3' to 5' direction. It plays a role in DNA recombination and repair. It...; Region: ExoI_N; cd06138 187410006962 active site 187410006963 substrate binding site; other site 187410006964 catalytic site; other site 187410006965 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 187410006966 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 187410006967 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410006968 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 187410006969 putative active site; other site 187410006970 metal-binding site 187410006971 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 187410006972 TM-ABC transporter signature motif; other site 187410006973 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187410006974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410006975 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 187410006976 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...; Region: PBPb; cl11400 187410006977 HisG, C-terminal domain; Region: HisG_C; cl06867 187410006978 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 187410006979 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 187410006980 NAD binding site; other site 187410006981 dimerization interface; other site 187410006982 product binding site; other site 187410006983 substrate binding site; other site 187410006984 zinc binding site; other site 187410006985 catalytic residues; other site 187410006986 histidinol-phosphate aminotransferase; Provisional; Region: PRK04781 187410006987 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 187410006988 pyridoxal 5'-phosphate binding site; other site 187410006989 homodimer interface; other site 187410006990 catalytic residue; other site 187410006991 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 187410006992 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 187410006993 active site 187410006994 motif I; other site 187410006995 motif II; other site 187410006996 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 187410006997 putative active site pocket; other site 187410006998 4-fold oligomerization interface; other site 187410006999 metal binding residues; metal-binding site 187410007000 3-fold/trimer interface; other site 187410007001 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 187410007002 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 187410007003 putative active site; other site 187410007004 oxyanion strand; other site 187410007005 catalytic triad; other site 187410007006 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 187410007007 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 187410007008 catalytic residues; other site 187410007009 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)-formimino-5-; Region: HisF; cd04731 187410007010 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 187410007011 substrate binding site; other site 187410007012 glutamase interaction surface; other site 187410007013 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 187410007014 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 187410007015 Phosphoribosyl-ATP pyrophosphohydrolase; Region: PRA-PH; cl00345 187410007016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007017 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 187410007018 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 187410007019 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 187410007020 active site 187410007021 tetramer interface; other site 187410007022 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 187410007023 active site 187410007024 tetramer interface; other site 187410007025 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 187410007026 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 187410007027 N-terminal plug; other site 187410007028 ligand-binding site; other site 187410007029 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 187410007030 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...; Region: FhuD; cd01146 187410007031 siderophore binding site; other site 187410007032 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410007033 ABC-ATPase subunit interface; other site 187410007034 dimer interface; other site 187410007035 putative PBP binding regions; other site 187410007036 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410007037 ABC-ATPase subunit interface; other site 187410007038 dimer interface; other site 187410007039 putative PBP binding regions; other site 187410007040 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 187410007041 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 187410007042 Walker A/P-loop; other site 187410007043 ATP binding site; other site 187410007044 Q-loop/lid; other site 187410007045 ABC transporter signature motif; other site 187410007046 Walker B; other site 187410007047 D-loop; other site 187410007048 H-loop/switch region; other site 187410007049 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 187410007050 IucA / IucC family; Region: IucA_IucC; pfam04183 187410007051 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 187410007052 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 187410007053 Siderophore biosynthesis protein domain; Region: AlcB; pfam10331 187410007054 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 187410007055 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 187410007056 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 187410007057 pyridoxal 5'-phosphate binding site; other site 187410007058 catalytic residue; other site 187410007059 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 187410007060 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 187410007061 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 187410007062 Integral membrane protein TerC family; Region: TerC; cl10468 187410007063 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 187410007064 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 187410007065 Transporter associated domain; Region: CorC_HlyC; pfam03471 187410007066 putative assembly protein; Provisional; Region: PRK10833 187410007067 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 187410007068 trimer interface; other site 187410007069 active site 187410007070 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 187410007071 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage...; Region: UMPK; cd02023 187410007072 ATP-binding site; other site 187410007073 Sugar specificity; other site 187410007074 Pyrimidine base specificity; other site 187410007075 putative ATPase; Provisional; Region: PRK11670 187410007076 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 187410007077 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 187410007078 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 187410007079 active site 187410007080 HIGH motif; other site 187410007081 KMSKS motif; other site 187410007082 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 187410007083 tRNA binding surface; other site 187410007084 anticodon binding site; other site 187410007085 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 187410007086 dimer interface; other site 187410007087 putative tRNA-binding site; other site 187410007088 Transposase IS200 like; Region: Transposase_17; cl00848 187410007089 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410007090 Methylthioribose-binding protein-like of 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_methylthioribose_binding_like; cd06305 187410007091 putative ligand binding site; other site 187410007092 Uncharacterized conserved protein [Function unknown]; Region: COG5276 187410007093 putative MFS-type transporter YdeE; Provisional; Region: PRK10054 187410007094 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 187410007095 putative substrate translocation pore; other site 187410007096 LrgA family; Region: LrgA; cl00608 187410007097 LrgB-like family; Region: LrgB; cl00596 187410007098 cytidine deaminase; Provisional; Region: PRK09027 187410007099 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 187410007100 active site 187410007101 catalytic motif; other site 187410007102 Zn binding site; other site 187410007103 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 187410007104 active site 187410007105 catalytic motif; other site 187410007106 Zn binding site; other site 187410007107 malate dehydrogenase; Provisional; Region: PRK13529 187410007108 Malic enzyme, N-terminal domain; Region: malic; pfam00390 187410007109 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 187410007110 NAD(P) binding site; other site 187410007111 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 187410007112 putative active site; other site 187410007113 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 187410007114 TM-ABC transporter signature motif; other site 187410007115 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410007116 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 187410007117 Walker A/P-loop; other site 187410007118 ATP binding site; other site 187410007119 Q-loop/lid; other site 187410007120 ABC transporter signature motif; other site 187410007121 Walker B; other site 187410007122 D-loop; other site 187410007123 H-loop/switch region; other site 187410007124 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 187410007125 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410007126 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 187410007127 ligand binding site; other site 187410007128 calcium binding site; other site 187410007129 Predicted membrane protein [Function unknown]; Region: COG2311 187410007130 Protein of unknown function (DUF418); Region: DUF418; cl12135 187410007131 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 187410007132 GTP cyclohydrolase I; Provisional; Region: PLN03044 187410007133 active site 187410007134 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 187410007135 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187410007136 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410007137 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 187410007138 putative dimerization interface; other site 187410007139 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 187410007140 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 187410007141 substrate binding site; other site 187410007142 catalytic Zn binding site; other site 187410007143 NAD binding site; other site 187410007144 structural Zn binding site; other site 187410007145 dimer interface; other site 187410007146 Predicted esterase [General function prediction only]; Region: COG0627 187410007147 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 187410007148 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 187410007149 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 187410007150 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 187410007151 Walker A/P-loop; other site 187410007152 ATP binding site; other site 187410007153 Q-loop/lid; other site 187410007154 ABC transporter signature motif; other site 187410007155 Walker B; other site 187410007156 D-loop; other site 187410007157 H-loop/switch region; other site 187410007158 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 187410007159 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 187410007160 FeS/SAM binding site; other site 187410007161 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 187410007162 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 187410007163 dimer interface; other site 187410007164 putative functional site; other site 187410007165 putative MPT binding site; other site 187410007166 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 187410007167 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...; Region: ThiF_MoeB_HesA_family; cd00757 187410007168 ATP binding site; other site 187410007169 substrate interface; other site 187410007170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410007171 MULE transposase domain; Region: MULE; pfam10551 187410007172 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 187410007173 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410007174 Walker A/P-loop; other site 187410007175 ATP binding site; other site 187410007176 Q-loop/lid; other site 187410007177 ABC transporter signature motif; other site 187410007178 Walker B; other site 187410007179 D-loop; other site 187410007180 H-loop/switch region; other site 187410007181 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...; Region: ABCF_EF-3; cd03221 187410007182 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 187410007183 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 187410007184 ImpA domain protein; Region: DUF3702; pfam12486 187410007185 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 187410007186 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 187410007187 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521; cl01405 187410007188 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 187410007189 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 187410007190 Uncharacterized conserved protein [Function unknown]; Region: COG4104 187410007191 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 187410007192 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 187410007193 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 187410007194 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 187410007195 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 187410007196 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 187410007197 Peptidase family M23; Region: Peptidase_M23; pfam01551 187410007198 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 187410007199 Peptidase family M23; Region: Peptidase_M23; pfam01551 187410007200 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 187410007201 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 187410007202 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 187410007203 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 187410007204 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...; Region: AAA; cd00009 187410007205 Walker A motif; other site 187410007206 ATP binding site; other site 187410007207 Walker B motif; other site 187410007208 arginine finger; other site 187410007209 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...; Region: AAA; cd00009 187410007210 Walker A motif; other site 187410007211 ATP binding site; other site 187410007212 Walker B motif; other site 187410007213 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 187410007214 Protein of unknown function (DUF796); Region: DUF796; cl01226 187410007215 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187410007216 ligand binding site; other site 187410007217 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 187410007218 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 187410007219 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 187410007220 Protein of unknown function (DUF877); Region: DUF877; pfam05943 187410007221 Protein of unknown function (DUF770); Region: DUF770; cl01402 187410007222 Acyl transferase domain; Region: Acyl_transf_1; cl08282 187410007223 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 187410007224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007225 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 187410007226 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 187410007227 substrate binding site; other site 187410007228 oxyanion hole (OAH) forming residues; other site 187410007229 trimer interface; other site 187410007230 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 187410007231 substrate binding site; other site 187410007232 oxyanion hole (OAH) forming residues; other site 187410007233 trimer interface; other site 187410007234 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 187410007235 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by...; Region: init_cond_enzymes; cd00827 187410007236 dimer interface; other site 187410007237 active site 187410007238 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 187410007239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007240 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 187410007241 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 187410007242 dimer interface; other site 187410007243 active site 187410007244 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 187410007245 active site 2 187410007246 active site 1 187410007247 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 187410007248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007249 FemAB family; Region: FemAB; cl11444 187410007250 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 187410007251 FAD binding domain; Region: FAD_binding_4; cl10516 187410007252 Integrase core domain; Region: rve; cl01316 187410007253 Integrase core domain; Region: rve; cl01316 187410007254 DsrC like protein; Region: DsrC; cl01101 187410007255 Acylphosphatase; Region: Acylphosphatase; cl00551 187410007256 PUA domain; Region: PUA; cl00607 187410007257 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 187410007258 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 187410007259 S-adenosylmethionine binding site; other site 187410007260 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 187410007261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007262 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 187410007263 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 187410007264 active site 187410007265 dimer interfaces; other site 187410007266 catalytic residues; other site 187410007267 DNA helicase IV; Provisional; Region: helD; PRK11054 187410007268 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 187410007269 UvrD/REP helicase; Region: UvrD-helicase; cl14126 187410007270 Predicted membrane protein [Function unknown]; Region: COG3304 187410007271 Domain of unknown function (DUF307); Region: DUF307; pfam03733 187410007272 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 187410007273 hypothetical membrane protein, TIGR01666; Region: YCCS 187410007274 TfoX N-terminal domain; Region: TfoX_N; cl01167 187410007275 TfoX N-terminal domain; Region: TfoX_N; cl01167 187410007276 Cell division inhibitor SulA; Region: SulA; cl01880 187410007277 outer membrane protein A; Reviewed; Region: PRK10808 187410007278 Surface antigen; Region: Surface_Ag_2; cl01155 187410007279 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187410007280 ligand binding site; other site 187410007281 Transposase IS200 like; Region: Transposase_17; cl00848 187410007282 Organiser of macrodomain of Terminus of chromosome; Region: MatP; cl11476 187410007283 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 187410007284 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 187410007285 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 187410007286 active site 2 187410007287 dimer interface; other site 187410007288 active site 1 187410007289 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 187410007290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410007291 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410007292 Integrase core domain; Region: rve; cl01316 187410007293 transposase/IS protein; Provisional; Region: PRK09183 187410007294 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...; Region: AAA; cd00009 187410007295 Walker A motif; other site 187410007296 ATP binding site; other site 187410007297 Walker B motif; other site 187410007298 3-oxoacyl-(acyl carrier protein) synthase II; Provisional; Region: PRK14691 187410007299 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 187410007300 dimer interface; other site 187410007301 active site 187410007302 Transposase IS200 like; Region: Transposase_17; cl00848 187410007303 Protein of unknown function (DUF330); Region: DUF330; cl01135 187410007304 paraquat-inducible protein B; Provisional; Region: PRK10807 187410007305 mce related protein; Region: MCE; pfam02470 187410007306 mce related protein; Region: MCE; pfam02470 187410007307 mce related protein; Region: MCE; pfam02470 187410007308 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 187410007309 Paraquat-inducible protein A; Region: PqiA; pfam04403 187410007310 Paraquat-inducible protein A; Region: PqiA; pfam04403 187410007311 ABC transporter ATPase component; Reviewed; Region: PRK11147 187410007312 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...; Region: ABCF_EF-3; cd03221 187410007313 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410007314 Walker A/P-loop; other site 187410007315 ATP binding site; other site 187410007316 Q-loop/lid; other site 187410007317 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...; Region: ABCF_EF-3; cd03221 187410007318 ABC transporter signature motif; other site 187410007319 Walker B; other site 187410007320 D-loop; other site 187410007321 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...; Region: ABCF_EF-3; cd03221 187410007322 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 187410007323 THUMP domain; Region: THUMP; cl12076 187410007324 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410007325 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410007326 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 187410007327 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 187410007328 MOSC domain; Region: MOSC; pfam03473 187410007329 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 187410007330 catalytic loop; other site 187410007331 iron binding site; other site 187410007332 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 187410007333 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...; Region: DHOD_2_like; cd04738 187410007334 quinone interaction residues; other site 187410007335 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 187410007336 active site 187410007337 catalytic residues; other site 187410007338 FMN binding site; other site 187410007339 substrate binding site; other site 187410007340 aminopeptidase N; Provisional; Region: pepN; PRK14015 187410007341 Peptidase family M1; Region: Peptidase_M1; pfam01433 187410007342 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 187410007343 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: PncB_like; cd01401 187410007344 active site 187410007345 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 187410007346 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (...; Region: EcAsnRS_like_N; cd04318 187410007347 putative dimer interface; other site 187410007348 putative anticodon binding site; other site 187410007349 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well...; Region: AsxRS_core; cd00776 187410007350 homodimer interface; other site 187410007351 motif 1; other site 187410007352 motif 2; other site 187410007353 active site 187410007354 motif 3; other site 187410007355 outer membrane protein F; Provisional; Region: PRK10002 187410007356 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 187410007357 trimer interface; other site 187410007358 eyelet of channel; other site 187410007359 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 187410007360 pyridoxal 5'-phosphate binding site; other site 187410007361 homodimer interface; other site 187410007362 catalytic residue; other site 187410007363 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187410007364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 187410007365 Peptidase M15; Region: Peptidase_M15_3; cl01194 187410007366 hypothetical protein; Provisional; Region: PRK10594 187410007367 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 187410007368 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187410007369 Transposase IS200 like; Region: Transposase_17; cl00848 187410007370 cell division protein MukB; Provisional; Region: mukB; PRK04863 187410007371 MukB N-terminal; Region: MukB; pfam04310 187410007372 MukE-like family; Region: MukE; cl11471 187410007373 KicB killing factor; Region: KicB; cl11468 187410007374 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 187410007375 S-adenosylmethionine binding site; other site 187410007376 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 187410007377 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 187410007378 Ligand binding site; other site 187410007379 oligomer interface; other site 187410007380 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 187410007381 DNA binding site 187410007382 RNA-binding motif; other site 187410007383 Protein of unknown function (DUF1338); Region: DUF1338; cl02226 187410007384 Protein of unknown function (DUF1338); Region: DUF1338; cl02226 187410007385 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 187410007386 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 187410007387 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 187410007388 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410007389 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 187410007390 Walker A/P-loop; other site 187410007391 ATP binding site; other site 187410007392 Q-loop/lid; other site 187410007393 ABC transporter signature motif; other site 187410007394 Walker B; other site 187410007395 D-loop; other site 187410007396 H-loop/switch region; other site 187410007397 Competence protein; Region: Competence; cl00471 187410007398 hypothetical protein; Provisional; Region: PRK11539 187410007399 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187410007400 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 higher...; Region: HU_IHF; cd00591 187410007401 IHF dimer interface; other site 187410007402 IHF - DNA interface; other site 187410007403 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 187410007404 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 187410007405 RNA binding site; other site 187410007406 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 187410007407 RNA binding site; other site 187410007408 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 187410007409 RNA binding site; other site 187410007410 S1_RPS1_repeat_ec4: 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_ec4; cd05689 187410007411 RNA binding site; other site 187410007412 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 187410007413 RNA binding site; other site 187410007414 S1_RPS1_repeat_ec6: 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_ec6; cd05691 187410007415 RNA binding site; other site 187410007416 cytidylate kinase; Provisional; Region: cmk; PRK00023 187410007417 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 187410007418 CMP-binding site; other site 187410007419 The sites determining sugar specificity; other site 187410007420 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 187410007421 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 187410007422 hinge; other site 187410007423 active site 187410007424 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active...; Region: PSAT_like; cd00611 187410007425 homodimer interface; other site 187410007426 substrate-cofactor binding pocket; other site 187410007427 pyridoxal 5'-phosphate binding site; other site 187410007428 catalytic residue; other site 187410007429 YadA-like C-terminal region; Region: YadA; pfam03895 187410007430 flagellin; Validated; Region: PRK08026 187410007431 YadA-like C-terminal region; Region: YadA; pfam03895 187410007432 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cd00411 187410007433 tetramer interface; other site 187410007434 active site/substrate binding site 187410007435 YcaO-like family; Region: YcaO; cl09146 187410007436 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 187410007437 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 187410007438 Pyruvate formate lyase 1; Region: PFL1; cd01678 187410007439 coenzyme A binding site; other site 187410007440 active site 187410007441 catalytic residues; other site 187410007442 glycine loop; other site 187410007443 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 187410007444 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 187410007445 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 187410007446 FeS/SAM binding site; other site 187410007447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410007448 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410007449 Integrase core domain; Region: rve; cl01316 187410007450 transposase/IS protein; Provisional; Region: PRK09183 187410007451 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...; Region: AAA; cd00009 187410007452 Walker A motif; other site 187410007453 ATP binding site; other site 187410007454 Walker B motif; other site 187410007455 seryl-tRNA synthetase; Provisional; Region: PRK05431 187410007456 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 187410007457 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 187410007458 dimer interface; other site 187410007459 active site 187410007460 motif 1; other site 187410007461 motif 2; other site 187410007462 motif 3; other site 187410007463 recombination factor protein RarA; Reviewed; Region: PRK13342 187410007464 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...; Region: AAA; cd00009 187410007465 Walker A motif; other site 187410007466 ATP binding site; other site 187410007467 Walker B motif; other site 187410007468 arginine finger; other site 187410007469 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 187410007470 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 187410007471 DNA translocase FtsK; Provisional; Region: PRK10263 187410007472 DNA translocase FtsK; Provisional; Region: PRK10263 187410007473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410007474 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 187410007475 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 187410007476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410007477 thioredoxin reductase; Provisional; Region: PRK10262 187410007478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007479 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 187410007480 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410007481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410007482 Walker A/P-loop; other site 187410007483 ATP binding site; other site 187410007484 Q-loop/lid; other site 187410007485 ABC transporter signature motif; other site 187410007486 Walker B; other site 187410007487 D-loop; other site 187410007488 H-loop/switch region; other site 187410007489 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 187410007490 The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd...; Region: ABCC_cytochrome_bd; cd03247 187410007491 Walker A/P-loop; other site 187410007492 ATP binding site; other site 187410007493 Q-loop/lid; other site 187410007494 ABC transporter signature motif; other site 187410007495 Walker B; other site 187410007496 D-loop; other site 187410007497 H-loop/switch region; other site 187410007498 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 187410007499 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 187410007500 rRNA binding site; other site 187410007501 predicted 30S ribosome binding site; other site 187410007502 Transposase IS200 like; Region: Transposase_17; cl00848 187410007503 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 187410007504 Clp amino terminal domain; Region: Clp_N; pfam02861 187410007505 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...; Region: AAA; cd00009 187410007506 Walker A motif; other site 187410007507 ATP binding site; other site 187410007508 Walker B motif; other site 187410007509 arginine finger; other site 187410007510 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...; Region: AAA; cd00009 187410007511 Walker A motif; other site 187410007512 ATP binding site; other site 187410007513 Walker B motif; other site 187410007514 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 187410007515 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 187410007516 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 187410007517 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 187410007518 Walker A/P-loop; other site 187410007519 ATP binding site; other site 187410007520 Q-loop/lid; other site 187410007521 ABC transporter signature motif; other site 187410007522 Walker B; other site 187410007523 D-loop; other site 187410007524 H-loop/switch region; other site 187410007525 Predicted permease; Region: FtsX; cl11418 187410007526 macrolide transporter subunit MacA; Provisional; Region: PRK11578 187410007527 Protein of unknown function (DUF535); Region: DUF535; cl01128 187410007528 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 187410007529 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 187410007530 putative active site; other site 187410007531 putative metal-binding site; other site 187410007532 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 187410007533 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 alpha-; Region: HCP_like; cl00255 187410007534 ACS interaction site; other site 187410007535 CODH interaction site; other site 187410007536 hydroxylamine reductase; Provisional; Region: PRK12310 187410007537 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 187410007538 hybrid metal cluster; other site 187410007539 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 187410007540 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 187410007541 FAD binding pocket; other site 187410007542 FAD binding motif; other site 187410007543 phosphate binding motif; other site 187410007544 beta-alpha-beta structure motif; other site 187410007545 NAD binding pocket; other site 187410007546 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 187410007547 catalytic loop; other site 187410007548 iron binding site; other site 187410007549 pyruvate dehydrogenase; Provisional; Region: PRK09124 187410007550 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 187410007551 PYR/PP interface; other site 187410007552 tetramer interface; other site 187410007553 dimer interface; other site 187410007554 TPP binding site; other site 187410007555 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 187410007556 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX...; Region: TPP_POX; cd02014 187410007557 TPP-binding site; other site 187410007558 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 187410007559 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 187410007560 tetramer interface; other site 187410007561 pyridoxal 5'-phosphate binding site; other site 187410007562 catalytic residue; other site 187410007563 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 187410007564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007565 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 187410007566 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187410007567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007569 putative lipoprotein; Provisional; Region: PRK10533 187410007570 Chorismate mutase type II; Region: CM_2; cl00693 187410007571 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 187410007572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410007573 Walker A/P-loop; other site 187410007574 ATP binding site; other site 187410007575 Q-loop/lid; other site 187410007576 ABC transporter signature motif; other site 187410007577 Walker B; other site 187410007578 D-loop; other site 187410007579 H-loop/switch region; other site 187410007580 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 187410007581 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...; Region: PBPb; cd00134 187410007582 substrate binding pocket; other site 187410007583 membrane-bound complex binding site; other site 187410007584 hinge residues; other site 187410007585 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 187410007586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410007587 dimer interface; other site 187410007588 conserved gate region; other site 187410007589 putative PBP binding loops; other site 187410007590 ABC-ATPase subunit interface; other site 187410007591 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410007592 dimer interface; other site 187410007593 conserved gate region; other site 187410007594 putative PBP binding loops; other site 187410007595 ABC-ATPase subunit interface; other site 187410007596 EamA-like transporter family; Region: EamA; cl01037 187410007597 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 187410007598 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 187410007599 Nicotianamine synthase protein; Region: NAS; pfam03059 187410007600 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 187410007601 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 187410007602 Walker A/P-loop; other site 187410007603 ATP binding site; other site 187410007604 Q-loop/lid; other site 187410007605 ABC transporter signature motif; other site 187410007606 Walker B; other site 187410007607 D-loop; other site 187410007608 H-loop/switch region; other site 187410007609 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410007610 putative PBP binding regions; other site 187410007611 ABC-ATPase subunit interface; other site 187410007612 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...; Region: TM_ABC_iron-siderophores_like; cl00462 187410007613 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 187410007614 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 187410007615 putative ligand binding residues; other site 187410007616 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 187410007617 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 187410007618 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 187410007619 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...; Region: PBPb; cd00134 187410007620 substrate binding pocket; other site 187410007621 membrane-bound complex binding site; other site 187410007622 hinge residues; other site 187410007623 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 187410007624 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 187410007625 S-adenosylmethionine binding site; other site 187410007626 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 187410007627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410007628 dimer interface; other site 187410007629 conserved gate region; other site 187410007630 putative PBP binding loops; other site 187410007631 ABC-ATPase subunit interface; other site 187410007632 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410007633 dimer interface; other site 187410007634 conserved gate region; other site 187410007635 putative PBP binding loops; other site 187410007636 ABC-ATPase subunit interface; other site 187410007637 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 187410007638 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...; Region: ABC_PotA_N; cd03300 187410007639 Walker A/P-loop; other site 187410007640 ATP binding site; other site 187410007641 Q-loop/lid; other site 187410007642 ABC transporter signature motif; other site 187410007643 Walker B; other site 187410007644 D-loop; other site 187410007645 H-loop/switch region; other site 187410007646 TOBE domain; Region: TOBE_2; cl01440 187410007647 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 187410007648 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 187410007649 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 187410007650 Protein of unknown function (DUF1418); Region: DUF1418; cl11648 187410007651 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 187410007652 GSH binding site; other site 187410007653 catalytic residues; other site 187410007654 hypothetical protein; Provisional; Region: PRK04972 187410007655 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 187410007656 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; cl09110 187410007657 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; cl09110 187410007658 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 187410007659 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 187410007660 active site 187410007661 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 187410007662 active site 187410007663 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family. DERA belongs to the class I aldolases and catalyzes a reversible aldol reaction between acetaldehyde and glyceraldehyde 3-phosphate to generate 2-deoxyribose 5-phosphate. DERA is unique in...; Region: DeoC; cd00959 187410007664 intersubunit interface; other site 187410007665 active site 187410007666 catalytic residue; other site 187410007667 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 187410007668 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410007669 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 187410007670 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 187410007671 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410007672 Beta-lactamase; Region: Beta-lactamase; cl01009 187410007673 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 187410007674 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 187410007675 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 187410007676 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 187410007677 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; Region: ABC_MetN_methionine_transporter; cd03258 187410007678 Walker A/P-loop; other site 187410007679 ATP binding site; other site 187410007680 Q-loop/lid; other site 187410007681 ABC transporter signature motif; other site 187410007682 Walker B; other site 187410007683 D-loop; other site 187410007684 H-loop/switch region; other site 187410007685 NIL domain; Region: NIL; pfam09383 187410007686 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...; Region: PBPb; cl11400 187410007687 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 187410007688 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 187410007689 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; cl11391 187410007690 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 187410007691 GST_N family, unknown subfamily 2; 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_2; cd03047 187410007692 putative C-terminal domain interface; other site 187410007693 putative GSH binding site (G-site); other site 187410007694 putative dimer interface; other site 187410007695 GST_C family, unknown subfamily 2; 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_C_2; cd03180 187410007696 putative N-terminal domain interface; other site 187410007697 putative dimer interface; other site 187410007698 putative substrate binding pocket (H-site); other site 187410007699 putative outer membrane receptor; Provisional; Region: PRK13513 187410007700 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 187410007701 N-terminal plug; other site 187410007702 ligand-binding site; other site 187410007703 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 187410007704 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 187410007705 Walker A/P-loop; other site 187410007706 ATP binding site; other site 187410007707 Q-loop/lid; other site 187410007708 ABC transporter signature motif; other site 187410007709 Walker B; other site 187410007710 D-loop; other site 187410007711 H-loop/switch region; other site 187410007712 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...; Region: TM_ABC_iron-siderophores_like; cl00462 187410007713 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410007714 ABC-ATPase subunit interface; other site 187410007715 dimer interface; other site 187410007716 putative PBP binding regions; other site 187410007717 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 187410007718 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 187410007719 putative ligand binding residues; other site 187410007720 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410007721 Amino acid permease; Region: AA_permease; pfam00324 187410007722 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 187410007723 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410007724 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 187410007725 putative dimerization interface; other site 187410007726 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 187410007727 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 187410007728 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 D-arabino-6...; Region: AP2Ec; cd00019 187410007729 AP (apurinic/apyrimidinic) site pocket; other site 187410007730 DNA interaction; other site 187410007731 Metal-binding active site; metal-binding site 187410007732 Fimbrial Usher protein; Region: Usher; pfam00577 187410007733 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410007734 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410007735 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410007736 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...; Region: trans_reg_C; cl00209 187410007737 DNA binding site 187410007738 fructose-specific PTS system IIBC component; Provisional; Region: PRK10712 187410007739 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 187410007740 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 187410007741 P-loop; other site 187410007742 active site 187410007743 phosphorylation site 187410007744 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 187410007745 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 187410007746 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 187410007747 putative substrate binding site; other site 187410007748 putative ATP binding site; other site 187410007749 bifunctional fructose-specific PTS IIA/HPr protein; Provisional; Region: PRK11109 187410007750 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 187410007751 active site 187410007752 phosphorylation site 187410007753 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 187410007754 dimerization domain swap beta strand; other site 187410007755 regulatory protein interface; other site 187410007756 active site 187410007757 regulatory phosphorylation site; other site 187410007758 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_19; cd04678 187410007759 nudix motif; other site 187410007760 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 187410007761 TM-ABC transporter signature motif; other site 187410007762 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410007763 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...; Region: ABC_Carb_Monos_I; cd03216 187410007764 Walker A/P-loop; other site 187410007765 ATP binding site; other site 187410007766 Q-loop/lid; other site 187410007767 ABC transporter signature motif; other site 187410007768 Walker B; other site 187410007769 D-loop; other site 187410007770 H-loop/switch region; other site 187410007771 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 187410007772 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410007773 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 187410007774 ligand binding site; other site 187410007775 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 187410007776 tetramer (dimer of dimers) interface; other site 187410007777 active site 187410007778 dimer interface; other site 187410007779 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 187410007780 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 187410007781 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 187410007782 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 187410007783 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 187410007784 tetramerization interface; other site 187410007785 NAD(P) binding site; other site 187410007786 catalytic residues; other site 187410007787 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 187410007788 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 187410007789 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 187410007790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410007792 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 187410007793 Uncharacterized protein family (UPF0153); Region: UPF0153; cl00497 187410007794 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 187410007795 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410007796 elongation factor P; Provisional; Region: PRK04542 187410007797 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 187410007798 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 187410007799 RNA binding site; other site 187410007800 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 187410007801 RNA binding site; other site 187410007802 mannonate dehydratase; Provisional; Region: PRK03906 187410007803 mannonate dehydratase; Region: uxuA; TIGR00695 187410007804 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 187410007805 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 187410007806 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 187410007807 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 187410007808 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410007809 DNA binding site 187410007810 FCD domain; Region: FCD; cl11656 187410007811 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 187410007812 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 187410007813 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 187410007814 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 187410007815 putative outer membrane lipoprotein; Provisional; Region: spr; PRK10838 187410007816 NlpC/P60 family; Region: NLPC_P60; cl11438 187410007817 hypothetical protein; Provisional; Region: PRK10551 187410007818 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 187410007819 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 187410007820 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 187410007821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410007822 dimer interface; other site 187410007823 conserved gate region; other site 187410007824 putative PBP binding loops; other site 187410007825 ABC-ATPase subunit interface; other site 187410007826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410007827 dimer interface; other site 187410007828 conserved gate region; other site 187410007829 putative PBP binding loops; other site 187410007830 ABC-ATPase subunit interface; other site 187410007831 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 187410007832 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 187410007833 Walker A/P-loop; other site 187410007834 ATP binding site; other site 187410007835 Q-loop/lid; other site 187410007836 ABC transporter signature motif; other site 187410007837 Walker B; other site 187410007838 D-loop; other site 187410007839 H-loop/switch region; other site 187410007840 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 187410007841 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 187410007842 Walker A/P-loop; other site 187410007843 ATP binding site; other site 187410007844 Q-loop/lid; other site 187410007845 ABC transporter signature motif; other site 187410007846 Walker B; other site 187410007847 D-loop; other site 187410007848 H-loop/switch region; other site 187410007849 hypothetical protein; Provisional; Region: PRK11835 187410007850 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 187410007851 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 187410007852 putative substrate translocation pore; other site 187410007853 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 187410007854 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 187410007855 RNA binding surface; other site 187410007856 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 187410007857 active site 187410007858 uracil binding; other site 187410007859 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 187410007860 ATP binding site; other site 187410007861 putative Mg++ binding site; other site 187410007862 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 187410007863 nucleotide binding region; other site 187410007864 ATP-binding site; other site 187410007865 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 187410007866 5S rRNA interface; other site 187410007867 CTC domain interface; other site 187410007868 L16 interface; other site 187410007869 Transposase IS200 like; Region: Transposase_17; cl00848 187410007870 37-kD nucleoid-associated bacterial protein; Region: NA37; cl01174 187410007871 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 187410007872 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 187410007873 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 187410007874 Sulfatase; Region: Sulfatase; cl10460 187410007875 Domain of unknown function (DUF927); Region: DUF927; cl12098 187410007876 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...; Region: HNHc; cl00083 187410007877 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 187410007878 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 187410007879 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...; Region: SIS_RpiR; cd05013 187410007880 putative active site; other site 187410007881 Phage Tail Collar Domain; Region: Collar; pfam07484 187410007882 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 187410007883 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 187410007884 Baseplate J-like protein; Region: Baseplate_J; cl01294 187410007885 Phage protein GP46; Region: GP46; cl01814 187410007886 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 187410007887 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 187410007888 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 187410007889 DNA circulation protein N-terminus; Region: DNA_circ_N; cl01724 187410007890 Phage tail tube protein; Region: Tail_tube; pfam10618 187410007891 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 187410007892 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 187410007893 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 187410007894 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 187410007895 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410007896 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 187410007897 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 187410007898 intersubunit interface; other site 187410007899 active site 187410007900 Zn2+ binding site; other site 187410007901 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 187410007902 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 187410007903 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 187410007904 non-specific DNA binding site; other site 187410007905 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 187410007906 salt bridge; other site 187410007907 sequence-specific DNA binding site; other site 187410007908 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 (...; Region: S24_LexA-like; cd06529 187410007909 Catalytic site; other site 187410007910 DinI-like family; Region: DinI; cl11630 187410007911 Omptin family; Region: Omptin; cl01886 187410007912 Cache domain; Region: Cache_1; pfam02743 187410007913 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 connected by an extended linker. The...; Region: HAMP; cd06225 187410007914 dimerization interface; other site 187410007915 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 187410007916 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 187410007917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187410007918 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 187410007919 putative transporter; Provisional; Region: PRK11462 187410007920 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 187410007921 Beta-lactamase; Region: Beta-lactamase; cl01009 187410007922 Transposase IS200 like; Region: Transposase_17; cl00848 187410007923 outer membrane protein F; Provisional; Region: PRK10002 187410007924 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 187410007925 trimer interface; other site 187410007926 eyelet of channel; other site 187410007927 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 187410007928 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 187410007929 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 187410007930 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 187410007931 transcriptional regulator RcsB; Provisional; Region: PRK10840 187410007932 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 187410007933 active site 187410007934 phosphorylation site 187410007935 intermolecular recognition site; other site 187410007936 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...; Region: LuxR_C_like; cd06170 187410007937 DNA binding residues 187410007938 dimerization interface; other site 187410007939 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 187410007940 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 trans-...; Region: HisKA; cd00082 187410007941 dimer interface; other site 187410007942 phosphorylation site 187410007943 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 187410007944 ATP binding site; other site 187410007945 Mg2+ binding site; other site 187410007946 G-X-G motif; other site 187410007947 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 187410007948 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 187410007949 active site 187410007950 phosphorylation site 187410007951 intermolecular recognition site; other site 187410007952 dimerization interface; other site 187410007953 DNA gyrase subunit A; Validated; Region: PRK05560 187410007954 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...; Region: TOP4c; cd00187 187410007955 CAP-like domain; other site 187410007956 active site 187410007957 primary dimer interface; other site 187410007958 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187410007959 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187410007960 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187410007961 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187410007962 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187410007963 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187410007964 3-demethylubiquinone-9 3-methyltransferase; Provisional; Region: PRK05134 187410007965 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 187410007966 S-adenosylmethionine binding site; other site 187410007967 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 187410007968 ATP cone domain; Region: ATP-cone; pfam03477 187410007969 Class I ribonucleotide reductase; Region: RNR_I; cd01679 187410007970 active site 187410007971 dimer interface; other site 187410007972 catalytic residues; other site 187410007973 effector binding site; other site 187410007974 R2 peptide binding site; other site 187410007975 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 187410007976 dimer interface; other site 187410007977 putative radical transfer pathway; other site 187410007978 diiron center; other site 187410007979 tyrosyl radical; other site 187410007980 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 187410007981 catalytic loop; other site 187410007982 iron binding site; other site 187410007983 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 187410007984 secondary substrate binding site; other site 187410007985 primary substrate binding site; other site 187410007986 inhibition loop; other site 187410007987 dimerization interface; other site 187410007988 competence damage-inducible protein A; Provisional; Region: PRK03673 187410007989 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 187410007990 putative MPT binding site; other site 187410007991 Competence-damaged protein; Region: CinA; cl00666 187410007992 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410007993 YfaZ precursor; Region: YfaZ; pfam07437 187410007994 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 187410007995 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 187410007996 tetramer interface; other site 187410007997 heme binding pocket; other site 187410007998 NADPH binding site; other site 187410007999 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 187410008000 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; cl12029 187410008001 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; cl12029 187410008002 helicase superfamily c-terminal domain; Region: HELICc2; cl09250 187410008003 outer membrane protein F; Provisional; Region: PRK10002 187410008004 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 187410008005 trimer interface; other site 187410008006 eyelet of channel; other site 187410008007 hypothetical protein; Provisional; Region: PRK11272 187410008008 EamA-like transporter family; Region: EamA; cl01037 187410008009 EamA-like transporter family; Region: EamA; cl01037 187410008010 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 187410008011 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 187410008012 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 187410008013 pyridoxal 5'-phosphate binding pocket; other site 187410008014 catalytic residue; other site 187410008015 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 187410008016 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410008017 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 187410008018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410008019 putative PBP binding loops; other site 187410008020 dimer interface; other site 187410008021 ABC-ATPase subunit interface; other site 187410008022 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 187410008023 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...; Region: ABC_OpuCA_Osmoprotection; cd03295 187410008024 Walker A/P-loop; other site 187410008025 ATP binding site; other site 187410008026 Q-loop/lid; other site 187410008027 ABC transporter signature motif; other site 187410008028 Walker B; other site 187410008029 D-loop; other site 187410008030 H-loop/switch region; other site 187410008031 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 187410008032 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 187410008033 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...; Region: PBPb; cl11400 187410008034 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...; Region: PBPb; cl11400 187410008035 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 187410008036 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...; Region: TST_Repeat_1; cd01448 187410008037 active site residue 187410008038 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 187410008039 active site residue 187410008040 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 187410008041 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 187410008042 pyridoxal 5'-phosphate binding pocket; other site 187410008043 catalytic residue; other site 187410008044 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 187410008045 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 187410008046 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 187410008047 Walker A/P-loop; other site 187410008048 ATP binding site; other site 187410008049 Q-loop/lid; other site 187410008050 ABC transporter signature motif; other site 187410008051 Walker B; other site 187410008052 D-loop; other site 187410008053 H-loop/switch region; other site 187410008054 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 187410008055 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 187410008056 Walker A/P-loop; other site 187410008057 ATP binding site; other site 187410008058 Q-loop/lid; other site 187410008059 ABC transporter signature motif; other site 187410008060 Walker B; other site 187410008061 D-loop; other site 187410008062 H-loop/switch region; other site 187410008063 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 187410008064 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 187410008065 TM-ABC transporter signature motif; other site 187410008066 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 187410008067 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 187410008068 TM-ABC transporter signature motif; other site 187410008069 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 187410008070 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 187410008071 putative ligand binding site; other site 187410008072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 187410008073 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 187410008074 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 187410008075 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 187410008076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410008077 dimer interface; other site 187410008078 conserved gate region; other site 187410008079 putative PBP binding loops; other site 187410008080 ABC-ATPase subunit interface; other site 187410008081 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 187410008082 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...; Region: PBPb; cl11400 187410008083 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 187410008084 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 187410008085 Walker A/P-loop; other site 187410008086 ATP binding site; other site 187410008087 Q-loop/lid; other site 187410008088 ABC transporter signature motif; other site 187410008089 Walker B; other site 187410008090 D-loop; other site 187410008091 H-loop/switch region; other site 187410008092 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 187410008093 hypothetical protein; Provisional; Region: PRK11295 187410008094 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 187410008095 putative active site; other site 187410008096 putative metal binding residues; other site 187410008097 signature motif; other site 187410008098 putative triphosphate binding site; other site 187410008099 dimer interface; other site 187410008100 D-lactate dehydrogenase; Provisional; Region: PRK11183 187410008101 FAD binding domain; Region: FAD_binding_4; cl10516 187410008102 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 187410008103 Beta-lactamase; Region: Beta-lactamase; cl01009 187410008104 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...; Region: DUS_like_FMN; cd02801 187410008105 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 187410008106 FMN binding site; other site 187410008107 active site 187410008108 catalytic residues; other site 187410008109 substrate binding site; other site 187410008110 Uncharacterized conserved protein [Function unknown]; Region: COG3595 187410008111 Transposase IS200 like; Region: Transposase_17; cl00848 187410008112 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 187410008113 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 187410008114 MoaE homodimer interface; other site 187410008115 MoaD interaction; other site 187410008116 active site residues 187410008117 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 187410008118 MoaE interaction surface; other site 187410008119 MoeB interaction surface; other site 187410008120 thiocarboxylated glycine; other site 187410008121 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...; Region: MoaC_PE; cd01420 187410008122 trimer interface; other site 187410008123 dimer interface; other site 187410008124 putative active site; other site 187410008125 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 187410008126 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 187410008127 FeS/SAM binding site; other site 187410008128 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 187410008129 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 187410008130 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 187410008131 phosphate binding site; other site 187410008132 putative substrate binding pocket; other site 187410008133 dimer interface; other site 187410008134 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 187410008135 excinuclease ABC subunit B; Provisional; Region: PRK05298 187410008136 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 187410008137 ATP binding site; other site 187410008138 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 187410008139 nucleotide binding region; other site 187410008140 ATP-binding site; other site 187410008141 Ultra-violet resistance protein B; Region: UvrB; pfam12344 187410008142 UvrB/uvrC motif; Region: UVR; pfam02151 187410008143 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 187410008144 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 187410008145 Walker A/P-loop; other site 187410008146 ATP binding site; other site 187410008147 Q-loop/lid; other site 187410008148 ABC transporter signature motif; other site 187410008149 Walker B; other site 187410008150 D-loop; other site 187410008151 H-loop/switch region; other site 187410008152 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 187410008153 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 187410008154 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 187410008155 ADP binding site; other site 187410008156 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 187410008157 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 187410008158 S-adenosylmethionine binding site; other site 187410008159 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 187410008160 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 187410008161 pyridoxal 5'-phosphate binding pocket; other site 187410008162 catalytic residue; other site 187410008163 biotin synthetase; Region: bioB; TIGR00433 187410008164 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 187410008165 FeS/SAM binding site; other site 187410008166 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 187410008167 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 187410008168 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 187410008169 inhibitor-cofactor binding pocket; inhibition site 187410008170 pyridoxal 5'-phosphate binding site; other site 187410008171 catalytic residue; other site 187410008172 6-phosphogluconolactonase; Provisional; Region: PRK11028 187410008173 phosphotransferase; Provisional; Region: PRK10530 187410008174 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 187410008175 active site 187410008176 motif I; other site 187410008177 motif II; other site 187410008178 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; cl11391 187410008179 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 187410008180 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410008181 Walker A/P-loop; other site 187410008182 ATP binding site; other site 187410008183 Q-loop/lid; other site 187410008184 ABC transporter signature motif; other site 187410008185 Walker B; other site 187410008186 D-loop; other site 187410008187 H-loop/switch region; other site 187410008188 TOBE domain; Region: TOBE_2; cl01440 187410008189 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410008190 dimer interface; other site 187410008191 conserved gate region; other site 187410008192 putative PBP binding loops; other site 187410008193 ABC-ATPase subunit interface; other site 187410008194 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 187410008195 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 187410008196 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 187410008197 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410008198 TOBE domain; Region: TOBE_2; cl01440 187410008199 TOBE domain; Region: TOBE_2; cl01440 187410008200 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 187410008201 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410008202 Walker A/P-loop; other site 187410008203 ATP binding site; other site 187410008204 Q-loop/lid; other site 187410008205 ABC transporter signature motif; other site 187410008206 Walker B; other site 187410008207 D-loop; other site 187410008208 H-loop/switch region; other site 187410008209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410008210 Walker A/P-loop; other site 187410008211 ATP binding site; other site 187410008212 Q-loop/lid; other site 187410008213 ABC transporter signature motif; other site 187410008214 Walker B; other site 187410008215 D-loop; other site 187410008216 H-loop/switch region; other site 187410008217 CAAX amino terminal protease family; Region: Abi; cl00558 187410008218 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 187410008219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410008220 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 187410008221 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 187410008222 dimer interface; other site 187410008223 active site 187410008224 galactokinase; Provisional; Region: PRK05101 187410008225 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 187410008226 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 187410008227 psiF repeat; Region: PsiF_repeat; pfam07769 187410008228 psiF repeat; Region: PsiF_repeat; pfam07769 187410008229 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 187410008230 catalytic core; other site 187410008231 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 187410008232 NeuB family; Region: NeuB; cl00496 187410008233 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 187410008234 Cation efflux family; Region: Cation_efflux; cl00316 187410008235 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 187410008236 Quinolinate synthetase A protein; Region: NadA; cl00420 187410008237 tol-pal system protein YbgF; Provisional; Region: PRK10803 187410008238 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 187410008239 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187410008240 ligand binding site; other site 187410008241 translocation protein TolB; Provisional; Region: tolB; PRK03629 187410008242 TolB amino-terminal domain; Region: TolB_N; pfam04052 187410008243 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 187410008244 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 187410008245 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 187410008246 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 187410008247 TolA C-terminal; Region: TolA; pfam06519 187410008248 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 187410008249 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 187410008250 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 187410008251 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...; Region: 4HBT; cd00586 187410008252 active site 187410008253 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 187410008254 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 187410008255 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 187410008256 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 187410008257 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 187410008258 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 187410008259 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 187410008260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410008261 CoA-ligase; Region: Ligase_CoA; pfam00549 187410008262 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 187410008263 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410008264 CoA-ligase; Region: Ligase_CoA; pfam00549 187410008265 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 187410008266 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 187410008267 E3 interaction surface; other site 187410008268 lipoyl attachment site; other site 187410008269 e3 binding domain; Region: E3_binding; pfam02817 187410008270 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 187410008271 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 187410008272 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 187410008273 TPP-binding site; other site 187410008274 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 187410008275 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 187410008276 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 187410008277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410008278 domain; Region: Succ_DH_flav_C; pfam02910 187410008279 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 187410008280 SdhC subunit interface; other site 187410008281 proximal heme binding site; other site 187410008282 cardiolipin binding site; other site 187410008283 Iron-sulfur protein interface; other site 187410008284 proximal quinone binding site; other site 187410008285 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 187410008286 Iron-sulfur protein interface; other site 187410008287 proximal quinone binding site; other site 187410008288 SdhD (CybS) interface; other site 187410008289 proximal heme binding site; other site 187410008290 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 187410008291 dimer interface; other site 187410008292 Citrate synthase; Region: Citrate_synt; pfam00285 187410008293 active site 187410008294 citrylCoA binding site; other site 187410008295 NADH binding; other site 187410008296 cationic pore residues; other site 187410008297 oxalacetate/citrate binding site; other site 187410008298 coenzyme A binding site; other site 187410008299 catalytic triad; other site 187410008300 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 187410008301 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 187410008302 dimer interface; other site 187410008303 hsp70 (ATPase domain) interactions; other site 187410008304 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 187410008305 ATP-NAD kinase; Region: NAD_kinase; pfam01513 187410008306 recombination and repair protein; Provisional; Region: PRK10869 187410008307 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...; Region: ABC_RecN; cd03241 187410008308 Walker A/P-loop; other site 187410008309 ATP binding site; other site 187410008310 Q-loop/lid; other site 187410008311 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...; Region: ABC_RecN; cd03241 187410008312 Q-loop/lid; other site 187410008313 ABC transporter signature motif; other site 187410008314 Walker B; other site 187410008315 D-loop; other site 187410008316 H-loop/switch region; other site 187410008317 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 187410008318 Uncharacterized protein family (UPF0125); Region: UPF0125; cl01096 187410008319 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 187410008320 SmpB protein; Region: SmpB; cl00482 187410008321 Transposase IS200 like; Region: Transposase_17; cl00848 187410008322 integrase; Provisional; Region: PRK09692 187410008323 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 187410008324 Int/Topo IB signature motif; other site 187410008325 active site 187410008326 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 187410008327 Int/Topo IB signature motif; other site 187410008328 active site 187410008329 DNA binding site 187410008330 Ash protein family; Region: Phage_ASH; pfam10554 187410008331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 187410008332 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; cl07038 187410008333 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication...; Region: TOPRIM_primases; cd01029 187410008334 active site 187410008335 metal-binding site 187410008336 interdomain interaction site; other site 187410008337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410008338 Walker A motif; other site 187410008339 ATP binding site; other site 187410008340 Walker B motif; other site 187410008341 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 187410008342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410008343 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410008344 Integrase core domain; Region: rve; cl01316 187410008345 transposase/IS protein; Provisional; Region: PRK09183 187410008346 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...; Region: AAA; cd00009 187410008347 Walker A motif; other site 187410008348 ATP binding site; other site 187410008349 Walker B motif; other site 187410008350 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 187410008351 Sodium:solute symporter family; Region: SSF; cl00456 187410008352 Proteobacterial; Region: dnaQ_proteo; TIGR01406 187410008353 This subfamily is composed of the epsilon subunit of Escherichia coli DNA polymerase III (polIII) and similar proteins. PolIII is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. It is a holoenzyme complex of ten...; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 187410008354 active site 187410008355 substrate binding site; other site 187410008356 catalytic site; other site 187410008357 RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack...; Region: RnaseH; cd06222 187410008358 RNA/DNA hybrid binding site; other site 187410008359 active site 187410008360 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410008361 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187410008362 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 187410008363 MLTD_N; Region: MLTD_N; pfam06474 187410008364 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 187410008365 N-acetyl-D-glucosamine binding site; other site 187410008366 catalytic residue; other site 187410008367 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 187410008368 putative peptidoglycan binding site; other site 187410008369 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 187410008370 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 187410008371 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...; Region: Aldo_ket_red; cd06660 187410008372 active site 187410008373 catalytic tetrad; other site 187410008374 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 187410008375 active site 187410008376 motif I; other site 187410008377 motif II; other site 187410008378 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 187410008379 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 187410008380 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; Region: ABC_MetN_methionine_transporter; cd03258 187410008381 Walker A/P-loop; other site 187410008382 ATP binding site; other site 187410008383 Q-loop/lid; other site 187410008384 ABC transporter signature motif; other site 187410008385 Walker B; other site 187410008386 D-loop; other site 187410008387 H-loop/switch region; other site 187410008388 NIL domain; Region: NIL; pfam09383 187410008389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410008390 dimer interface; other site 187410008391 conserved gate region; other site 187410008392 ABC-ATPase subunit interface; other site 187410008393 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...; Region: PBPb; cl11400 187410008394 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 187410008395 Uncharacterized protein family UPF0066; Region: UPF0066; cl00749 187410008396 prolyl-tRNA synthetase; Provisional; Region: PRK09194 187410008397 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...; Region: ProRS_core_prok; cd00779 187410008398 dimer interface; other site 187410008399 motif 1; other site 187410008400 active site 187410008401 motif 2; other site 187410008402 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-...; Region: ProRS-INS; cd04334 187410008403 putative deacylase active site; other site 187410008404 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 187410008405 active site 187410008406 motif 3; other site 187410008407 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-...; Region: ProRS_anticodon_short; cd00861 187410008408 anticodon binding site; other site 187410008409 Uncharacterized lipoprotein NlpE involved in copper resistance; Region: NlpE; cl01138 187410008410 RF-1 domain; Region: RF-1; cl02875 187410008411 YaeQ protein; Region: YaeQ; cl01913 187410008412 Uncharacterized protein family (UPF0253); Region: UPF0253; cl11640 187410008413 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 187410008414 Cytochrome c; Region: Cytochrom_C; cl11414 187410008415 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 187410008416 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 187410008417 Ligand Binding Site; other site 187410008418 TilS substrate binding domain; Region: TilS; pfam09179 187410008419 B3/4 domain; Region: B3_4; cl11458 187410008420 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 187410008421 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 187410008422 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 187410008423 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 187410008424 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 187410008425 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...; Region: DnaE_OBF; cd04485 187410008426 generic binding surface II; other site 187410008427 generic binding surface I; other site 187410008428 bacterial Ribonuclease HII-like; Region: RNaseH_typeII_bacteria_HII_like; cd07182 187410008429 active site 187410008430 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 187410008431 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 187410008432 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 187410008433 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 187410008434 active site 187410008435 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 187410008436 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 187410008437 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 187410008438 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-2,3-...; Region: LbH_LpxD; cd03352 187410008439 trimer interface; other site 187410008440 active site 187410008441 UDP-GlcNAc binding site; other site 187410008442 lipid-binding site 187410008443 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 187410008444 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 187410008445 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410008446 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410008447 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410008448 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410008449 Surface antigen; Region: Bac_surface_Ag; cl03097 187410008450 zinc metallopeptidase RseP; Provisional; Region: PRK10779 187410008451 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 187410008452 active site 187410008453 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...; Region: PDZ_metalloprotease; cd00989 187410008454 protein binding site; other site 187410008455 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...; Region: PDZ_metalloprotease; cd00989 187410008456 protein binding site; other site 187410008457 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 187410008458 putative substrate binding region; other site 187410008459 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 187410008460 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 187410008461 catalytic residue; other site 187410008462 putative FPP diphosphate binding site; other site 187410008463 putative FPP binding hydrophobic cleft; other site 187410008464 dimer interface; other site 187410008465 putative IPP diphosphate binding site; other site 187410008466 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 187410008467 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 187410008468 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 187410008469 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 187410008470 hinge region; other site 187410008471 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 187410008472 putative nucleotide binding site; other site 187410008473 uridine monophosphate binding site; other site 187410008474 homohexameric interface; other site 187410008475 elongation factor Ts; Provisional; Region: tsf; PRK09377 187410008476 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 187410008477 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 187410008478 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 187410008479 rRNA interaction site; other site 187410008480 S8 interaction site; other site 187410008481 putative laminin-1 binding site; other site 187410008482 methionine aminopeptidase; Reviewed; Region: PRK07281 187410008483 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 187410008484 active site 187410008485 PII uridylyl-transferase; Provisional; Region: PRK05007 187410008486 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 187410008487 metal binding triad; other site 187410008488 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 187410008489 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 187410008490 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 187410008491 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 187410008492 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 187410008493 trimer interface; other site 187410008494 active site 187410008495 substrate binding site; other site 187410008496 CoA binding site; other site 187410008497 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 187410008498 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410008499 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 187410008500 probable active site; other site 187410008501 Domain of unknown function, DUF446; Region: DUF446; cl01187 187410008502 Transposase IS200 like; Region: Transposase_17; cl00848 187410008503 Syd protein; Region: Syd; cl06405 187410008504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 187410008505 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 187410008506 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 187410008507 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 187410008508 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 187410008509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410008510 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410008511 Integrase core domain; Region: rve; cl01316 187410008512 transposase/IS protein; Provisional; Region: PRK09183 187410008513 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...; Region: AAA; cd00009 187410008514 Walker A motif; other site 187410008515 ATP binding site; other site 187410008516 Walker B motif; other site 187410008517 exonuclease IX; Provisional; Region: xni; PRK09482 187410008518 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 187410008519 metal binding site I; metal-binding site 187410008520 putative ssDNA interaction site; other site 187410008521 metal binding site II; metal-binding site 187410008522 putative RNA 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 187410008523 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410008524 Protein of unknown function (DUF423); Region: DUF423; cl01008 187410008525 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 187410008526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410008527 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 187410008528 dimerization interface; other site 187410008529 substrate binding pocket; other site 187410008530 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 187410008531 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 187410008532 pyridoxal 5'-phosphate binding pocket; other site 187410008533 catalytic residue; other site 187410008534 Fe-S metabolism associated domain; Region: SufE; cl00951 187410008535 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 187410008536 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-...; Region: YgdL_like; cd00755 187410008537 putative ATP binding site; other site 187410008538 putative substrate interface; other site 187410008539 murein transglycosylase A; Provisional; Region: mltA; PRK11162 187410008540 MltA specific insert domain; Region: MltA; pfam03562 187410008541 3D domain; Region: 3D; cl01439 187410008542 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 187410008543 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 187410008544 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 187410008545 active site 187410008546 metal-binding site 187410008547 N-acetylglutamate synthase; Validated; Region: PRK05279 187410008548 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an N-...; Region: AAK_NAGS-ABP; cd04237 187410008549 putative feedback inhibition sensing region; other site 187410008550 putative nucleotide binding site; other site 187410008551 putative substrate binding site; other site 187410008552 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410008553 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 187410008554 Putative ATPase (DUF699); Region: DUF699; pfam05127 187410008555 UvrD/REP helicase; Region: UvrD-helicase; cl14126 187410008556 UvrD/REP helicase; Region: UvrD-helicase; cl14126 187410008557 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 187410008558 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 187410008559 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 187410008560 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 187410008561 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 187410008562 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 187410008563 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 187410008564 Prepilin peptidase dependent protein C; Region: DUF3728; cl08108 187410008565 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 187410008566 hypothetical protein; Provisional; Region: PRK10557 187410008567 hypothetical protein; Provisional; Region: PRK10506 187410008568 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 187410008569 dimerization interface; other site 187410008570 active site 187410008571 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 187410008572 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 187410008573 GAF domain; Region: GAF; cl00853 187410008574 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 187410008575 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 187410008576 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 187410008577 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...; Region: Ap4A_hydrolase_plant_like; cd03671 187410008578 putative active site; other site 187410008579 Ap4A binding site; other site 187410008580 nudix motif; other site 187410008581 putative metal binding site; other site 187410008582 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex; Region: MutH_Sau3AI; cd00583 187410008583 putative DNA-binding cleft; other site 187410008584 putative DNA clevage site; other site 187410008585 molecular lever; other site 187410008586 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...; Region: Aldo_ket_red; cd06660 187410008587 active site 187410008588 catalytic tetrad; other site 187410008589 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 187410008590 lysophospholipid transporter LplT; Provisional; Region: PRK11195 187410008591 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 187410008592 putative substrate translocation pore; other site 187410008593 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 187410008594 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 187410008595 putative acyl-acceptor binding pocket; other site 187410008596 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410008597 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 187410008598 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 187410008599 molybdopterin cofactor binding site; other site 187410008600 substrate binding site; other site 187410008601 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 187410008602 molybdopterin cofactor binding site; other site 187410008603 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 187410008604 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410008605 DNA binding site 187410008606 domain linker motif; other site 187410008607 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 187410008608 dimerization interface (closed form); other site 187410008609 ligand binding site; other site 187410008610 diaminopimelate decarboxylase; Provisional; Region: PRK11165 187410008611 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 187410008612 active site 187410008613 pyridoxal 5'-phosphate (PLP) binding site; other site 187410008614 substrate binding site; other site 187410008615 catalytic residues; other site 187410008616 dimer interface; other site 187410008617 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 187410008618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410008619 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 187410008620 dimerization interface; other site 187410008621 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 187410008622 putative substrate translocation pore; other site 187410008623 Major Facilitator Superfamily; Region: MFS_1; pfam07690 187410008624 transcriptional activator TtdR; Provisional; Region: PRK09801 187410008625 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410008626 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 187410008627 putative effector binding pocket; other site 187410008628 dimerization interface; other site 187410008629 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187410008630 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 187410008631 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 187410008632 catalytic residues; other site 187410008633 methyl-accepting protein IV; Provisional; Region: PRK09793 187410008634 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cd00181 187410008635 dimerization interface; other site 187410008636 ligand (aspartate) binding pocket; other site 187410008637 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410008638 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 187410008639 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...; Region: trans_reg_C; cl00209 187410008640 DNA binding site 187410008641 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 187410008642 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 187410008643 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 187410008644 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 187410008645 General secretion pathway protein L (GspL); Region: GspL; cl11448 187410008646 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 187410008647 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 187410008648 Pseudopilin GspJ; Region: GspJ; pfam11612 187410008649 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 187410008650 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 187410008651 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 187410008652 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 187410008653 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 187410008654 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 187410008655 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 187410008656 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 187410008657 Walker A motif; other site 187410008658 ATP binding site; other site 187410008659 Walker B motif; other site 187410008660 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 187410008661 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 187410008662 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 187410008663 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 187410008664 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 187410008665 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 187410008666 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...; Region: trans_reg_C; cl00209 187410008667 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 187410008668 active site clefts 187410008669 zinc binding site; other site 187410008670 dimer interface; other site 187410008671 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410008672 Lyase, N terminal; Region: Lyase_N; pfam09092 187410008673 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues...; Region: GAG_Lyase; cd01083 187410008674 substrate binding site; other site 187410008675 catalytic residues; other site 187410008676 transposase/IS protein; Provisional; Region: PRK09183 187410008677 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...; Region: AAA; cd00009 187410008678 Walker A motif; other site 187410008679 ATP binding site; other site 187410008680 Walker B motif; other site 187410008681 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410008682 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410008683 Integrase core domain; Region: rve; cl01316 187410008684 Transposase IS200 like; Region: Transposase_17; cl00848 187410008685 Sulfatase; Region: Sulfatase; cl10460 187410008686 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 187410008687 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 187410008688 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410008689 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 187410008690 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 187410008691 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 187410008692 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 187410008693 dimer interface; other site 187410008694 active site 187410008695 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases (...; Region: SIS_AgaS_like; cd05010 187410008696 putative active site; other site 187410008697 Mannose/sorbose specific IIB 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 is one of four...; Region: PTS_IIB_man; cd00001 187410008698 active site 187410008699 phosphorylation site 187410008700 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 187410008701 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 187410008702 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...; Region: PTS_IIA_man; cd00006 187410008703 active pocket/dimerization site; other site 187410008704 active site 187410008705 phosphorylation site 187410008706 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 187410008707 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 187410008708 active site 187410008709 dimer interface; other site 187410008710 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK12481 187410008711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410008712 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; cl01723 187410008713 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 187410008714 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 187410008715 FeS/SAM binding site; other site 187410008716 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 187410008717 Sulfatase; Region: Sulfatase; cl10460 187410008718 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 187410008719 tagatose-bisphosphate aldolase; Reviewed; Region: gatY; PRK09195 187410008720 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose...; Region: TBP_aldolase_IIB; cd00947 187410008721 intersubunit interface; other site 187410008722 active site 187410008723 zinc binding site; other site 187410008724 Na+ binding site; other site 187410008725 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 187410008726 conserved cys residue; other site 187410008727 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410008728 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410008729 DNA binding site 187410008730 domain linker motif; other site 187410008731 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 187410008732 dimerization interface; other site 187410008733 ligand binding site; other site 187410008734 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 187410008735 d-galactonate transporter; Region: 2A0114; TIGR00893 187410008736 putative substrate translocation pore; other site 187410008737 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 187410008738 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 187410008739 putative active site; other site 187410008740 putative catalytic site; other site 187410008741 lac repressor; Reviewed; Region: lacI; PRK09526 187410008742 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410008743 DNA binding site 187410008744 domain linker motif; other site 187410008745 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 187410008746 ligand binding site; other site 187410008747 dimerization interface (open form); other site 187410008748 dimerization interface (closed form); other site 187410008749 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel beta...; Region: Maltoporin-like; cd01346 187410008750 trimer interface; other site 187410008751 sugar binding site; other site 187410008752 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 187410008753 active site turn 187410008754 phosphorylation site 187410008755 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 187410008756 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 187410008757 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 187410008758 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 187410008759 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 187410008760 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410008761 dimer interface; other site 187410008762 conserved gate region; other site 187410008763 putative PBP binding loops; other site 187410008764 ABC-ATPase subunit interface; other site 187410008765 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 187410008766 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410008767 dimer interface; other site 187410008768 conserved gate region; other site 187410008769 ABC-ATPase subunit interface; other site 187410008770 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 187410008771 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 187410008772 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 187410008773 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 187410008774 Walker A/P-loop; other site 187410008775 ATP binding site; other site 187410008776 Q-loop/lid; other site 187410008777 ABC transporter signature motif; other site 187410008778 Walker B; other site 187410008779 D-loop; other site 187410008780 H-loop/switch region; other site 187410008781 TOBE domain; Region: TOBE_2; cl01440 187410008782 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410008783 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...; Region: ABC_Carb_Monos_I; cd03216 187410008784 Walker A/P-loop; other site 187410008785 ATP binding site; other site 187410008786 Q-loop/lid; other site 187410008787 ABC transporter signature motif; other site 187410008788 Walker B; other site 187410008789 D-loop; other site 187410008790 H-loop/switch region; other site 187410008791 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 187410008792 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 187410008793 TM-ABC transporter signature motif; other site 187410008794 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410008795 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 187410008796 putative ligand binding site; other site 187410008797 hypothetical protein; Provisional; Region: PRK11479 187410008798 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 187410008799 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410008800 Uncharacterized conserved protein [Function unknown]; Region: COG4104 187410008801 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 187410008802 Pyocin large subunit [General function prediction only]; Region: COG5529 187410008803 S-type Pyocin; Region: Pyocin_S; pfam06958 187410008804 Fic family protein [Function unknown]; Region: COG3177 187410008805 Fic/DOC family; Region: Fic; cl00960 187410008806 Fic/DOC family; Region: Fic; cl00960 187410008807 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl01302 187410008808 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 187410008809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 187410008810 D5 N terminal like; Region: D5_N; pfam08706 187410008811 C-terminal domain; Region: primase_Cterm; TIGR01613 187410008812 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 187410008813 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 187410008814 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 187410008815 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 187410008816 non-specific DNA binding site; other site 187410008817 salt bridge; other site 187410008818 sequence-specific DNA binding site; other site 187410008819 Ash protein family; Region: Phage_ASH; pfam10554 187410008820 integrase; Provisional; Region: PRK09692 187410008821 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 187410008822 Int/Topo IB signature motif; other site 187410008823 active site 187410008824 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 187410008825 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-...; Region: LysRS_N; cd04322 187410008826 dimer interface; other site 187410008827 putative anticodon binding site; other site 187410008828 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 187410008829 motif 1; other site 187410008830 active site 187410008831 motif 2; other site 187410008832 motif 3; other site 187410008833 peptide chain release factor 2; Validated; Region: prfB; PRK00578 187410008834 RF-1 domain; Region: RF-1; cl02875 187410008835 RF-1 domain; Region: RF-1; cl02875 187410008836 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 187410008837 DHH family; Region: DHH; pfam01368 187410008838 DHHA1 domain; Region: DHHA1; pfam02272 187410008839 thiol:disulfide interchange protein DsbC; Provisional; Region: PRK10877 187410008840 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide...; Region: DsbA_DsbC_DsbG; cd03020 187410008841 dimerization domain; other site 187410008842 dimer interface; other site 187410008843 catalytic residues; other site 187410008844 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 187410008845 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 187410008846 Int/Topo IB signature motif; other site 187410008847 active site 187410008848 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410008849 Inner membrane protein CreD; Region: CreD; cl01844 187410008850 sensory histidine kinase CreC; Provisional; Region: PRK11100 187410008851 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 trans-...; Region: HisKA; cd00082 187410008852 dimer interface; other site 187410008853 phosphorylation site 187410008854 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 187410008855 ATP binding site; other site 187410008856 Mg2+ binding site; other site 187410008857 G-X-G motif; other site 187410008858 DNA-binding response regulator CreB; Provisional; Region: PRK11083 187410008859 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 187410008860 active site 187410008861 phosphorylation site 187410008862 intermolecular recognition site; other site 187410008863 dimerization interface; other site 187410008864 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...; Region: trans_reg_C; cd00383 187410008865 DNA binding site 187410008866 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 187410008867 Protein of unknown function (DUF339); Region: Sdh5; cl01110 187410008868 putative global regulator; Reviewed; Region: PRK09559 187410008869 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 187410008870 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 187410008871 Haemolysin-III related; Region: HlyIII; cl03831 187410008872 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 187410008873 YadA-like C-terminal region; Region: YadA; pfam03895 187410008874 glycine dehydrogenase; Provisional; Region: PRK05367 187410008875 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...; Region: GDC-P; cd00613 187410008876 tetramer interface; other site 187410008877 pyridoxal 5'-phosphate binding site; other site 187410008878 catalytic residue; other site 187410008879 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...; Region: GDC-P; cd00613 187410008880 tetramer interface; other site 187410008881 pyridoxal 5'-phosphate binding site; other site 187410008882 catalytic residue; other site 187410008883 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 L-...; Region: GCS_H; cd06848 187410008884 lipoyl attachment site; other site 187410008885 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 187410008886 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 187410008887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410008888 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 187410008889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410008890 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 187410008891 proline aminopeptidase P II; Provisional; Region: PRK10879 187410008892 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 187410008893 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 187410008894 active site 187410008895 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 187410008896 Cell division protein ZapA; Region: ZapA; cl01146 187410008897 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 187410008898 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 187410008899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410008900 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 187410008901 L-serine binding site; other site 187410008902 ACT domain interface; other site 187410008903 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 187410008904 tetramer (dimer of dimers) interface; other site 187410008905 active site 187410008906 dimer interface; other site 187410008907 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 187410008908 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410008909 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 187410008910 putative dimerization interface; other site 187410008911 Protein of unknown function (DUF541); Region: SIMPL; cl01077 187410008912 LysE type translocator; Region: LysE; cl00565 187410008913 mechanosensitive channel MscS; Provisional; Region: PRK10334 187410008914 Mechanosensitive ion channel; Region: MS_channel; pfam00924 187410008915 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 187410008916 hypothetical protein; Provisional; Region: PRK08185 187410008917 active site 187410008918 intersubunit interface; other site 187410008919 zinc binding site; other site 187410008920 Na+ binding site; other site 187410008921 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 187410008922 substrate binding site; other site 187410008923 hinge regions; other site 187410008924 ADP binding site; other site 187410008925 catalytic site; other site 187410008926 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 187410008927 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 187410008928 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 187410008929 transketolase; Reviewed; Region: PRK12753 187410008930 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 187410008931 TPP-binding site; other site 187410008932 dimer interface; other site 187410008933 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 187410008934 PYR/PP interface; other site 187410008935 dimer interface; other site 187410008936 TPP binding site; other site 187410008937 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 187410008938 Peptidase family M48; Region: Peptidase_M48; cl12018 187410008939 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise...; Region: Rieske_RO_ferredoxin; cd03528 187410008940 [2Fe-2S] cluster binding site; other site 187410008941 arginine decarboxylase; Provisional; Region: PRK05354 187410008942 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 187410008943 dimer interface; other site 187410008944 active site 187410008945 pyridoxal 5'-phosphate (PLP) binding site; other site 187410008946 catalytic residues; other site 187410008947 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 187410008948 S-adenosylmethionine synthetase; Validated; Region: PRK05250 187410008949 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 187410008950 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 187410008951 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 187410008952 SprT homologues; Region: SprT; cl01182 187410008953 SprT-like family; Region: SprT-like; pfam10263 187410008954 Endonuclease I; Region: Endonuclease_1; cl01003 187410008955 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 187410008956 glutathione synthetase; Provisional; Region: PRK05246 187410008957 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 187410008958 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410008959 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 187410008960 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 187410008961 Predicted amidohydrolase [General function prediction only]; Region: COG0388 187410008962 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 187410008963 putative active site; other site 187410008964 catalytic triad; other site 187410008965 putative dimer interface; other site 187410008966 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 187410008967 agmatine deiminase; Region: agmatine_aguA; TIGR03380 187410008968 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 187410008969 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 187410008970 Walker A motif; other site 187410008971 ATP binding site; other site 187410008972 Walker B motif; other site 187410008973 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 187410008974 pyridoxal 5'-phosphate (PLP) binding site; other site 187410008975 catalytic residue; other site 187410008976 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 187410008977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410008978 YGGT family; Region: YGGT; cl00508 187410008979 YGGT family; Region: YGGT; cl00508 187410008980 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 187410008981 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 Ham1...; Region: HAM1; cd00515 187410008982 active site 187410008983 dimerization interface; other site 187410008984 coproporphyrinogen III oxidase; Provisional; Region: PRK05660 187410008985 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 187410008986 FeS/SAM binding site; other site 187410008987 HemN C-terminal region; Region: HemN_C; pfam06969 187410008988 Peptidase C80 family; Region: Peptidase_C80; pfam11713 187410008989 Peptidase C80 family; Region: Peptidase_C80; pfam11713 187410008990 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 187410008991 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 187410008992 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 187410008993 Glutaminase; Region: Glutaminase; cl00907 187410008994 Protein with unknown function (DUF469); Region: DUF469; cl01237 187410008995 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410008996 adenine DNA glycosylase; Provisional; Region: PRK10880 187410008997 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 187410008998 minor groove reading motif; other site 187410008999 helix-hairpin-helix signature motif; other site 187410009000 substrate binding pocket; other site 187410009001 active site 187410009002 FES domain; Region: FES; smart00525 187410009003 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 187410009004 DNA binding and oxoG recognition site 187410009005 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 187410009006 murein transglycosylase C; Provisional; Region: mltC; PRK11671 187410009007 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 187410009008 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 187410009009 N-acetyl-D-glucosamine binding site; other site 187410009010 catalytic residue; other site 187410009011 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 187410009012 putative ligand binding residues; other site 187410009013 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187410009014 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 187410009015 N-terminal plug; other site 187410009016 ligand-binding site; other site 187410009017 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 187410009018 TM-ABC transporter signature motif; other site 187410009019 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410009020 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...; Region: ABC_Carb_Monos_I; cd03216 187410009021 Walker A/P-loop; other site 187410009022 ATP binding site; other site 187410009023 Q-loop/lid; other site 187410009024 ABC transporter signature motif; other site 187410009025 Walker B; other site 187410009026 D-loop; other site 187410009027 H-loop/switch region; other site 187410009028 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 187410009029 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410009030 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_9; cd06318 187410009031 putative ligand binding site; other site 187410009032 ornithine decarboxylase; Provisional; Region: PRK13578 187410009033 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 187410009034 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 187410009035 homodimer interface; other site 187410009036 pyridoxal 5'-phosphate binding site; other site 187410009037 catalytic residue; other site 187410009038 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 187410009039 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 187410009040 IS1 transposase; Region: Transposase_27; cl00721 187410009041 Insertion element protein; Region: Ins_element1; pfam03811 187410009042 Peptidase family M23; Region: Peptidase_M23; pfam01551 187410009043 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 187410009044 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 187410009045 IS1 transposase; Region: Transposase_27; cl00721 187410009046 IS1 transposase; Region: Transposase_27; cl00721 187410009047 Insertion element protein; Region: Ins_element1; pfam03811 187410009048 Peptidase family M23; Region: Peptidase_M23; pfam01551 187410009049 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 187410009050 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 187410009051 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 187410009052 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 187410009053 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 187410009054 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...; Region: AAA; cd00009 187410009055 Walker A motif; other site 187410009056 ATP binding site; other site 187410009057 Walker B motif; other site 187410009058 arginine finger; other site 187410009059 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...; Region: AAA; cd00009 187410009060 Walker A motif; other site 187410009061 ATP binding site; other site 187410009062 Walker B motif; other site 187410009063 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 187410009064 Protein of unknown function (DUF796); Region: DUF796; cl01226 187410009065 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187410009066 ligand binding site; other site 187410009067 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 187410009068 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 187410009069 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 187410009070 Protein of unknown function (DUF877); Region: DUF877; pfam05943 187410009071 Protein of unknown function (DUF770); Region: DUF770; cl01402 187410009072 CAAX amino terminal protease family; Region: Abi; cl00558 187410009073 Autoinducer synthetase; Region: Autoind_synth; pfam00765 187410009074 Autoinducer binding domain; Region: Autoind_bind; pfam03472 187410009075 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...; Region: LuxR_C_like; cd06170 187410009076 DNA binding residues 187410009077 dimerization interface; other site 187410009078 Predicted secreted protein [Function unknown]; Region: COG5501; cl02313 187410009079 Predicted peptidase [General function prediction only]; Region: COG4099 187410009080 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 187410009081 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 187410009082 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 187410009083 putative active site; other site 187410009084 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 187410009085 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 187410009086 IucA / IucC family; Region: IucA_IucC; pfam04183 187410009087 IucA / IucC family; Region: IucA_IucC; pfam04183 187410009088 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 187410009089 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 187410009090 Siderophore biosynthesis protein domain; Region: AlcB; pfam10331 187410009091 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 187410009092 IucA / IucC family; Region: IucA_IucC; pfam04183 187410009093 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 187410009094 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 187410009095 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187410009096 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 187410009097 N-terminal plug; other site 187410009098 ligand-binding site; other site 187410009099 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 187410009100 putative transporter; Provisional; Region: PRK11462 187410009101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 187410009102 putative transposase OrfB; Reviewed; Region: PHA02517 187410009103 Integrase core domain; Region: rve; cl01316 187410009104 CHASE4 domain; Region: CHASE4; cl01308 187410009105 PAS domain S-box; Region: sensory_box; TIGR00229 187410009106 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 187410009107 putative active site; other site 187410009108 heme pocket; other site 187410009109 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187410009110 metal-binding site 187410009111 active site 187410009112 I-site; other site 187410009113 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 187410009114 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 187410009115 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 187410009116 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 187410009117 putative lipoprotein; Provisional; Region: PRK09707 187410009118 putative lipoprotein; Provisional; Region: PRK09707 187410009119 putative lipoprotein; Provisional; Region: PRK09707 187410009120 putative lipoprotein; Provisional; Region: PRK09707 187410009121 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 187410009122 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 187410009123 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410009124 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 187410009125 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 187410009126 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 187410009127 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 187410009128 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 187410009129 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 187410009130 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; cl09110 187410009131 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 187410009132 Peptidase dimerization domain; Region: M20_dimer; cl09126 187410009133 peptidase T; Region: peptidase-T; TIGR01882 187410009134 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187410009135 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 187410009136 N-terminal plug; other site 187410009137 ligand-binding site; other site 187410009138 peptide synthase; Validated; Region: PRK05691 187410009139 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410009140 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187410009141 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 187410009142 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 187410009143 active site 187410009144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410009145 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410009146 Integrase core domain; Region: rve; cl01316 187410009147 transposase/IS protein; Provisional; Region: PRK09183 187410009148 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...; Region: AAA; cd00009 187410009149 Walker A motif; other site 187410009150 ATP binding site; other site 187410009151 Walker B motif; other site 187410009152 3-oxoacyl-(acyl carrier protein) synthase II; Provisional; Region: PRK14691 187410009153 Condensation domain; Region: Condensation; cl09290 187410009154 Nonribosomal peptide synthase; Region: NRPS; pfam08415 187410009155 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410009156 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 187410009157 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410009158 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187410009159 Condensation domain; Region: Condensation; cl09290 187410009160 Nonribosomal peptide synthase; Region: NRPS; pfam08415 187410009161 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 187410009162 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 187410009163 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410009164 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187410009165 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 187410009166 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 187410009167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410009168 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 187410009169 Thioesterase domain; Region: Thioesterase; pfam00975 187410009170 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 187410009171 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 187410009172 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 187410009173 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410009174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410009175 Walker A/P-loop; other site 187410009176 ATP binding site; other site 187410009177 Q-loop/lid; other site 187410009178 ABC transporter signature motif; other site 187410009179 Walker B; other site 187410009180 D-loop; other site 187410009181 H-loop/switch region; other site 187410009182 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 187410009183 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 187410009184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410009185 Walker A/P-loop; other site 187410009186 ATP binding site; other site 187410009187 Q-loop/lid; other site 187410009188 ABC transporter signature motif; other site 187410009189 Walker B; other site 187410009190 D-loop; other site 187410009191 H-loop/switch region; other site 187410009192 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; cl09110 187410009193 gluconate transporter; Region: gntP; TIGR00791 187410009194 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 187410009195 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 187410009196 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410009197 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 187410009198 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 187410009199 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410009200 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 187410009201 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 187410009202 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 187410009203 RHS Repeat; Region: RHS_repeat; cl11982 187410009204 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 187410009205 RHS Repeat; Region: RHS_repeat; cl11982 187410009206 RHS Repeat; Region: RHS_repeat; cl11982 187410009207 RHS Repeat; Region: RHS_repeat; cl11982 187410009208 RHS Repeat; Region: RHS_repeat; cl11982 187410009209 RHS Repeat; Region: RHS_repeat; cl11982 187410009210 RHS Repeat; Region: RHS_repeat; cl11982 187410009211 RHS protein; Region: RHS; pfam03527 187410009212 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 187410009213 hypothetical protein; Provisional; Region: PRK10039 187410009214 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 187410009215 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 187410009216 transmembrane helices; other site 187410009217 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410009218 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410009219 DNA binding site 187410009220 domain linker motif; other site 187410009221 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 187410009222 putative dimerization interface; other site 187410009223 putative ligand binding site; other site 187410009224 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl12144 187410009225 putative transposase OrfB; Reviewed; Region: PHA02517 187410009226 Integrase core domain; Region: rve; cl01316 187410009227 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 187410009228 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 187410009229 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 187410009230 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...; Region: trans_reg_C; cd00383 187410009231 DNA binding site 187410009232 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 187410009233 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 187410009234 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 187410009235 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 187410009236 Rod binding protein; Region: Rod-binding; cl01626 187410009237 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 187410009238 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 187410009239 Flagellar L-ring protein; Region: FlgH; cl00905 187410009240 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 187410009241 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 187410009242 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 187410009243 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 187410009244 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 187410009245 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 187410009246 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 187410009247 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 187410009248 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 187410009249 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 187410009250 Flagellar hook capping protein; Region: FlgD; cl04347 187410009251 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 187410009252 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 187410009253 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl09471 187410009254 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 187410009255 SAF domain; Region: SAF; cl00555 187410009256 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 187410009257 FlgN protein; Region: FlgN; cl09176 187410009258 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 187410009259 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07196 187410009260 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410009261 Walker A motif; other site 187410009262 ATP binding site; other site 187410009263 Walker B motif; other site 187410009264 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 187410009265 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 187410009266 Flagellar assembly protein FliH; Region: FliH; pfam02108 187410009267 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 187410009268 FliG C-terminal domain; Region: FliG_C; pfam01706 187410009269 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 187410009270 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 187410009271 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 187410009272 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 187410009273 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 187410009274 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...; Region: AAA; cd00009 187410009275 Walker A motif; other site 187410009276 ATP binding site; other site 187410009277 Walker B motif; other site 187410009278 arginine finger; other site 187410009279 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 187410009280 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 187410009281 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 187410009282 FliP family; Region: FliP; cl00593 187410009283 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 187410009284 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 187410009285 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 187410009286 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 187410009287 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 187410009288 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 187410009289 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 187410009290 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...; Region: FhuD; cd01146 187410009291 siderophore binding site; other site 187410009292 Fimbrial protein; Region: Fimbrial; cl01416 187410009293 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410009294 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410009295 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410009296 Fimbrial Usher protein; Region: Usher; pfam00577 187410009297 Transposase IS200 like; Region: Transposase_17; cl00848 187410009298 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 187410009299 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 187410009300 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 187410009301 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 187410009302 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 187410009303 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 187410009304 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 187410009305 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...; Region: VirB11-like_ATPase; cd01130 187410009306 ATP binding site; other site 187410009307 Walker A motif; other site 187410009308 hexamer interface; other site 187410009309 Walker B motif; other site 187410009310 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 187410009311 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 187410009312 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 187410009313 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 187410009314 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 187410009315 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 187410009316 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 187410009317 cystathionine beta-lyase; Provisional; Region: PRK08114 187410009318 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 187410009319 pyridoxal 5'-phosphate binding pocket; other site 187410009320 catalytic residue; other site 187410009321 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 187410009322 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 187410009323 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410009324 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 187410009325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410009326 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 187410009327 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 187410009328 dimer interface; other site 187410009329 active site 187410009330 metal-binding site 187410009331 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...; Region: Aldo_ket_red; cd06660 187410009332 active site 187410009333 catalytic tetrad; other site 187410009334 hypothetical protein; Provisional; Region: PRK01254 187410009335 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 187410009336 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 187410009337 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 187410009338 repressor protein for FtsI; Provisional; Region: PRK10883 187410009339 Multicopper oxidase; Region: Cu-oxidase; cl11412 187410009340 Multicopper oxidase; Region: Cu-oxidase; cl11412 187410009341 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 187410009342 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 187410009343 putative acyl-acceptor binding pocket; other site 187410009344 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 187410009345 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...; Region: TOP4c; cd00187 187410009346 CAP-like domain; other site 187410009347 active site 187410009348 primary dimer interface; other site 187410009349 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410009350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187410009351 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410009352 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 187410009353 dimerization interface; other site 187410009354 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 187410009355 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 187410009356 ATP binding site; other site 187410009357 Mg2+ binding site; other site 187410009358 G-X-G motif; other site 187410009359 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 187410009360 anchoring element; other site 187410009361 dimer interface; other site 187410009362 ATP binding site; other site 187410009363 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 187410009364 active site 187410009365 metal-binding site 187410009366 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 187410009367 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 187410009368 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional; Region: PRK11148 187410009369 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 187410009370 active site 187410009371 metal-binding site 187410009372 hexamer interface; other site 187410009373 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 187410009374 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 187410009375 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...; Region: ADPRase_NUDT5; cd03424 187410009376 dimer interface; other site 187410009377 ADP-ribose binding site; other site 187410009378 active site 187410009379 nudix motif; other site 187410009380 metal-binding site 187410009381 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 187410009382 Outer membrane efflux protein; Region: OEP; pfam02321 187410009383 Outer membrane efflux protein; Region: OEP; pfam02321 187410009384 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 187410009385 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 187410009386 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 187410009387 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 187410009388 putative active site; other site 187410009389 metal-binding site 187410009390 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 187410009391 Protein of unknown function (DUF526); Region: DUF526; cl01115 187410009392 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410009393 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 187410009394 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 187410009395 putative ribose interaction site; other site 187410009396 putative ADP binding site; other site 187410009397 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187410009398 active site 187410009399 nucleotide binding site; other site 187410009400 HIGH motif; other site 187410009401 KMSKS motif; other site 187410009402 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 187410009403 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 187410009404 metal binding triad; other site 187410009405 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 187410009406 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 187410009407 metal binding triad; other site 187410009408 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 187410009409 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 187410009410 putative active site; other site 187410009411 putative metal binding residues; other site 187410009412 signature motif; other site 187410009413 putative triphosphate binding site; other site 187410009414 putative signal transduction protein; Provisional; Region: PRK10884 187410009415 Bacterial SH3 domain; Region: SH3_3; cl02551 187410009416 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 187410009417 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cl11966 187410009418 metal binding triad; metal-binding site 187410009419 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 187410009420 Bacitracin resistance protein BacA; Region: BacA; cl00858 187410009421 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...; Region: DHNA_DHNTPE; cd00534 187410009422 homooctamer interface; other site 187410009423 active site 187410009424 Domain of unknown function (DUF205); Region: DUF205; cl00410 187410009425 putative DNA-binding/iron metalloprotein/AP endonuclease; Reviewed; Region: PRK09604 187410009426 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 187410009427 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 187410009428 DNA primase; Validated; Region: dnaG; PRK05667 187410009429 CHC2 zinc finger; Region: zf-CHC2; cl02597 187410009430 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 187410009431 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 187410009432 active site 187410009433 metal-binding site 187410009434 interdomain interaction site; other site 187410009435 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 187410009436 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 187410009437 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 187410009438 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 187410009439 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 187410009440 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 187410009441 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187410009442 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 187410009443 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...; Region: Sigma70_r4; cd06171 187410009444 DNA binding residues 187410009445 Terminase small subunit; Region: Terminase_2; cl01513 187410009446 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...; Region: HNHc; cl00083 187410009447 Fic/DOC family; Region: Fic; cl00960 187410009448 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187410009449 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410009450 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 187410009451 putative effector binding pocket; other site 187410009452 putative dimerization interface; other site 187410009453 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 187410009454 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 187410009455 catalytic residues; other site 187410009456 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 187410009457 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 187410009458 homotrimer interaction site; other site 187410009459 putative active site; other site 187410009460 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 187410009461 homotrimer interaction site; other site 187410009462 putative active site; other site 187410009463 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 187410009464 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; cl09110 187410009465 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; cl09110 187410009466 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 187410009467 aspartate aminotransferase; Provisional; Region: PRK06108 187410009468 pyridoxal 5'-phosphate binding site; other site 187410009469 homodimer interface; other site 187410009470 catalytic residue; other site 187410009471 multidrug resistance protein MdtN; Provisional; Region: PRK10476 187410009472 Outer membrane efflux protein; Region: OEP; pfam02321 187410009473 Predicted membrane protein [Function unknown]; Region: COG1289 187410009474 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 187410009475 Outer membrane efflux protein; Region: OEP; pfam02321 187410009476 Outer membrane efflux protein; Region: OEP; pfam02321 187410009477 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 187410009478 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 187410009479 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 187410009480 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410009481 dimer interface; other site 187410009482 conserved gate region; other site 187410009483 putative PBP binding loops; other site 187410009484 ABC-ATPase subunit interface; other site 187410009485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 187410009486 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 187410009487 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 187410009488 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410009489 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410009490 DNA binding site 187410009491 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 187410009492 ligand binding site; other site 187410009493 dimerization interface; other site 187410009494 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 187410009495 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 187410009496 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 187410009497 Walker A/P-loop; other site 187410009498 ATP binding site; other site 187410009499 Q-loop/lid; other site 187410009500 ABC transporter signature motif; other site 187410009501 Walker B; other site 187410009502 D-loop; other site 187410009503 H-loop/switch region; other site 187410009504 TOBE domain; Region: TOBE_2; cl01440 187410009505 Uncharacterized protein conserved in bacteria (DUF2329); Region: DUF2329; pfam10091 187410009506 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410009507 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 187410009508 haemagglutination activity domain; Region: Haemagg_act; cl05436 187410009509 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 187410009510 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 187410009511 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410009512 Surface antigen; Region: Bac_surface_Ag; cl03097 187410009513 VWA subfamily: 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-...; Region: vWA_subfamily; cd01464 187410009514 metal ion-dependent adhesion site (MIDAS); other site 187410009515 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 187410009516 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 187410009517 putative metal binding site; other site 187410009518 VWA subfamily: 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...; Region: vWA_subfamily; cd01464 187410009519 metal ion-dependent adhesion site (MIDAS); other site 187410009520 VWA subfamily: 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-...; Region: vWA_subfamily; cd01464 187410009521 metal ion-dependent adhesion site (MIDAS); other site 187410009522 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 187410009523 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 187410009524 substrate binding site; other site 187410009525 activation loop (A-loop); other site 187410009526 Uncharacterized conserved protein [Function unknown]; Region: HdeD; cl01277 187410009527 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 187410009528 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 187410009529 active site 187410009530 FMN binding site; other site 187410009531 2,4-decadienoyl-CoA binding site; other site 187410009532 catalytic residue; other site 187410009533 4Fe-4S cluster binding site; other site 187410009534 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 187410009535 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 187410009536 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410009537 adhesin; Provisional; Region: PRK09752 187410009538 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 187410009539 large tegument protein UL36; Provisional; Region: PHA03245 187410009540 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410009541 Protein of unknown function DUF45; Region: DUF45; cl00636 187410009542 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 187410009543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410009544 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 187410009545 Transposase IS200 like; Region: Transposase_17; cl00848 187410009546 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 187410009547 galactarate dehydratase; Region: galactar-dH20; TIGR03248 187410009548 SAF domain; Region: SAF; cl00555 187410009549 SAF domain; Region: SAF; cl00555 187410009550 altronate oxidoreductase; Provisional; Region: PRK03643 187410009551 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 187410009552 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 187410009553 Glucuronate isomerase; Region: UxaC; cl00829 187410009554 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 187410009555 d-galactonate transporter; Region: 2A0114; TIGR00893 187410009556 putative substrate translocation pore; other site 187410009557 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 187410009558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187410009559 DNA binding site 187410009560 FCD domain; Region: FCD; cl11656 187410009561 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 187410009562 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 187410009563 hypothetical protein; Provisional; Region: PRK10629 187410009564 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 187410009565 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 187410009566 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 187410009567 DoxX; Region: DoxX; cl00976 187410009568 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 187410009569 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410009570 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410009571 Integrase core domain; Region: rve; cl01316 187410009572 transposase/IS protein; Provisional; Region: PRK09183 187410009573 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...; Region: AAA; cd00009 187410009574 Walker A motif; other site 187410009575 ATP binding site; other site 187410009576 Walker B motif; other site 187410009577 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 187410009578 active site 187410009579 8-oxo-dGMP binding site; other site 187410009580 nudix motif; other site 187410009581 metal-binding site 187410009582 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 187410009583 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 187410009584 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 187410009585 nucleotide binding region; other site 187410009586 ATP-binding site; other site 187410009587 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 187410009588 hypothetical protein; Provisional; Region: PRK10396 187410009589 SEC-C motif; Region: SEC-C; cl12132 187410009590 Secretion monitor precursor protein (SecM); Region: SecM; cl11636 187410009591 Protein of unknown function (DUF721); Region: DUF721; cl02324 187410009592 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 187410009593 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 187410009594 cell division protein FtsZ; Validated; Region: PRK09330 187410009595 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...; Region: FtsZ_type1; cd02201 187410009596 nucleotide binding site; other site 187410009597 SulA interaction site; other site 187410009598 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 187410009599 Cell division protein FtsA; Region: FtsA; cl11496 187410009600 Cell division protein FtsA; Region: FtsA; cl11496 187410009601 cell division protein FtsQ; Provisional; Region: PRK10775 187410009602 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 187410009603 Cell division protein FtsQ; Region: FtsQ; pfam03799 187410009604 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 187410009605 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 187410009606 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410009607 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 187410009608 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 187410009609 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187410009610 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 187410009611 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 187410009612 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...; Region: GT1_MurG; cd03785 187410009613 active site 187410009614 homodimer interface; other site 187410009615 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 187410009616 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 187410009617 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187410009618 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 187410009619 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 187410009620 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 187410009621 Mg++ binding site; other site 187410009622 putative catalytic motif; other site 187410009623 putative substrate binding site; other site 187410009624 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 187410009625 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 187410009626 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187410009627 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 187410009628 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 187410009629 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 187410009630 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187410009631 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 187410009632 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 187410009633 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 187410009634 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 187410009635 Septum formation initiator; Region: DivIC; cl11433 187410009636 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410009637 cell division protein MraZ; Reviewed; Region: PRK00326 187410009638 MraZ protein; Region: MraZ; pfam02381 187410009639 MraZ protein; Region: MraZ; pfam02381 187410009640 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 187410009641 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 187410009642 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410009643 DNA binding site 187410009644 domain linker motif; other site 187410009645 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 187410009646 dimerization interface; other site 187410009647 ligand binding site; other site 187410009648 Transposase IS200 like; Region: Transposase_17; cl00848 187410009649 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 187410009650 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 187410009651 putative valine binding site; other site 187410009652 dimer interface; other site 187410009653 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 187410009654 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 187410009655 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 187410009656 PYR/PP interface; other site 187410009657 dimer interface; other site 187410009658 TPP binding site; other site 187410009659 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 187410009660 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 187410009661 TPP-binding site; other site 187410009662 dimer interface; other site 187410009663 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 187410009664 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410009665 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 187410009666 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 187410009667 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410009668 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 187410009669 putative substrate binding pocket; other site 187410009670 putative dimerization interface; other site 187410009671 similar to leu operon leader peptide; residues 10 to 27 of 27 are 66.66 pct identical to residues 11 to 28 of 28 from E. coli K12 : B0075 187410009672 Transposase IS200 like; Region: Transposase_17; cl00848 187410009673 2-isopropylmalate synthase; Validated; Region: PRK00915 187410009674 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 187410009675 active site 187410009676 catalytic residues; other site 187410009677 metal-binding site 187410009678 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 187410009679 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 187410009680 isocitrate dehydrogenase; Validated; Region: PRK06451 187410009681 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 187410009682 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 187410009683 substrate binding site; other site 187410009684 ligand binding site; other site 187410009685 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 3-...; Region: IPMI_Swivel; cd01577 187410009686 substrate binding site; other site 187410009687 sugar efflux transporter; Region: 2A0120; TIGR00899 187410009688 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 187410009689 putative substrate translocation pore; other site 187410009690 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 187410009691 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 187410009692 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 187410009693 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 187410009694 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 187410009695 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410009696 dimer interface; other site 187410009697 conserved gate region; other site 187410009698 putative PBP binding loops; other site 187410009699 ABC-ATPase subunit interface; other site 187410009700 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410009701 dimer interface; other site 187410009702 conserved gate region; other site 187410009703 putative PBP binding loops; other site 187410009704 ABC-ATPase subunit interface; other site 187410009705 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 187410009706 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 187410009707 Walker A/P-loop; other site 187410009708 ATP binding site; other site 187410009709 Q-loop/lid; other site 187410009710 ABC transporter signature motif; other site 187410009711 Walker B; other site 187410009712 D-loop; other site 187410009713 H-loop/switch region; other site 187410009714 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 187410009715 DNA polymerase II; Reviewed; Region: PRK05762 187410009716 The 3'-5' exonuclease domain of Escherichia coli DNA polymerase II (PolII) and similar bacterial proteins. PolII is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide...; Region: DNA_polB_II_exo; cd05784 187410009717 active site 187410009718 catalytic site; other site 187410009719 substrate binding site; other site 187410009720 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 187410009721 active site 187410009722 metal-binding site 187410009723 ATP-dependent helicase HepA; Validated; Region: PRK04914 187410009724 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 187410009725 ATP binding site; other site 187410009726 putative Mg++ binding site; other site 187410009727 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 187410009728 nucleotide binding region; other site 187410009729 ATP-binding site; other site 187410009730 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 187410009731 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 187410009732 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 187410009733 hypothetical protein; Provisional; Region: PRK07034 187410009734 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 187410009735 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187410009736 ligand binding site; other site 187410009737 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 187410009738 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521; cl01405 187410009739 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 187410009740 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 187410009741 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 187410009742 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 187410009743 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 187410009744 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 187410009745 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 187410009746 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 187410009747 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 187410009748 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 187410009749 Clp amino terminal domain; Region: Clp_N; pfam02861 187410009750 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...; Region: AAA; cd00009 187410009751 Walker A motif; other site 187410009752 ATP binding site; other site 187410009753 Walker B motif; other site 187410009754 arginine finger; other site 187410009755 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...; Region: AAA; cd00009 187410009756 Walker A motif; other site 187410009757 ATP binding site; other site 187410009758 Walker B motif; other site 187410009759 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 187410009760 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 187410009761 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 187410009762 Protein of unknown function (DUF796); Region: DUF796; cl01226 187410009763 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 187410009764 Protein of unknown function (DUF877); Region: DUF877; pfam05943 187410009765 Protein of unknown function (DUF770); Region: DUF770; cl01402 187410009766 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 187410009767 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 187410009768 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 187410009769 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 187410009770 active site 187410009771 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 187410009772 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 187410009773 putative metal binding site; other site 187410009774 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...; Region: DnaJ; cd06257 187410009775 HSP70 interaction site; other site 187410009776 organic solvent tolerance protein; Provisional; Region: PRK03761 187410009777 OstA-like protein; Region: OstA; cl00844 187410009778 Organic solvent tolerance protein; Region: OstA_C; pfam04453 187410009779 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 187410009780 SurA N-terminal domain; Region: SurA_N; pfam09312 187410009781 PPIC-type PPIASE domain; Region: Rotamase; cl08278 187410009782 PPIC-type PPIASE domain; Region: Rotamase; cl08278 187410009783 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 187410009784 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 187410009785 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410009786 Protein of unknown function (DUF525); Region: DUF525; cl01119 187410009787 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 187410009788 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 187410009789 active site 187410009790 metal-binding site 187410009791 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 187410009792 Transposase IS200 like; Region: Transposase_17; cl00848 187410009793 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 5,10-...; Region: DHFR; cd00209 187410009794 folate binding site; other site 187410009795 NADP+ binding site; other site 187410009796 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 187410009797 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 187410009798 LysE type translocator; Region: LysE; cl00565 187410009799 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 187410009800 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 187410009801 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410009802 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 187410009803 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 187410009804 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410009805 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 187410009806 IMP binding site; other site 187410009807 dimer interface; other site 187410009808 interdomain contacts; other site 187410009809 partial ornithine binding site; other site 187410009810 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 187410009811 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 187410009812 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 187410009813 catalytic site; other site 187410009814 subunit interface; other site 187410009815 dihydrodipicolinate reductase; Provisional; Region: PRK00048 187410009816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410009817 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 187410009818 Transposase IS200 like; Region: Transposase_17; cl00848 187410009819 LytB protein; Region: LYTB; cl00507 187410009820 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 187410009821 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 187410009822 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 187410009823 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 187410009824 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 187410009825 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187410009826 HIGH motif; other site 187410009827 active site 187410009828 nucleotide binding site; other site 187410009829 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 187410009830 active site 187410009831 KMSKS motif; other site 187410009832 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 187410009833 tRNA binding surface; other site 187410009834 anticodon binding site; other site 187410009835 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 187410009836 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 187410009837 riboflavin kinase, C-terminal domain of the bifunctional riboflavin biosynthesis protein; Region: Flavokinase_C; cd02064 187410009838 active site 187410009839 Riboflavin kinase; Region: Flavokinase; pfam01687 187410009840 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 187410009841 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 187410009842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410009843 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 187410009844 putative dimerization interface; other site 187410009845 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 187410009846 chaperone protein DnaJ; Provisional; Region: PRK10767 187410009847 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...; Region: DnaJ; cd06257 187410009848 HSP70 interaction site; other site 187410009849 DnaJ C terminal region; Region: DnaJ_C; pfam01556 187410009850 DnaJ C terminal region; Region: DnaJ_C; pfam01556 187410009851 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 187410009852 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 187410009853 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410009854 metabolite-proton symporter; Region: 2A0106; TIGR00883 187410009855 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 187410009856 putative substrate translocation pore; other site 187410009857 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 187410009858 MPT binding site; other site 187410009859 trimer interface; other site 187410009860 Transaldolases including both TalA and TalB. The enzyme catalyses the reversible transfer of a dyhydroxyacetone moiety, derived from fructose-6-phosphate to erythrose-4-phosphate yielding sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate. The...; Region: Transaldolase_TalAB; cd00957 187410009861 active site 187410009862 dimer interface; other site 187410009863 catalytic residue; other site 187410009864 Protein of unknown function (DUF328); Region: DUF328; cl01143 187410009865 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 187410009866 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 187410009867 pyridoxal 5'-phosphate binding pocket; other site 187410009868 catalytic residue; other site 187410009869 homoserine kinase; Provisional; Region: PRK01212 187410009870 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 187410009871 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 187410009872 bifunctional aspartokinase I/homeserine dehydrogenase I; Provisional; Region: thrA; PRK09436 187410009873 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli AKI-...; Region: AAK_AK-HSDH; cd04257 187410009874 putative catalytic residues; other site 187410009875 putative nucleotide binding site; other site 187410009876 putative aspartate binding site; other site 187410009877 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 187410009878 dimer interface; other site 187410009879 putative threonine allosteric regulatory site; other site 187410009880 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 187410009881 putative threonine allosteric regulatory site; other site 187410009882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410009883 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 187410009884 two-component response regulator; Provisional; Region: PRK11173 187410009885 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 187410009886 active site 187410009887 phosphorylation site 187410009888 intermolecular recognition site; other site 187410009889 dimerization interface; other site 187410009890 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...; Region: trans_reg_C; cd00383 187410009891 DNA binding site 187410009892 CreA protein; Region: CreA; cl01154 187410009893 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 187410009894 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410009895 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 187410009896 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 187410009897 catalytic core; other site 187410009898 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 187410009899 Trp repressor protein; Region: Trp_repressor; cl01121 187410009900 lytic murein transglycosylase; Provisional; Region: PRK11619 187410009901 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 187410009902 N-acetyl-D-glucosamine binding site; other site 187410009903 catalytic residue; other site 187410009904 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 187410009905 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 187410009906 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187410009907 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; cl11391 187410009908 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 187410009909 hypothetical protein; Provisional; Region: PRK09966 187410009910 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410009911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187410009912 metal-binding site 187410009913 active site 187410009914 I-site; other site 187410009915 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187410009916 ligand binding site; other site 187410009917 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410009918 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410009919 Integrase core domain; Region: rve; cl01316 187410009920 transposase/IS protein; Provisional; Region: PRK09183 187410009921 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...; Region: AAA; cd00009 187410009922 Walker A motif; other site 187410009923 ATP binding site; other site 187410009924 Walker B motif; other site 187410009925 Fic family protein [Function unknown]; Region: COG3177 187410009926 Fic/DOC family; Region: Fic; cl00960 187410009927 Fic/DOC family; Region: Fic; cl00960 187410009928 DNA repair protein RadA; Provisional; Region: PRK11823 187410009929 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 187410009930 Walker A motif/ATP binding site; other site 187410009931 ATP binding site; other site 187410009932 Walker B motif; other site 187410009933 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 187410009934 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 187410009935 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 187410009936 motif II; other site 187410009937 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 187410009938 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 187410009939 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl12023 187410009940 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 187410009941 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family. DERA belongs to the class I aldolases and catalyzes a reversible aldol reaction between acetaldehyde and glyceraldehyde 3-phosphate to generate 2-deoxyribose 5-phosphate. DERA is unique in...; Region: DeoC; cd00959 187410009942 intersubunit interface; other site 187410009943 active site 187410009944 catalytic residue; other site 187410009945 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 187410009946 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 187410009947 Nucleoside recognition; Region: Gate; cl00486 187410009948 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 187410009949 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 187410009950 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 187410009951 active site 187410009952 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 187410009953 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 187410009954 active site 187410009955 nucleophile elbow; other site 187410009956 periplasmic protein; Provisional; Region: PRK10568 187410009957 Putative phospholipid-binding domain; Region: BON; cl02771 187410009958 Putative phospholipid-binding domain; Region: BON; cl02771 187410009959 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 187410009960 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 187410009961 G1 box; other site 187410009962 putative GEF interaction site; other site 187410009963 GTP/Mg2+ binding site; other site 187410009964 Switch I region; other site 187410009965 G2 box; other site 187410009966 G3 box; other site 187410009967 Switch II region; other site 187410009968 G4 box; other site 187410009969 G5 box; other site 187410009970 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 187410009971 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410009972 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 187410009973 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 187410009974 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 187410009975 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 187410009976 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410009977 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 187410009978 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187410009979 metal-binding site 187410009980 active site 187410009981 I-site; other site 187410009982 Pectinesterase; Region: Pectinesterase; cl01911 187410009983 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 187410009984 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 187410009985 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 187410009986 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 187410009987 O-Antigen ligase; Region: Wzy_C; cl04850 187410009988 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 187410009989 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 187410009990 putative active site; other site 187410009991 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 187410009992 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 187410009993 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 187410009994 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 187410009995 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 187410009996 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410009997 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...; Region: ABC_Carb_Monos_I; cd03216 187410009998 Walker A/P-loop; other site 187410009999 ATP binding site; other site 187410010000 Q-loop/lid; other site 187410010001 ABC transporter signature motif; other site 187410010002 Walker B; other site 187410010003 D-loop; other site 187410010004 H-loop/switch region; other site 187410010005 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 187410010006 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 187410010007 TM-ABC transporter signature motif; other site 187410010008 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 187410010009 TM-ABC transporter signature motif; other site 187410010010 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410010011 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 187410010012 ligand binding site; other site 187410010013 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 187410010014 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly...; Region: DhnA; cd00958 187410010015 putative active site; other site 187410010016 catalytic residue; other site 187410010017 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 187410010018 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 187410010019 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 187410010020 dimerization domain swap beta strand; other site 187410010021 regulatory protein interface; other site 187410010022 active site 187410010023 regulatory phosphorylation site; other site 187410010024 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 187410010025 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 187410010026 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 187410010027 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 187410010028 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 187410010029 active site 187410010030 phosphorylation site 187410010031 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 187410010032 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 187410010033 P-loop; other site 187410010034 active site 187410010035 phosphorylation site 187410010036 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 187410010037 P-loop; other site 187410010038 active site 187410010039 phosphorylation site 187410010040 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 187410010041 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410010042 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 187410010043 Peptidase family M48; Region: Peptidase_M48; cl12018 187410010044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 187410010045 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 187410010046 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 187410010047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 187410010048 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 187410010049 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 187410010050 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410010051 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410010052 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 187410010053 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 187410010054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410010055 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410010056 Integrase core domain; Region: rve; cl01316 187410010057 transposase/IS protein; Provisional; Region: PRK09183 187410010058 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...; Region: AAA; cd00009 187410010059 Walker A motif; other site 187410010060 ATP binding site; other site 187410010061 Walker B motif; other site 187410010062 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 187410010063 putative active site; other site 187410010064 dimerization interface; other site 187410010065 putative tRNAtyr binding site; other site 187410010066 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 187410010067 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 187410010068 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 187410010069 motif II; other site 187410010070 GTP-binding protein; Provisional; Region: PRK10218 187410010071 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 187410010072 G1 box; other site 187410010073 putative GEF interaction site; other site 187410010074 GTP/Mg2+ binding site; other site 187410010075 Switch I region; other site 187410010076 G2 box; other site 187410010077 G3 box; other site 187410010078 Switch II region; other site 187410010079 G4 box; other site 187410010080 G5 box; other site 187410010081 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 187410010082 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...; Region: BipA_TypA_C; cd03710 187410010083 glutamine synthetase; Provisional; Region: glnA; PRK09469 187410010084 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 187410010085 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 187410010086 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 187410010087 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 trans-...; Region: HisKA; cl00080 187410010088 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 187410010089 ATP binding site; other site 187410010090 Mg2+ binding site; other site 187410010091 G-X-G motif; other site 187410010092 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 187410010093 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 187410010094 active site 187410010095 phosphorylation site 187410010096 intermolecular recognition site; other site 187410010097 dimerization interface; other site 187410010098 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...; Region: AAA; cd00009 187410010099 Walker A motif; other site 187410010100 ATP binding site; other site 187410010101 Walker B motif; other site 187410010102 arginine finger; other site 187410010103 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 187410010104 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 187410010105 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 187410010106 FeS/SAM binding site; other site 187410010107 HemN C-terminal region; Region: HemN_C; pfam06969 187410010108 Protein of unknown function, DUF414; Region: DUF414; cl01172 187410010109 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 187410010110 G1 box; other site 187410010111 GTP/Mg2+ binding site; other site 187410010112 Switch I region; other site 187410010113 G2 box; other site 187410010114 G3 box; other site 187410010115 Switch II region; other site 187410010116 G4 box; other site 187410010117 G5 box; other site 187410010118 Transposase IS200 like; Region: Transposase_17; cl00848 187410010119 DNA polymerase I; Provisional; Region: PRK05755 187410010120 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 187410010121 metal binding site I; metal-binding site 187410010122 putative ssDNA interaction site; other site 187410010123 metal binding site II; metal-binding site 187410010124 The 3'-5' exonuclease domain of DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. E.coli-like Polymerase I (pol I), a subgroup of family-A DNA polymerases, contains a DEDDy-type DnaQ-like 3'-...; Region: DNA_polA_I_Ecoli_like_exo; cd06139 187410010125 active site 187410010126 catalytic site; other site 187410010127 substrate binding site; other site 187410010128 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 187410010129 active site 187410010130 DNA binding site 187410010131 catalytic site; other site 187410010132 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 187410010133 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 187410010134 catalytic residues; other site 187410010135 hinge region; other site 187410010136 alpha helical domain; other site 187410010137 Phosphotransferase enzyme family; Region: APH; pfam01636 187410010138 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 187410010139 ATP binding site; other site 187410010140 active site 187410010141 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 187410010142 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 187410010143 GTP binding site; other site 187410010144 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 187410010145 Walker A motif; other site 187410010146 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410010147 MULE transposase domain; Region: MULE; pfam10551 187410010148 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410010149 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410010150 Integrase core domain; Region: rve; cl01316 187410010151 transposase/IS protein; Provisional; Region: PRK09183 187410010152 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...; Region: AAA; cd00009 187410010153 Walker A motif; other site 187410010154 ATP binding site; other site 187410010155 Walker B motif; other site 187410010156 Histidine kinase; Region: HisKA_3; pfam07730 187410010157 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 187410010158 ATP binding site; other site 187410010159 Mg2+ binding site; other site 187410010160 G-X-G motif; other site 187410010161 regulatory protein UhpC; Provisional; Region: PRK11663 187410010162 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 187410010163 putative substrate translocation pore; other site 187410010164 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 187410010165 haemagglutination activity domain; Region: Haemagg_act; cl05436 187410010166 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 187410010167 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 187410010168 Surface antigen; Region: Bac_surface_Ag; cl03097 187410010169 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 187410010170 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 187410010171 peptide binding site; other site 187410010172 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410010173 dimer interface; other site 187410010174 conserved gate region; other site 187410010175 putative PBP binding loops; other site 187410010176 ABC-ATPase subunit interface; other site 187410010177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 187410010178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410010179 dimer interface; other site 187410010180 conserved gate region; other site 187410010181 putative PBP binding loops; other site 187410010182 ABC-ATPase subunit interface; other site 187410010183 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 187410010184 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 187410010185 Walker A/P-loop; other site 187410010186 ATP binding site; other site 187410010187 Q-loop/lid; other site 187410010188 ABC transporter signature motif; other site 187410010189 Walker B; other site 187410010190 D-loop; other site 187410010191 H-loop/switch region; other site 187410010192 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 187410010193 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 187410010194 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 187410010195 Walker A/P-loop; other site 187410010196 ATP binding site; other site 187410010197 Q-loop/lid; other site 187410010198 ABC transporter signature motif; other site 187410010199 Walker B; other site 187410010200 D-loop; other site 187410010201 H-loop/switch region; other site 187410010202 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 187410010203 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 187410010204 biofilm formation regulator HmsP; Provisional; Region: PRK11829 187410010205 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187410010206 metal-binding site 187410010207 active site 187410010208 I-site; other site 187410010209 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 187410010210 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 187410010211 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 187410010212 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 187410010213 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 187410010214 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 187410010215 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 187410010216 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 187410010217 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 187410010218 substrate binding site; other site 187410010219 ATP binding site; other site 187410010220 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 187410010221 active site 1 187410010222 dimer interface; other site 187410010223 hexamer interface; other site 187410010224 active site 2 187410010225 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 187410010226 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 187410010227 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 187410010228 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 187410010229 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta)...; Region: PL_Passenger_AT; cd00253 187410010230 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 187410010231 Autotransporter beta-domain; Region: Autotransporter; cl02365 187410010232 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 187410010233 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 187410010234 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 187410010235 Glycerate kinase family; Region: Gly_kinase; cl00841 187410010236 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; cl09110 187410010237 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 187410010238 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 187410010239 glutathione reductase; Validated; Region: PRK06116 187410010240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410010241 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 187410010242 Protein of unknown function (DUF519); Region: DUF519; cl04492 187410010243 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 187410010244 Peptidase family M3 dipeptidyl carboxypeptidase (DCP; Dcp II; peptidyl dipeptidase; EC 3.4.15.5). This metal-binding M3A family also includes oligopeptidase A (OpdA; EC 3.4.24.70) enzyme. DCP cleaves dipeptides off the C-termini of various peptides and...; Region: M3A_DCP_Oligopeptidase_A; cd06456 187410010245 active site 187410010246 zinc binding site; other site 187410010247 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410010248 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 187410010249 active site 187410010250 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 187410010251 glutamate dehydrogenase; Provisional; Region: PRK09414 187410010252 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 187410010253 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 187410010254 NAD(P) binding site; other site 187410010255 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 187410010256 Ligand Binding Site; other site 187410010257 Universal stress protein B (UspB); Region: UspB; cl11669 187410010258 Transposase IS200 like; Region: Transposase_17; cl00848 187410010259 Phosphate transporter family; Region: PHO4; cl00396 187410010260 Phosphate transporter family; Region: PHO4; cl00396 187410010261 Predicted flavoproteins [General function prediction only]; Region: COG2081 187410010262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410010263 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 187410010264 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 187410010265 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410010266 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 trans-...; Region: HisKA; cd00082 187410010267 dimer interface; other site 187410010268 phosphorylation site 187410010269 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 187410010270 ATP binding site; other site 187410010271 Mg2+ binding site; other site 187410010272 G-X-G motif; other site 187410010273 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 187410010274 active site 187410010275 phosphorylation site 187410010276 intermolecular recognition site; other site 187410010277 dimerization interface; other site 187410010278 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 187410010279 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...; Region: ABC_Carb_Monos_I; cd03216 187410010280 Walker A/P-loop; other site 187410010281 ATP binding site; other site 187410010282 Q-loop/lid; other site 187410010283 ABC transporter signature motif; other site 187410010284 Walker B; other site 187410010285 D-loop; other site 187410010286 H-loop/switch region; other site 187410010287 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 187410010288 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 187410010289 TM-ABC transporter signature motif; other site 187410010290 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410010291 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 187410010292 putative ligand binding site; other site 187410010293 Protein of unknown function (DUF1498); Region: DUF1498; cl01576 187410010294 tagatose-bisphosphate aldolase; Reviewed; Region: gatY; PRK09195 187410010295 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose...; Region: TBP_aldolase_IIB; cd00947 187410010296 intersubunit interface; other site 187410010297 active site 187410010298 zinc binding site; other site 187410010299 Na+ binding site; other site 187410010300 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 187410010301 substrate binding site; other site 187410010302 ATP binding site; other site 187410010303 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187410010304 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 187410010305 active site 187410010306 phosphorylation site 187410010307 intermolecular recognition site; other site 187410010308 dimerization interface; other site 187410010309 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...; Region: trans_reg_C; cd00383 187410010310 DNA binding site 187410010311 Cupin domain; Region: Cupin_2; cl09118 187410010312 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410010313 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410010314 DNA binding site 187410010315 domain linker motif; other site 187410010316 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 187410010317 putative ligand binding site; other site 187410010318 putative dimerization interface; other site 187410010319 gluconate transporter; Region: gntP; TIGR00791 187410010320 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; cl09110 187410010321 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 187410010322 ATP-binding site; other site 187410010323 Gluconate-6-phosphate binding site; other site 187410010324 MarC family integral membrane protein; Region: MarC; cl00919 187410010325 aspartate-semialdehyde dehydrogenase, gamma-proteobacterial; Region: asd_gamma; TIGR01745 187410010326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410010327 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 187410010328 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 187410010329 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 187410010330 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010331 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010332 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010333 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010334 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010335 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010336 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010337 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010338 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010339 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 187410010340 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 187410010341 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 187410010342 Histidine kinase; Region: His_kinase; pfam06580 187410010343 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 187410010344 glycogen branching enzyme; Provisional; Region: PRK05402 187410010345 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 187410010346 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 187410010347 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 187410010348 glycogen debranching enzyme; Provisional; Region: PRK03705 187410010349 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 187410010350 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 187410010351 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 187410010352 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 187410010353 ligand binding site; other site 187410010354 oligomer interface; other site 187410010355 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 rate-...; Region: LbH_G1P_AT_C; cd04651 187410010356 sulfate 1 binding site; other site 187410010357 glycogen synthase; Provisional; Region: glgA; PRK00654 187410010358 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 187410010359 ADP-binding pocket; other site 187410010360 homodimer interface; other site 187410010361 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 187410010362 homodimer interface; other site 187410010363 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 187410010364 active site pocket 187410010365 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 187410010366 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 187410010367 putative transposase OrfB; Reviewed; Region: PHA02517 187410010368 Integrase core domain; Region: rve; cl01316 187410010369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 187410010370 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 187410010371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 187410010372 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 187410010373 intramembrane serine protease GlpG; Provisional; Region: PRK10907 187410010374 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 187410010375 Rhomboid family; Region: Rhomboid; cl11446 187410010376 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 187410010377 active site residue 187410010378 transcriptional regulator MalT; Provisional; Region: PRK04841 187410010379 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...; Region: LuxR_C_like; cd06170 187410010380 DNA binding residues 187410010381 dimerization interface; other site 187410010382 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 187410010383 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 187410010384 putative DNA uptake protein; Provisional; Region: PRK11190 187410010385 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 187410010386 NifU-like domain; Region: NifU; cl00484 187410010387 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 187410010388 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410010389 carboxylesterase BioH; Provisional; Region: PRK10349 187410010390 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 187410010391 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 187410010392 FeoC like transcriptional regulator; Region: FeoC; pfam09012 187410010393 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 187410010394 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 187410010395 G1 box; other site 187410010396 GTP/Mg2+ binding site; other site 187410010397 Switch I region; other site 187410010398 G2 box; other site 187410010399 G3 box; other site 187410010400 Switch II region; other site 187410010401 G4 box; other site 187410010402 G5 box; other site 187410010403 Nucleoside recognition; Region: Gate; cl00486 187410010404 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 187410010405 Nucleoside recognition; Region: Gate; cl00486 187410010406 FeoA domain; Region: FeoA; cl00838 187410010407 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 187410010408 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 187410010409 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 187410010410 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 187410010411 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...; Region: S1_Tex; cd05685 187410010412 RNA binding site; other site 187410010413 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 187410010414 domain; Region: GreA_GreB_N; pfam03449 187410010415 C-term; Region: GreA_GreB; pfam01272 187410010416 osmolarity response regulator; Provisional; Region: ompR; PRK09468 187410010417 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 187410010418 active site 187410010419 phosphorylation site 187410010420 intermolecular recognition site; other site 187410010421 dimerization interface; other site 187410010422 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...; Region: trans_reg_C; cd00383 187410010423 DNA binding site 187410010424 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 187410010425 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410010426 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 trans-...; Region: HisKA; cd00082 187410010427 dimer interface; other site 187410010428 phosphorylation site 187410010429 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 187410010430 ATP binding site; other site 187410010431 Mg2+ binding site; other site 187410010432 G-X-G motif; other site 187410010433 phosphoenolpyruvate carboxykinase (ATP); Region: pckA; TIGR00224 187410010434 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 187410010435 active site 187410010436 substrate-binding site; other site 187410010437 metal-binding site 187410010438 ATP binding site; other site 187410010439 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 187410010440 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 187410010441 dimerization interface; other site 187410010442 domain crossover interface; other site 187410010443 redox-dependent activation switch; other site 187410010444 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 187410010445 RNA binding surface; other site 187410010446 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 187410010447 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; cl11391 187410010448 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 187410010449 ADP-ribose diphosphatase NudE; Provisional; Region: nudE; PRK11762 187410010450 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...; Region: ADPRase_NUDT5; cd03424 187410010451 dimer interface; other site 187410010452 ADP-ribose binding site; other site 187410010453 active site 187410010454 nudix motif; other site 187410010455 metal-binding site 187410010456 peptidoglycan synthetase; Provisional; Region: mrcA; PRK11636 187410010457 Transglycosylase; Region: Transgly; cl07896 187410010458 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 187410010459 Cell division protein FtsA; Region: FtsA; cl11496 187410010460 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 187410010461 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 187410010462 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 187410010463 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 187410010464 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 187410010465 shikimate kinase; Reviewed; Region: aroK; PRK00131 187410010466 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...; Region: SK; cd00464 187410010467 ADP binding site; other site 187410010468 magnesium binding site; other site 187410010469 putative shikimate binding site; other site 187410010470 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 187410010471 active site 187410010472 dimer interface; other site 187410010473 metal-binding site 187410010474 hypothetical protein; Reviewed; Region: PRK11901 187410010475 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 187410010476 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...; Region: RPE; cd00429 187410010477 substrate binding site; other site 187410010478 hexamer interface; other site 187410010479 metal-binding site 187410010480 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 187410010481 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; cl11391 187410010482 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 187410010483 motif II; other site 187410010484 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 187410010485 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 187410010486 active site 187410010487 HIGH motif; other site 187410010488 dimer interface; other site 187410010489 KMSKS motif; other site 187410010490 siroheme synthase; Provisional; Region: cysG; PRK10637 187410010491 precorrin-2 dehydrogenase; Validated; Region: PRK06719 187410010492 Sirohaem synthase dimerization region; Region: CysG_dimerizer; pfam10414 187410010493 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 187410010494 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 187410010495 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain...; Region: Rieske_NirD; cd03529 187410010496 nitrite reductase [NAD(P)H], large subunit; Region: nitri_red_nirB; TIGR02374 187410010497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410010498 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 187410010499 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 187410010500 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...; Region: Bact_CD; cd01293 187410010501 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 187410010502 active site 187410010503 hypothetical protein; Provisional; Region: PRK03699 187410010504 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 187410010505 putative substrate translocation pore; other site 187410010506 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 187410010507 N-terminal plug; other site 187410010508 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 187410010509 ligand-binding site; other site 187410010510 Transcriptional regulators [Transcription]; Region: PurR; COG1609 187410010511 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 187410010512 DNA binding site 187410010513 domain linker motif; other site 187410010514 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 187410010515 dimerization interface (closed form); other site 187410010516 ligand binding site; other site 187410010517 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 187410010518 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 187410010519 NAD binding site; other site 187410010520 sugar binding site; other site 187410010521 divalent metal binding site; other site 187410010522 tetramer (dimer of dimers) interface; other site 187410010523 dimer interface; other site 187410010524 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 187410010525 substrate binding site; other site 187410010526 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 187410010527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410010528 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 187410010529 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 187410010530 glutamine binding; other site 187410010531 catalytic triad; other site 187410010532 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 187410010533 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 187410010534 inhibitor-cofactor binding pocket; inhibition site 187410010535 pyridoxal 5'-phosphate binding site; other site 187410010536 catalytic residue; other site 187410010537 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 187410010538 hypothetical membrane protein, TIGR01666; Region: YCCS 187410010539 cAMP-regulatory protein; Provisional; Region: PRK11753 187410010540 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 187410010541 ligand binding site; other site 187410010542 flexible hinge region; other site 187410010543 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 187410010544 putative switch regulator; other site 187410010545 non-specific DNA interactions; other site 187410010546 DNA binding site 187410010547 sequence specific DNA binding site; other site 187410010548 putative cAMP binding site; other site 187410010549 OsmC-like protein; Region: OsmC; cl00767 187410010550 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 187410010551 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 187410010552 active site 187410010553 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 187410010554 putative hydrolase; Provisional; Region: PRK10985 187410010555 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 187410010556 LysE type translocator; Region: LysE; cl00565 187410010557 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 187410010558 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...; Region: PBPb; cd00134 187410010559 substrate binding pocket; other site 187410010560 membrane-bound complex binding site; other site 187410010561 hinge residues; other site 187410010562 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 187410010563 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 187410010564 Walker A/P-loop; other site 187410010565 ATP binding site; other site 187410010566 Q-loop/lid; other site 187410010567 ABC transporter signature motif; other site 187410010568 Walker B; other site 187410010569 D-loop; other site 187410010570 H-loop/switch region; other site 187410010571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 187410010572 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 187410010573 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 187410010574 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 187410010575 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 187410010576 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 187410010577 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 187410010578 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 187410010579 active site 187410010580 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410010581 H-loop/switch region; other site 187410010582 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 187410010583 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...; Region: ABCF_EF-3; cd03221 187410010584 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 187410010585 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410010586 Walker A/P-loop; other site 187410010587 ATP binding site; other site 187410010588 Q-loop/lid; other site 187410010589 ABC transporter signature motif; other site 187410010590 Walker B; other site 187410010591 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 187410010592 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 187410010593 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 187410010594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410010595 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 187410010596 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 187410010597 SlyX; Region: SlyX; cl01090 187410010598 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 187410010599 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 187410010600 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 187410010601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 187410010602 YheO-like PAS domain; Region: PAS_6; pfam08348 187410010603 DsrE/DsrF-like family; Region: DrsE; cl00672 187410010604 DsrE/DsrF-like family; Region: DrsE; cl00672 187410010605 DsrH like protein; Region: DsrH; cl00953 187410010606 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 187410010607 S17 interaction site; other site 187410010608 S8 interaction site; other site 187410010609 16S rRNA interaction site; other site 187410010610 streptomycin interaction site; other site 187410010611 23S rRNA interaction site; other site 187410010612 aminoacyl-tRNA interaction site (A-site); other site 187410010613 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 187410010614 elongation factor G; Reviewed; Region: PRK00007 187410010615 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 187410010616 G1 box; other site 187410010617 putative GEF interaction site; other site 187410010618 GTP/Mg2+ binding site; other site 187410010619 Switch I region; other site 187410010620 G2 box; other site 187410010621 G3 box; other site 187410010622 Switch II region; other site 187410010623 G4 box; other site 187410010624 G5 box; other site 187410010625 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...; Region: EFG_mtEFG_II; cd04088 187410010626 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...; Region: EFG_mtEFG1_IV; cd01434 187410010627 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...; Region: EFG_mtEFG_C; cd03713 187410010628 elongation factor Tu; Reviewed; Region: PRK00049 187410010629 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 187410010630 G1 box; other site 187410010631 GEF interaction site; other site 187410010632 GTP/Mg2+ binding site; other site 187410010633 Switch I region; other site 187410010634 G2 box; other site 187410010635 G3 box; other site 187410010636 Switch II region; other site 187410010637 G4 box; other site 187410010638 G5 box; other site 187410010639 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 187410010640 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 187410010641 Antibiotic Binding Site; other site 187410010642 Transposase IS200 like; Region: Transposase_17; cl00848 187410010643 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 187410010644 Ferritin-like domain; Region: Ferritin; pfam00210 187410010645 heme binding site; other site 187410010646 ferroxidase pore; other site 187410010647 ferroxidase diiron center; other site 187410010648 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 187410010649 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 187410010650 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 187410010651 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 187410010652 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 187410010653 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 187410010654 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 187410010655 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 187410010656 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 187410010657 protein-rRNA interface; other site 187410010658 putative translocon binding site; other site 187410010659 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 187410010660 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...; Region: 30S_S3_KH; cd02412 187410010661 G-X-X-G motif; other site 187410010662 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 187410010663 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 187410010664 23S rRNA interface; other site 187410010665 5S rRNA interface; other site 187410010666 putative antibiotic binding site; other site 187410010667 L25 interface; other site 187410010668 L27 interface; other site 187410010669 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...; Region: Ribosomal_L29_HIP; cl09943 187410010670 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 187410010671 KOW motif; Region: KOW; cl00354 187410010672 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 187410010673 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 187410010674 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 187410010675 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 187410010676 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 187410010677 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 187410010678 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 187410010679 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 187410010680 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 187410010681 5S rRNA interface; other site 187410010682 23S rRNA interface; other site 187410010683 L5 interface; other site 187410010684 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 187410010685 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 187410010686 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 187410010687 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...; Region: Ribosomal_L30; cd01658 187410010688 23S rRNA binding site; other site 187410010689 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 187410010690 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 187410010691 eubacterial secY protein; Region: SecY; pfam00344 187410010692 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 187410010693 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 187410010694 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 187410010695 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 187410010696 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 187410010697 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 187410010698 RNA binding surface; other site 187410010699 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 187410010700 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 187410010701 alphaNTD homodimer interface; other site 187410010702 alphaNTD - beta interaction site; other site 187410010703 alphaNTD - beta' interaction site; other site 187410010704 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 187410010705 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 187410010706 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 187410010707 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 187410010708 DNA binding residues 187410010709 dimer interface; other site 187410010710 metal-binding site 187410010711 Domain of unknown function; Region: DUF331; cl01149 187410010712 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 187410010713 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 187410010714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410010715 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; cl09110 187410010716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410010717 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; cl09110 187410010718 16S rRNA methyltransferase B; Provisional; Region: PRK10901 187410010719 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 187410010720 putative RNA binding site; other site 187410010721 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 187410010722 S-adenosylmethionine binding site; other site 187410010723 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 187410010724 Formyl transferase; Region: Formyl_trans_N; cl00395 187410010725 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 187410010726 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(...; Region: Pep_deformylase; cd00487 187410010727 active site 187410010728 catalytic residues; other site 187410010729 metal-binding site 187410010730 DNA protecting protein DprA; Provisional; Region: PRK10736 187410010731 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 187410010732 Protein of unknown function (DUF494); Region: DUF494; cl01103 187410010733 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 187410010734 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 187410010735 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 187410010736 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 187410010737 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 187410010738 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 187410010739 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 187410010740 shikimate binding site; other site 187410010741 NAD(P) binding site; other site 187410010742 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 187410010743 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 187410010744 trimer interface; other site 187410010745 putative metal binding site; other site 187410010746 transposase/IS protein; Provisional; Region: PRK09183 187410010747 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...; Region: AAA; cd00009 187410010748 Walker A motif; other site 187410010749 ATP binding site; other site 187410010750 Walker B motif; other site 187410010751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410010752 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410010753 Integrase core domain; Region: rve; cl01316 187410010754 MASE1; Region: MASE1; cl01367 187410010755 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 187410010756 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 187410010757 active site 187410010758 phosphorylation site 187410010759 intermolecular recognition site; other site 187410010760 dimerization interface; other site 187410010761 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...; Region: LuxR_C_like; cd06170 187410010762 DNA binding residues 187410010763 dimerization interface; other site 187410010764 phosphoethanolamine transferase; Provisional; Region: PRK11560 187410010765 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 187410010766 Sulfatase; Region: Sulfatase; cl10460 187410010767 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 187410010768 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 187410010769 Amino acid permease; Region: AA_permease; pfam00324 187410010770 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 187410010771 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 187410010772 active sites 187410010773 tetramer interface; other site 187410010774 urocanate hydratase; Provisional; Region: PRK05414 187410010775 urocanate hydratase; Region: hutU; TIGR01228 187410010776 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 187410010777 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 187410010778 dimer interface; other site 187410010779 pyridoxal 5'-phosphate binding site; other site 187410010780 catalytic residue; other site 187410010781 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 187410010782 hypothetical protein; Provisional; Region: PRK07206 187410010783 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 187410010784 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 187410010785 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 187410010786 putative ligand binding residues; other site 187410010787 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410010788 ABC-ATPase subunit interface; other site 187410010789 dimer interface; other site 187410010790 putative PBP binding regions; other site 187410010791 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...; Region: TM_ABC_iron-siderophores_like; cd06550 187410010792 ABC-ATPase subunit interface; other site 187410010793 dimer interface; other site 187410010794 putative PBP binding regions; other site 187410010795 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 187410010796 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 187410010797 Walker A/P-loop; other site 187410010798 ATP binding site; other site 187410010799 Q-loop/lid; other site 187410010800 ABC transporter signature motif; other site 187410010801 Walker B; other site 187410010802 D-loop; other site 187410010803 H-loop/switch region; other site 187410010804 Virulence protein [General function prediction only]; Region: COG3943 187410010805 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 187410010806 non-specific DNA binding site; other site 187410010807 salt bridge; other site 187410010808 sequence-specific DNA binding site; other site 187410010809 Transposase DDE domain; Region: Transposase_11; pfam01609 187410010810 integrase; Provisional; Region: PRK09692 187410010811 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 187410010812 Int/Topo IB signature motif; other site 187410010813 active site 187410010814 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 187410010815 putative dimerization interface; other site 187410010816 putative ligand binding site; other site 187410010817 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 187410010818 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410010819 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 187410010820 TM-ABC transporter signature motif; other site 187410010821 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 187410010822 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...; Region: ABC_Carb_Monos_I; cd03216 187410010823 Walker A/P-loop; other site 187410010824 ATP binding site; other site 187410010825 Q-loop/lid; other site 187410010826 ABC transporter signature motif; other site 187410010827 Walker B; other site 187410010828 D-loop; other site 187410010829 H-loop/switch region; other site 187410010830 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 187410010831 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 187410010832 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 187410010833 putative ligand binding site; other site 187410010834 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 187410010835 xylose isomerase; Region: PLN02923 187410010836 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 187410010837 D-xylulose kinase; Region: XylB; TIGR01312 187410010838 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 187410010839 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410010840 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410010841 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410010842 Fimbrial Usher protein; Region: Usher; pfam00577 187410010843 Fimbrial Usher protein; Region: Usher; pfam00577 187410010844 Fimbrial protein; Region: Fimbrial; cl01416 187410010845 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 187410010846 Acyltransferase family; Region: Acyl_transf_3; pfam01757 187410010847 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 187410010848 putative transposase OrfB; Reviewed; Region: PHA02517 187410010849 Integrase core domain; Region: rve; cl01316 187410010850 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 187410010851 Major Facilitator Superfamily; Region: MFS_1; pfam07690 187410010852 putative substrate translocation pore; other site 187410010853 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 187410010854 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 187410010855 SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of...; Region: SelB; cd04171 187410010856 G1 box; other site 187410010857 putative GEF interaction site; other site 187410010858 GTP/Mg2+ binding site; other site 187410010859 Switch I region; other site 187410010860 G2 box; other site 187410010861 G3 box; other site 187410010862 Switch II region; other site 187410010863 G4 box; other site 187410010864 G5 box; other site 187410010865 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires...; Region: selB_II; cd03696 187410010866 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 187410010867 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 187410010868 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 187410010869 selenocysteine synthase; Provisional; Region: PRK04311 187410010870 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 187410010871 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 187410010872 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 187410010873 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 187410010874 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 187410010875 Fe-S containing; Region: FDH-beta; TIGR01582 187410010876 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 187410010877 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 187410010878 superoxide dismutase; Provisional; Region: PRK10925 187410010879 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 187410010880 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 187410010881 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 connected by an extended linker. The...; Region: HAMP; cl01054 187410010882 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 187410010883 Electron transfer DM13; Region: DM13; cl02735 187410010884 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 187410010885 Mannitol repressor; Region: MtlR; cl11450 187410010886 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 187410010887 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 187410010888 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 187410010889 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 187410010890 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 187410010891 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_mannitol; cd05567 187410010892 active site 187410010893 P-loop; other site 187410010894 phosphorylation site 187410010895 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 187410010896 active site 187410010897 phosphorylation site 187410010898 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 187410010899 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 187410010900 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 187410010901 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 187410010902 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 187410010903 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 187410010904 dimer interface; other site 187410010905 motif 1; other site 187410010906 active site 187410010907 motif 2; other site 187410010908 motif 3; other site 187410010909 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 187410010910 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 187410010911 putative outer membrane lipoprotein; Provisional; Region: PRK10510 187410010912 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187410010913 ligand binding site; other site 187410010914 Predicted transcriptional regulator [Transcription]; Region: COG2345 187410010915 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 187410010916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410010917 periplasmic alpha-amylase precursor; Reviewed; Region: malS; PRK09505 187410010918 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 187410010919 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 187410010920 pyridoxal 5'-phosphate binding site; other site 187410010921 homodimer interface; other site 187410010922 catalytic residue; other site 187410010923 hypothetical protein; Validated; Region: PRK03818 187410010924 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 187410010925 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; cl09110 187410010926 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; cl09110 187410010927 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 187410010928 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 187410010929 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...; Region: ACD_IbpA-B_like; cd06470 187410010930 putative dimer interface; other site 187410010931 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 187410010932 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...; Region: ACD_IbpA-B_like; cd06470 187410010933 putative dimer interface; other site 187410010934 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 187410010935 serine racemase; Region: PLN02970 187410010936 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 187410010937 tetramer interface; other site 187410010938 pyridoxal 5'-phosphate binding site; other site 187410010939 catalytic residue; other site 187410010940 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 187410010941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410010942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 187410010943 putative transposase OrfB; Reviewed; Region: PHA02517 187410010944 Integrase core domain; Region: rve; cl01316 187410010945 sugar phosphatase; Provisional; Region: PRK10513 187410010946 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 187410010947 active site 187410010948 motif I; other site 187410010949 motif II; other site 187410010950 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; cl11391 187410010951 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 187410010952 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 187410010953 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 187410010954 anchoring element; other site 187410010955 dimer interface; other site 187410010956 ATP binding site; other site 187410010957 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 187410010958 active site 187410010959 putative metal-binding site; other site 187410010960 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 187410010961 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410010962 Walker A/P-loop; other site 187410010963 ATP binding site; other site 187410010964 Q-loop/lid; other site 187410010965 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410010966 ABC transporter signature motif; other site 187410010967 Walker B; other site 187410010968 D-loop; other site 187410010969 H-loop/switch region; other site 187410010970 DNA polymerase III subunit beta; Validated; Region: PRK05643 187410010971 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...; Region: beta_clamp; cd00140 187410010972 putative DNA binding surface; other site 187410010973 dimer interface; other site 187410010974 beta-clamp/clamp loader binding surface; other site 187410010975 beta-clamp/translesion DNA polymerase binding surface; other site 187410010976 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 187410010977 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410010978 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...; Region: AAA; cd00009 187410010979 Walker A motif; other site 187410010980 ATP binding site; other site 187410010981 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410010982 Walker B motif; other site 187410010983 arginine finger; other site 187410010984 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 187410010985 DnaA box-binding interface; other site 187410010986 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 187410010987 Ribonuclease P; Region: Ribonuclease_P; cl00457 187410010988 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01318 187410010989 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 187410010990 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 187410010991 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 187410010992 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 187410010993 G1 box; other site 187410010994 GTP/Mg2+ binding site; other site 187410010995 Switch I region; other site 187410010996 G2 box; other site 187410010997 Switch II region; other site 187410010998 G3 box; other site 187410010999 G4 box; other site 187410011000 G5 box; other site 187410011001 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 187410011002 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 187410011003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187410011004 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 187410011005 Permease family; Region: Xan_ur_permease; cl00967 187410011006 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; cl11391 187410011007 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 187410011008 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 187410011009 motif II; other site 187410011010 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410011011 dimer interface; other site 187410011012 conserved gate region; other site 187410011013 putative PBP binding loops; other site 187410011014 ABC-ATPase subunit interface; other site 187410011015 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 187410011016 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410011017 dimer interface; other site 187410011018 conserved gate region; other site 187410011019 putative PBP binding loops; other site 187410011020 ABC-ATPase subunit interface; other site 187410011021 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 187410011022 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...; Region: PBPb; cd00134 187410011023 substrate binding pocket; other site 187410011024 membrane-bound complex binding site; other site 187410011025 hinge residues; other site 187410011026 Protein of unknown function, DUF583; Region: DUF583; cl09137 187410011027 transcriptional regulator PhoU; Provisional; Region: PRK11115 187410011028 PhoU domain; Region: PhoU; pfam01895 187410011029 PhoU domain; Region: PhoU; pfam01895 187410011030 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 187410011031 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 187410011032 Walker A/P-loop; other site 187410011033 ATP binding site; other site 187410011034 Q-loop/lid; other site 187410011035 ABC transporter signature motif; other site 187410011036 Walker B; other site 187410011037 D-loop; other site 187410011038 H-loop/switch region; other site 187410011039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410011040 dimer interface; other site 187410011041 conserved gate region; other site 187410011042 putative PBP binding loops; other site 187410011043 ABC-ATPase subunit interface; other site 187410011044 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 187410011045 dimer interface; other site 187410011046 conserved gate region; other site 187410011047 putative PBP binding loops; other site 187410011048 ABC-ATPase subunit interface; other site 187410011049 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...; Region: PBPb; cd00134 187410011050 substrate binding pocket; other site 187410011051 membrane-bound complex binding site; other site 187410011052 hinge residues; other site 187410011053 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 187410011054 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...; Region: GFAT; cd00714 187410011055 glutaminase active site; other site 187410011056 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 187410011057 dimer interface; other site 187410011058 active site 187410011059 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 187410011060 dimer interface; other site 187410011061 active site 187410011062 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 187410011063 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 187410011064 Substrate binding site; other site 187410011065 Mg++ binding site; other site 187410011066 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 187410011067 active site 187410011068 substrate binding site; other site 187410011069 CoA binding site; other site 187410011070 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 187410011071 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 187410011072 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 187410011073 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 187410011074 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 187410011075 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 187410011076 alpha subunit interaction interface; other site 187410011077 Walker A motif; other site 187410011078 ATP binding site; other site 187410011079 Walker B motif; other site 187410011080 inhibitor binding site; inhibition site 187410011081 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 187410011082 ATP synthase; Region: ATP-synt; cl00365 187410011083 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 187410011084 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 187410011085 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 187410011086 beta subunit interaction interface; other site 187410011087 Walker A motif; other site 187410011088 ATP binding site; other site 187410011089 Walker B motif; other site 187410011090 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 187410011091 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl00491 187410011092 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 187410011093 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 187410011094 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 187410011095 ATP synthase subunit C; Region: ATP-synt_C; cl00466 187410011096 ATP synthase A chain; Region: ATP-synt_A; cl00413 187410011097 ATP synthase I chain; Region: ATP_synt_I; cl09170 187410011098 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 187410011099 S-adenosylmethionine binding site; other site 187410011100 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 187410011101 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 187410011102 Initiator Replication protein; Region: Rep_3; cl03080 187410011103 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 187410011104 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...; Region: PBPb; cl11400 187410011105 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 187410011106 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 187410011107 active site 187410011108 metal-binding site 187410011109 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 187410011110 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410011111 Walker A/P-loop; other site 187410011112 ATP binding site; other site 187410011113 Q-loop/lid; other site 187410011114 ABC transporter signature motif; other site 187410011115 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 187410011116 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410011117 ABC transporter signature motif; other site 187410011118 Walker B; other site 187410011119 D-loop; other site 187410011120 H-loop/switch region; other site 187410011121 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 187410011122 active site 187410011123 putative DNA-binding cleft; other site 187410011124 dimer interface; other site 187410011125 Transposase IS200 like; Region: Transposase_17; cl00848 187410011126 Protein of unknown function (DUF327); Region: DUF327; cl00753 187410011127 Repressor of phase-1 flagellin; Region: Flag1_repress; pfam03614 187410011128 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 187410011129 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 187410011130 ATP binding site; other site 187410011131 putative Mg++ binding site; other site 187410011132 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 187410011133 nucleotide binding region; other site 187410011134 ATP-binding site; other site 187410011135 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 187410011136 ParB-like nuclease domain; Region: ParBc; cl02129 187410011137 ParB-like nuclease domain; Region: ParBc; cl02129 187410011138 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410011139 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 187410011140 Walker A/P-loop; other site 187410011141 ATP binding site; other site 187410011142 Q-loop/lid; other site 187410011143 ABC transporter signature motif; other site 187410011144 Walker B; other site 187410011145 D-loop; other site 187410011146 H-loop/switch region; other site 187410011147 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]; Region: COG2401 187410011148 large terminase protein; Provisional; Region: 17; PHA02533 187410011149 Terminase-like family; Region: Terminase_6; pfam03237 187410011150 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 187410011151 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 187410011152 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 187410011153 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 187410011154 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 187410011155 Mu-like prophage protein [General function prediction only]; Region: COG3941; cl09192 187410011156 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 187410011157 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 187410011158 Phage minor tail protein; Region: Phage_min_tail; cl01940 187410011159 Phage minor tail protein L; Region: Phage_tail_L; cl01908 187410011160 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 187410011161 MPN+ (JAMM) motif; other site 187410011162 Zinc-binding site; other site 187410011163 NlpC/P60 family; Region: NLPC_P60; cl11438 187410011164 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 187410011165 Phage-related protein, tail component [Function unknown]; Region: COG4733 187410011166 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; cd00063 187410011167 Interdomain contacts; other site 187410011168 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 187410011169 electron transport complex protein RnfC; Provisional; Region: PRK05035 187410011170 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 187410011171 Fibronectin type III protein; Region: DUF3672; pfam12421 187410011172 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 187410011173 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 187410011174 Phage Tail Collar Domain; Region: Collar; pfam07484 187410011175 o70; fragment; similar to longer protein from Salmonella typhimurium 187410011176 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 187410011177 transposase/IS protein; Provisional; Region: PRK09183 187410011178 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...; Region: AAA; cd00009 187410011179 Walker A motif; other site 187410011180 ATP binding site; other site 187410011181 Walker B motif; other site 187410011182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410011183 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410011184 Integrase core domain; Region: rve; cl01316 187410011185 Eukaryotic cytochrome b(561); Region: Cyt_b561; cl14616 187410011186 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 187410011187 MULE transposase domain; Region: MULE; pfam10551 187410011188 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 187410011189 Transposase; Region: Transposase_9; pfam01548 187410011190 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 187410011191 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 187410011192 transposase; fragment; o67; similar to sp|P16940|YIS2_SHISO; probable IS600 remnant 187410011193 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 187410011194 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 187410011195 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 187410011196 active site 187410011197 signature motif; other site 187410011198 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 187410011199 active site 187410011200 signature motif; other site 187410011201 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 187410011202 active site 187410011203 signature motif; other site 187410011204 hypothetical protein; Provisional; Region: PRK09857 187410011205 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 187410011206 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 187410011207 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 187410011208 catalytic residues; other site 187410011209 catalytic nucleophile; other site 187410011210 Phd_YefM; Region: PhdYeFM; cl09153 187410011211 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 187410011212 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...; Region: ParA; cd02042 187410011213 P-loop; other site 187410011214 Magnesium ion binding site; other site 187410011215 similar to P7 par region found in GenBank Accession Number X17529 187410011216 ParB-like partition proteins; Region: parB_part; TIGR00180 187410011217 ParB-like nuclease domain; Region: ParBc; cl02129 187410011218 ParB family; Region: ParB; pfam08775 187410011219 ParS site 187410011220 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 187410011221 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...; Region: AAA; cd00009 187410011222 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 187410011223 Walker A motif; other site 187410011224 ATP binding site; other site 187410011225 Walker B motif; other site 187410011226 CRISPR associated protein Cas1; Region: Cas_Cas1; cl00656 187410011227 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 187410011228 Protein of unknown function (DUF1380); Region: DUF1380; pfam07128 187410011229 Antirestriction protein (ArdA); Region: ArdA; cl01953 187410011230 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 187410011231 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 187410011232 ParB-like nuclease domain; Region: ParBc; cl02129 187410011233 psiB region; similar to Escherichia coli F plasmid and Shigella plasmids 187410011234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 187410011235 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 187410011236 Integrase core domain; Region: rve; cl01316 187410011237 transposase/IS protein; Provisional; Region: PRK09183 187410011238 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...; Region: AAA; cd00009 187410011239 Walker A motif; other site 187410011240 ATP binding site; other site 187410011241 Walker B motif; other site 187410011242 3-oxoacyl-(acyl carrier protein) synthase II; Provisional; Region: PRK14691 187410011243 The Adenylation domain of proteins from the ATP-dependent polynucleotide ligase family is the minimal catalytic unit that is common to all family members; Region: Adenylation_DNA_ligase_family; cl12015 187410011244 active site 187410011245 ATP-dependent DNA ligase; Region: PHA00454 187410011246 The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases; Region: OBF_DNA_ligase_family; cl08424 187410011247 DNA binding site 187410011248 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 187410011249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187410011250 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 187410011251 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 187410011252 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 187410011253 Fimbrial Usher protein; Region: Usher; pfam00577 187410011254 Caf1 Capsule antigen; Region: Antig_Caf1; pfam09255 187410011255 o392; similar to integrase; fragment 187410011256 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 187410011257 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 187410011258 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 187410011259 metal ion-dependent adhesion site (MIDAS); other site 187410011260 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 187410011261 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 187410011262 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK07374 187410011263 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 187410011264 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 187410011265 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 187410011266 5'-3' exonuclease; Region: 53EXOc; smart00475 187410011267 metal binding site I; metal-binding site 187410011268 putative ssDNA interaction site; other site 187410011269 metal binding site II; metal-binding site 187410011270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 187410011271 Walker A motif; other site 187410011272 ATP binding site; other site 187410011273 Walker B motif; other site 187410011274 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 187410011275 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 187410011276 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 187410011277 hypothetical protein; Region: PHA02053