-- dump date 20140619_064237 -- class Genbank::misc_feature -- table misc_feature_note -- id note 641491000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 641491000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 641491000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491000004 Walker A motif; other site 641491000005 ATP binding site [chemical binding]; other site 641491000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 641491000007 Walker B motif; other site 641491000008 arginine finger; other site 641491000009 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 641491000010 DnaA box-binding interface [nucleotide binding]; other site 641491000011 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 641491000012 Low molecular weight phosphatase family; Region: LMWPc; cl00105 641491000013 active site 641491000014 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 641491000015 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 641491000016 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 641491000017 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 641491000018 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 641491000019 active site 641491000020 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 641491000021 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 641491000022 putative substrate binding region [chemical binding]; other site 641491000023 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 641491000024 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 641491000025 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 641491000026 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 641491000027 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 641491000028 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 641491000029 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 641491000030 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 641491000031 catalytic residue [active] 641491000032 putative FPP diphosphate binding site; other site 641491000033 putative FPP binding hydrophobic cleft; other site 641491000034 dimer interface [polypeptide binding]; other site 641491000035 putative IPP diphosphate binding site; other site 641491000036 ribosome recycling factor; Reviewed; Region: frr; PRK00083 641491000037 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 641491000038 hinge region; other site 641491000039 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 641491000040 putative nucleotide binding site [chemical binding]; other site 641491000041 uridine monophosphate binding site [chemical binding]; other site 641491000042 homohexameric interface [polypeptide binding]; other site 641491000043 elongation factor Ts; Provisional; Region: tsf; PRK09377 641491000044 UBA/TS-N domain; Region: UBA; pfam00627 641491000045 Elongation factor TS; Region: EF_TS; pfam00889 641491000046 Elongation factor TS; Region: EF_TS; pfam00889 641491000047 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 641491000048 rRNA interaction site [nucleotide binding]; other site 641491000049 S8 interaction site; other site 641491000050 putative laminin-1 binding site; other site 641491000051 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 641491000052 Radical SAM superfamily; Region: Radical_SAM; pfam04055 641491000053 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 641491000054 elongation factor G; Reviewed; Region: PRK12740 641491000055 G1 box; other site 641491000056 putative GEF interaction site [polypeptide binding]; other site 641491000057 GTP/Mg2+ binding site [chemical binding]; other site 641491000058 Switch I region; other site 641491000059 G2 box; other site 641491000060 G3 box; other site 641491000061 Switch II region; other site 641491000062 G4 box; other site 641491000063 G5 box; other site 641491000064 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 641491000065 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 641491000066 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 641491000067 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 641491000068 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 641491000069 putative acyl-acceptor binding pocket; other site 641491000070 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 641491000071 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 641491000072 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 641491000073 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 641491000074 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 641491000075 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 641491000076 Cl- selectivity filter; other site 641491000077 Cl- binding residues [ion binding]; other site 641491000078 pore gating glutamate residue; other site 641491000079 dimer interface [polypeptide binding]; other site 641491000080 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 641491000081 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 641491000082 active site residue [active] 641491000083 Domain of unknown function (DUF386); Region: DUF386; cl01047 641491000084 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 641491000085 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491000086 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 641491000087 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 641491000088 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 641491000089 catalytic residue [active] 641491000090 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 641491000091 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 641491000092 tetramer interface [polypeptide binding]; other site 641491000093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491000094 catalytic residue [active] 641491000095 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 641491000096 lipoyl attachment site [posttranslational modification]; other site 641491000097 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 641491000098 S-adenosylmethionine binding site [chemical binding]; other site 641491000099 nickel responsive regulator; Provisional; Region: PRK04460 641491000100 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 641491000101 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 641491000102 putative GTP cyclohydrolase; Provisional; Region: PRK13674 641491000103 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 641491000104 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 641491000105 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 641491000106 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 641491000107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 641491000108 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 641491000109 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491000110 Walker A motif; other site 641491000111 ATP binding site [chemical binding]; other site 641491000112 Walker B motif; other site 641491000113 arginine finger; other site 641491000114 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491000115 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 641491000116 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 641491000117 binding surface 641491000118 TPR motif; other site 641491000119 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 641491000120 putative ligand binding pocket/active site [active] 641491000121 putative metal binding site [ion binding]; other site 641491000122 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 641491000123 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 641491000124 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 641491000125 RNase E interface [polypeptide binding]; other site 641491000126 trimer interface [polypeptide binding]; other site 641491000127 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 641491000128 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 641491000129 RNase E interface [polypeptide binding]; other site 641491000130 trimer interface [polypeptide binding]; other site 641491000131 active site 641491000132 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 641491000133 putative nucleic acid binding region [nucleotide binding]; other site 641491000134 G-X-X-G motif; other site 641491000135 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 641491000136 RNA binding site [nucleotide binding]; other site 641491000137 domain interface; other site 641491000138 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 641491000139 16S/18S rRNA binding site [nucleotide binding]; other site 641491000140 S13e-L30e interaction site [polypeptide binding]; other site 641491000141 25S rRNA binding site [nucleotide binding]; other site 641491000142 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 641491000143 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 641491000144 RNA binding site [nucleotide binding]; other site 641491000145 active site 641491000146 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 641491000147 DHH family; Region: DHH; pfam01368 641491000148 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 641491000149 Protein of unknown function (DUF503); Region: DUF503; pfam04456 641491000150 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 641491000151 translation initiation factor IF-2; Region: IF-2; TIGR00487 641491000152 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 641491000153 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 641491000154 G1 box; other site 641491000155 putative GEF interaction site [polypeptide binding]; other site 641491000156 GTP/Mg2+ binding site [chemical binding]; other site 641491000157 Switch I region; other site 641491000158 G2 box; other site 641491000159 G3 box; other site 641491000160 Switch II region; other site 641491000161 G4 box; other site 641491000162 G5 box; other site 641491000163 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 641491000164 Translation-initiation factor 2; Region: IF-2; pfam11987 641491000165 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 641491000166 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 641491000167 putative RNA binding cleft [nucleotide binding]; other site 641491000168 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 641491000169 NusA N-terminal domain; Region: NusA_N; pfam08529 641491000170 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 641491000171 RNA binding site [nucleotide binding]; other site 641491000172 homodimer interface [polypeptide binding]; other site 641491000173 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 641491000174 G-X-X-G motif; other site 641491000175 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 641491000176 G-X-X-G motif; other site 641491000177 ribosome maturation protein RimP; Reviewed; Region: PRK00092 641491000178 hypothetical protein; Provisional; Region: PRK14641 641491000179 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 641491000180 putative oligomer interface [polypeptide binding]; other site 641491000181 putative RNA binding site [nucleotide binding]; other site 641491000182 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 641491000183 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 641491000184 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 641491000185 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 641491000186 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 641491000187 SAF-like; Region: SAF_2; pfam13144 641491000188 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 641491000189 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 641491000190 Flagellar L-ring protein; Region: FlgH; pfam02107 641491000191 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 641491000192 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 641491000193 Rod binding protein; Region: Rod-binding; cl01626 641491000194 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 641491000195 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 641491000196 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 641491000197 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 641491000198 Global regulator protein family; Region: CsrA; pfam02599 641491000199 flagellar assembly protein FliW; Provisional; Region: PRK13285 641491000200 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 641491000201 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 641491000202 ATP-NAD kinase; Region: NAD_kinase; pfam01513 641491000203 Protein of unknown function DUF89; Region: DUF89; cl15397 641491000204 MltA specific insert domain; Region: MltA; smart00925 641491000205 3D domain; Region: 3D; pfam06725 641491000206 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 641491000207 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 641491000208 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 641491000209 GatB domain; Region: GatB_Yqey; smart00845 641491000210 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 641491000211 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 641491000212 GTP-binding protein Der; Reviewed; Region: PRK00093 641491000213 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 641491000214 G1 box; other site 641491000215 GTP/Mg2+ binding site [chemical binding]; other site 641491000216 Switch I region; other site 641491000217 G2 box; other site 641491000218 Switch II region; other site 641491000219 G3 box; other site 641491000220 G4 box; other site 641491000221 G5 box; other site 641491000222 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 641491000223 G1 box; other site 641491000224 GTP/Mg2+ binding site [chemical binding]; other site 641491000225 Switch I region; other site 641491000226 G2 box; other site 641491000227 G3 box; other site 641491000228 Switch II region; other site 641491000229 G4 box; other site 641491000230 G5 box; other site 641491000231 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 641491000232 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 641491000233 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 641491000234 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 641491000235 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 641491000236 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 641491000237 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 641491000238 Walker A/P-loop; other site 641491000239 ATP binding site [chemical binding]; other site 641491000240 Q-loop/lid; other site 641491000241 ABC transporter signature motif; other site 641491000242 Walker B; other site 641491000243 D-loop; other site 641491000244 H-loop/switch region; other site 641491000245 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 641491000246 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 641491000247 Walker A/P-loop; other site 641491000248 ATP binding site [chemical binding]; other site 641491000249 Q-loop/lid; other site 641491000250 ABC transporter signature motif; other site 641491000251 Walker B; other site 641491000252 D-loop; other site 641491000253 H-loop/switch region; other site 641491000254 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 641491000255 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 641491000256 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491000257 MarR family; Region: MarR_2; cl17246 641491000258 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 641491000259 DsrE/DsrF-like family; Region: DrsE; cl00672 641491000260 Surface antigen; Region: Bac_surface_Ag; pfam01103 641491000261 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 641491000262 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 641491000263 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 641491000264 active site 641491000265 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 641491000266 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491000267 substrate binding pocket [chemical binding]; other site 641491000268 membrane-bound complex binding site; other site 641491000269 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 641491000270 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 641491000271 Walker A/P-loop; other site 641491000272 ATP binding site [chemical binding]; other site 641491000273 Q-loop/lid; other site 641491000274 ABC transporter signature motif; other site 641491000275 Walker B; other site 641491000276 D-loop; other site 641491000277 H-loop/switch region; other site 641491000278 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 641491000279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491000280 dimer interface [polypeptide binding]; other site 641491000281 conserved gate region; other site 641491000282 ABC-ATPase subunit interface; other site 641491000283 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 641491000284 DNA-binding site [nucleotide binding]; DNA binding site 641491000285 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 641491000286 UTRA domain; Region: UTRA; pfam07702 641491000287 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 641491000288 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 641491000289 active site 641491000290 HIGH motif; other site 641491000291 nucleotide binding site [chemical binding]; other site 641491000292 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 641491000293 ligand-binding site [chemical binding]; other site 641491000294 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 641491000295 metal binding site 2 [ion binding]; metal-binding site 641491000296 putative DNA binding helix; other site 641491000297 metal binding site 1 [ion binding]; metal-binding site 641491000298 dimer interface [polypeptide binding]; other site 641491000299 structural Zn2+ binding site [ion binding]; other site 641491000300 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 641491000301 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491000302 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 641491000303 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 641491000304 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491000305 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 641491000306 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 641491000307 Walker A/P-loop; other site 641491000308 ATP binding site [chemical binding]; other site 641491000309 Q-loop/lid; other site 641491000310 ABC transporter signature motif; other site 641491000311 Walker B; other site 641491000312 D-loop; other site 641491000313 H-loop/switch region; other site 641491000314 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 641491000315 FtsX-like permease family; Region: FtsX; pfam02687 641491000316 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 641491000317 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 641491000318 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 641491000319 Moco binding site; other site 641491000320 metal coordination site [ion binding]; other site 641491000321 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 641491000322 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 641491000323 Walker A/P-loop; other site 641491000324 ATP binding site [chemical binding]; other site 641491000325 Q-loop/lid; other site 641491000326 ABC transporter signature motif; other site 641491000327 Walker B; other site 641491000328 D-loop; other site 641491000329 H-loop/switch region; other site 641491000330 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 641491000331 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 641491000332 intersubunit interface [polypeptide binding]; other site 641491000333 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 641491000334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491000335 dimer interface [polypeptide binding]; other site 641491000336 conserved gate region; other site 641491000337 putative PBP binding loops; other site 641491000338 ABC-ATPase subunit interface; other site 641491000339 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 641491000340 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 641491000341 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491000342 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 641491000343 active site 641491000344 phosphorylation site [posttranslational modification] 641491000345 intermolecular recognition site; other site 641491000346 dimerization interface [polypeptide binding]; other site 641491000347 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491000348 Walker A motif; other site 641491000349 ATP binding site [chemical binding]; other site 641491000350 Walker B motif; other site 641491000351 arginine finger; other site 641491000352 PAS fold; Region: PAS_4; pfam08448 641491000353 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491000354 dimer interface [polypeptide binding]; other site 641491000355 phosphorylation site [posttranslational modification] 641491000356 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 641491000357 ATP binding site [chemical binding]; other site 641491000358 Mg2+ binding site [ion binding]; other site 641491000359 G-X-G motif; other site 641491000360 Response regulator receiver domain; Region: Response_reg; pfam00072 641491000361 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 641491000362 active site 641491000363 phosphorylation site [posttranslational modification] 641491000364 intermolecular recognition site; other site 641491000365 dimerization interface [polypeptide binding]; other site 641491000366 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 641491000367 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 641491000368 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 641491000369 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 641491000370 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 641491000371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491000372 dimer interface [polypeptide binding]; other site 641491000373 conserved gate region; other site 641491000374 putative PBP binding loops; other site 641491000375 ABC-ATPase subunit interface; other site 641491000376 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 641491000377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491000378 dimer interface [polypeptide binding]; other site 641491000379 conserved gate region; other site 641491000380 putative PBP binding loops; other site 641491000381 ABC-ATPase subunit interface; other site 641491000382 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 641491000383 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 641491000384 Walker A/P-loop; other site 641491000385 ATP binding site [chemical binding]; other site 641491000386 Q-loop/lid; other site 641491000387 ABC transporter signature motif; other site 641491000388 Walker B; other site 641491000389 D-loop; other site 641491000390 H-loop/switch region; other site 641491000391 TOBE domain; Region: TOBE_2; pfam08402 641491000392 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 641491000393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491000394 Walker A/P-loop; other site 641491000395 ATP binding site [chemical binding]; other site 641491000396 Q-loop/lid; other site 641491000397 ABC transporter signature motif; other site 641491000398 Walker B; other site 641491000399 D-loop; other site 641491000400 H-loop/switch region; other site 641491000401 TOBE domain; Region: TOBE_2; pfam08402 641491000402 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 641491000403 FeS/SAM binding site; other site 641491000404 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 641491000405 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 641491000406 molybdopterin cofactor binding site; other site 641491000407 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 641491000408 molybdopterin cofactor binding site; other site 641491000409 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 641491000410 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 641491000411 catalytic triad [active] 641491000412 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 641491000413 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 641491000414 putative active site [active] 641491000415 metal binding site [ion binding]; metal-binding site 641491000416 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 641491000417 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 641491000418 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 641491000419 homodimer interface [polypeptide binding]; other site 641491000420 metal binding site [ion binding]; metal-binding site 641491000421 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 641491000422 homodimer interface [polypeptide binding]; other site 641491000423 active site 641491000424 putative chemical substrate binding site [chemical binding]; other site 641491000425 metal binding site [ion binding]; metal-binding site 641491000426 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 641491000427 Colicin V production protein; Region: Colicin_V; pfam02674 641491000428 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 641491000429 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 641491000430 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 641491000431 Substrate binding site; other site 641491000432 Cupin domain; Region: Cupin_2; cl17218 641491000433 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491000434 heme-binding residues [chemical binding]; other site 641491000435 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 641491000436 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 641491000437 molybdopterin cofactor binding site; other site 641491000438 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 641491000439 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 641491000440 4Fe-4S binding domain; Region: Fer4; cl02805 641491000441 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 641491000442 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 641491000443 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 641491000444 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 641491000445 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 641491000446 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 641491000447 Walker A/P-loop; other site 641491000448 ATP binding site [chemical binding]; other site 641491000449 Q-loop/lid; other site 641491000450 ABC transporter signature motif; other site 641491000451 Walker B; other site 641491000452 D-loop; other site 641491000453 H-loop/switch region; other site 641491000454 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491000455 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491000456 substrate binding pocket [chemical binding]; other site 641491000457 membrane-bound complex binding site; other site 641491000458 hinge residues; other site 641491000459 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 641491000460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491000461 dimer interface [polypeptide binding]; other site 641491000462 conserved gate region; other site 641491000463 putative PBP binding loops; other site 641491000464 ABC-ATPase subunit interface; other site 641491000465 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 641491000466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491000467 dimer interface [polypeptide binding]; other site 641491000468 conserved gate region; other site 641491000469 putative PBP binding loops; other site 641491000470 ABC-ATPase subunit interface; other site 641491000471 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 641491000472 Precorrin-8X methylmutase; Region: CbiC; pfam02570 641491000473 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491000474 Ferredoxin [Energy production and conversion]; Region: COG1146 641491000475 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 641491000476 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 641491000477 dimer interface [polypeptide binding]; other site 641491000478 PYR/PP interface [polypeptide binding]; other site 641491000479 TPP binding site [chemical binding]; other site 641491000480 substrate binding site [chemical binding]; other site 641491000481 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 641491000482 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 641491000483 TPP-binding site [chemical binding]; other site 641491000484 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 641491000485 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 641491000486 purine nucleoside phosphorylase; Provisional; Region: PRK08202 641491000487 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 641491000488 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 641491000489 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491000490 ligand binding site [chemical binding]; other site 641491000491 PilZ domain; Region: PilZ; cl01260 641491000492 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 641491000493 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 641491000494 ATP-grasp domain; Region: ATP-grasp_4; cl17255 641491000495 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 641491000496 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 641491000497 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 641491000498 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 641491000499 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 641491000500 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 641491000501 lipoyl-biotinyl attachment site [posttranslational modification]; other site 641491000502 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 641491000503 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 641491000504 dimer interface [polypeptide binding]; other site 641491000505 ssDNA binding site [nucleotide binding]; other site 641491000506 tetramer (dimer of dimers) interface [polypeptide binding]; other site 641491000507 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 641491000508 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 641491000509 non-specific DNA binding site [nucleotide binding]; other site 641491000510 salt bridge; other site 641491000511 sequence-specific DNA binding site [nucleotide binding]; other site 641491000512 Cupin domain; Region: Cupin_2; cl17218 641491000513 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 641491000514 putative deacylase active site [active] 641491000515 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 641491000516 putative MPT binding site; other site 641491000517 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 641491000518 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 641491000519 catalytic loop [active] 641491000520 iron binding site [ion binding]; other site 641491000521 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 641491000522 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 641491000523 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 641491000524 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 641491000525 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 641491000526 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491000527 Cysteine-rich domain; Region: CCG; pfam02754 641491000528 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 641491000529 S-adenosylmethionine binding site [chemical binding]; other site 641491000530 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 641491000531 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 641491000532 Radical SAM superfamily; Region: Radical_SAM; pfam04055 641491000533 FeS/SAM binding site; other site 641491000534 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 641491000535 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491000536 acyl-activating enzyme (AAE) consensus motif; other site 641491000537 active site 641491000538 AMP binding site [chemical binding]; other site 641491000539 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 641491000540 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 641491000541 XdhC Rossmann domain; Region: XdhC_C; pfam13478 641491000542 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 641491000543 Ligand binding site; other site 641491000544 metal-binding site 641491000545 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 641491000546 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 641491000547 catalytic core [active] 641491000548 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 641491000549 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 641491000550 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 641491000551 ATP binding site [chemical binding]; other site 641491000552 putative Mg++ binding site [ion binding]; other site 641491000553 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 641491000554 nucleotide binding region [chemical binding]; other site 641491000555 ATP-binding site [chemical binding]; other site 641491000556 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 641491000557 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 641491000558 peptide binding site [polypeptide binding]; other site 641491000559 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 641491000560 HD domain; Region: HD_4; pfam13328 641491000561 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 641491000562 synthetase active site [active] 641491000563 NTP binding site [chemical binding]; other site 641491000564 metal binding site [ion binding]; metal-binding site 641491000565 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 641491000566 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 641491000567 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491000568 heme-binding residues [chemical binding]; other site 641491000569 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 641491000570 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491000571 dimer interface [polypeptide binding]; other site 641491000572 conserved gate region; other site 641491000573 putative PBP binding loops; other site 641491000574 ABC-ATPase subunit interface; other site 641491000575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491000576 dimer interface [polypeptide binding]; other site 641491000577 conserved gate region; other site 641491000578 putative PBP binding loops; other site 641491000579 ABC-ATPase subunit interface; other site 641491000580 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491000581 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491000582 substrate binding pocket [chemical binding]; other site 641491000583 membrane-bound complex binding site; other site 641491000584 hinge residues; other site 641491000585 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 641491000586 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 641491000587 Walker A/P-loop; other site 641491000588 ATP binding site [chemical binding]; other site 641491000589 Q-loop/lid; other site 641491000590 ABC transporter signature motif; other site 641491000591 Walker B; other site 641491000592 D-loop; other site 641491000593 H-loop/switch region; other site 641491000594 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 641491000595 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 641491000596 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 641491000597 malate synthase G; Provisional; Region: PRK02999 641491000598 active site 641491000599 Response regulator receiver domain; Region: Response_reg; pfam00072 641491000600 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 641491000601 active site 641491000602 phosphorylation site [posttranslational modification] 641491000603 intermolecular recognition site; other site 641491000604 dimerization interface [polypeptide binding]; other site 641491000605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491000606 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 641491000607 ATP binding site [chemical binding]; other site 641491000608 G-X-G motif; other site 641491000609 Response regulator receiver domain; Region: Response_reg; pfam00072 641491000610 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 641491000611 active site 641491000612 phosphorylation site [posttranslational modification] 641491000613 intermolecular recognition site; other site 641491000614 dimerization interface [polypeptide binding]; other site 641491000615 Response regulator receiver domain; Region: Response_reg; pfam00072 641491000616 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 641491000617 active site 641491000618 phosphorylation site [posttranslational modification] 641491000619 intermolecular recognition site; other site 641491000620 dimerization interface [polypeptide binding]; other site 641491000621 Response regulator receiver domain; Region: Response_reg; pfam00072 641491000622 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 641491000623 active site 641491000624 phosphorylation site [posttranslational modification] 641491000625 intermolecular recognition site; other site 641491000626 dimerization interface [polypeptide binding]; other site 641491000627 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 641491000628 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 641491000629 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 641491000630 putative active site [active] 641491000631 heme pocket [chemical binding]; other site 641491000632 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491000633 dimer interface [polypeptide binding]; other site 641491000634 phosphorylation site [posttranslational modification] 641491000635 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 641491000636 ATP binding site [chemical binding]; other site 641491000637 Mg2+ binding site [ion binding]; other site 641491000638 G-X-G motif; other site 641491000639 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491000640 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 641491000641 active site 641491000642 phosphorylation site [posttranslational modification] 641491000643 intermolecular recognition site; other site 641491000644 dimerization interface [polypeptide binding]; other site 641491000645 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491000646 Walker A motif; other site 641491000647 ATP binding site [chemical binding]; other site 641491000648 Walker B motif; other site 641491000649 arginine finger; other site 641491000650 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491000651 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 641491000652 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491000653 heme-binding residues [chemical binding]; other site 641491000654 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 641491000655 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 641491000656 FMN-binding domain; Region: FMN_bind; cl01081 641491000657 electron transport complex RsxE subunit; Provisional; Region: PRK12405 641491000658 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 641491000659 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 641491000660 4Fe-4S binding domain; Region: Fer4; pfam00037 641491000661 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 641491000662 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491000663 arginine decarboxylase; Provisional; Region: PRK05354 641491000664 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 641491000665 dimer interface [polypeptide binding]; other site 641491000666 active site 641491000667 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 641491000668 catalytic residues [active] 641491000669 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 641491000670 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491000671 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 641491000672 active site 641491000673 phosphorylation site [posttranslational modification] 641491000674 intermolecular recognition site; other site 641491000675 dimerization interface [polypeptide binding]; other site 641491000676 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491000677 Walker A motif; other site 641491000678 ATP binding site [chemical binding]; other site 641491000679 Walker B motif; other site 641491000680 arginine finger; other site 641491000681 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491000682 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 641491000683 GAF domain; Region: GAF_2; pfam13185 641491000684 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 641491000685 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491000686 dimer interface [polypeptide binding]; other site 641491000687 phosphorylation site [posttranslational modification] 641491000688 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 641491000689 ATP binding site [chemical binding]; other site 641491000690 Mg2+ binding site [ion binding]; other site 641491000691 G-X-G motif; other site 641491000692 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 641491000693 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491000694 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491000695 dimer interface [polypeptide binding]; other site 641491000696 phosphorylation site [posttranslational modification] 641491000697 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 641491000698 ATP binding site [chemical binding]; other site 641491000699 Mg2+ binding site [ion binding]; other site 641491000700 G-X-G motif; other site 641491000701 Phosphopantetheine attachment site; Region: PP-binding; cl09936 641491000702 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 641491000703 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 641491000704 dimer interface [polypeptide binding]; other site 641491000705 active site 641491000706 CoA binding pocket [chemical binding]; other site 641491000707 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; cl01051 641491000708 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 641491000709 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491000710 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 641491000711 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 641491000712 acyl-activating enzyme (AAE) consensus motif; other site 641491000713 AMP binding site [chemical binding]; other site 641491000714 replicative DNA helicase; Region: DnaB; TIGR00665 641491000715 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 641491000716 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 641491000717 Walker A motif; other site 641491000718 ATP binding site [chemical binding]; other site 641491000719 Walker B motif; other site 641491000720 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 641491000721 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 641491000722 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 641491000723 Predicted transcriptional regulator [Transcription]; Region: COG2378 641491000724 WYL domain; Region: WYL; pfam13280 641491000725 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491000726 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 641491000727 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 641491000728 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 641491000729 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491000730 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 641491000731 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 641491000732 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 641491000733 Walker A/P-loop; other site 641491000734 ATP binding site [chemical binding]; other site 641491000735 Q-loop/lid; other site 641491000736 ABC transporter signature motif; other site 641491000737 Walker B; other site 641491000738 D-loop; other site 641491000739 H-loop/switch region; other site 641491000740 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 641491000741 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 641491000742 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 641491000743 putative active site [active] 641491000744 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 641491000745 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 641491000746 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 641491000747 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 641491000748 Ligand binding site; other site 641491000749 Putative Catalytic site; other site 641491000750 DXD motif; other site 641491000751 Autotransporter beta-domain; Region: Autotransporter; pfam03797 641491000752 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491000753 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 641491000754 putative ADP-binding pocket [chemical binding]; other site 641491000755 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 641491000756 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 641491000757 active site 641491000758 phosphorylation site [posttranslational modification] 641491000759 intermolecular recognition site; other site 641491000760 dimerization interface [polypeptide binding]; other site 641491000761 CheB methylesterase; Region: CheB_methylest; pfam01339 641491000762 HEAT repeats; Region: HEAT_2; pfam13646 641491000763 HEAT repeats; Region: HEAT_2; pfam13646 641491000764 HEAT repeats; Region: HEAT_2; pfam13646 641491000765 HEAT repeats; Region: HEAT_2; pfam13646 641491000766 HEAT repeats; Region: HEAT_2; pfam13646 641491000767 HEAT repeats; Region: HEAT_2; pfam13646 641491000768 HEAT repeats; Region: HEAT_2; pfam13646 641491000769 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 641491000770 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 641491000771 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 641491000772 S-adenosylmethionine binding site [chemical binding]; other site 641491000773 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491000774 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 641491000775 active site 641491000776 phosphorylation site [posttranslational modification] 641491000777 intermolecular recognition site; other site 641491000778 dimerization interface [polypeptide binding]; other site 641491000779 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 641491000780 putative binding surface; other site 641491000781 active site 641491000782 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 641491000783 putative binding surface; other site 641491000784 active site 641491000785 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 641491000786 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 641491000787 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 641491000788 ATP binding site [chemical binding]; other site 641491000789 Mg2+ binding site [ion binding]; other site 641491000790 G-X-G motif; other site 641491000791 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 641491000792 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 641491000793 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 641491000794 binding surface 641491000795 TPR motif; other site 641491000796 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 641491000797 DNA protecting protein DprA; Region: dprA; TIGR00732 641491000798 MarR family; Region: MarR_2; pfam12802 641491000799 Predicted membrane protein [Function unknown]; Region: COG2119 641491000800 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 641491000801 HDOD domain; Region: HDOD; pfam08668 641491000802 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491000803 Zn2+ binding site [ion binding]; other site 641491000804 Mg2+ binding site [ion binding]; other site 641491000805 Cache domain; Region: Cache_1; pfam02743 641491000806 PAS fold; Region: PAS_4; pfam08448 641491000807 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 641491000808 putative active site [active] 641491000809 heme pocket [chemical binding]; other site 641491000810 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491000811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491000812 dimer interface [polypeptide binding]; other site 641491000813 putative CheW interface [polypeptide binding]; other site 641491000814 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 641491000815 active site 641491000816 phosphorylation site [posttranslational modification] 641491000817 intermolecular recognition site; other site 641491000818 dimerization interface [polypeptide binding]; other site 641491000819 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491000820 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491000821 metal binding site [ion binding]; metal-binding site 641491000822 active site 641491000823 I-site; other site 641491000824 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 641491000825 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 641491000826 active site 641491000827 Int/Topo IB signature motif; other site 641491000828 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 641491000829 active site 641491000830 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 641491000831 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 641491000832 FMN binding site [chemical binding]; other site 641491000833 substrate binding site [chemical binding]; other site 641491000834 putative catalytic residue [active] 641491000835 hydroxyglutarate oxidase; Provisional; Region: PRK11728 641491000836 Predicted dehydrogenase [General function prediction only]; Region: COG0579 641491000837 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 641491000838 trimer interface [polypeptide binding]; other site 641491000839 putative Zn binding site [ion binding]; other site 641491000840 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 641491000841 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 641491000842 Family description; Region: UvrD_C_2; pfam13538 641491000843 EamA-like transporter family; Region: EamA; pfam00892 641491000844 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 641491000845 EamA-like transporter family; Region: EamA; pfam00892 641491000846 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 641491000847 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 641491000848 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 641491000849 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 641491000850 RNA binding surface [nucleotide binding]; other site 641491000851 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 641491000852 active site 641491000853 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 641491000854 hinge residues; other site 641491000855 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 641491000856 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 641491000857 RNA binding site [nucleotide binding]; other site 641491000858 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 641491000859 RNA binding site [nucleotide binding]; other site 641491000860 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 641491000861 RNA binding site [nucleotide binding]; other site 641491000862 domain interface; other site 641491000863 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 641491000864 RNA binding site [nucleotide binding]; other site 641491000865 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 641491000866 RNA binding site [nucleotide binding]; other site 641491000867 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 641491000868 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 641491000869 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 641491000870 P loop; other site 641491000871 GTP binding site [chemical binding]; other site 641491000872 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 641491000873 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 641491000874 putative dimer interface [polypeptide binding]; other site 641491000875 putative anticodon binding site; other site 641491000876 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 641491000877 homodimer interface [polypeptide binding]; other site 641491000878 motif 1; other site 641491000879 motif 2; other site 641491000880 active site 641491000881 motif 3; other site 641491000882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491000883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491000884 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 641491000885 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 641491000886 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 641491000887 DNA binding residues [nucleotide binding] 641491000888 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 641491000889 dimer interface [polypeptide binding]; other site 641491000890 substrate binding site [chemical binding]; other site 641491000891 phosphomethylpyrimidine kinase; Provisional; Region: PRK08573 641491000892 ATP binding site [chemical binding]; other site 641491000893 Putative aldolase; Region: Aldolase_2; cl00871 641491000894 trigger factor; Region: tig; TIGR00115 641491000895 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 641491000896 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 641491000897 Clp protease; Region: CLP_protease; pfam00574 641491000898 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 641491000899 oligomer interface [polypeptide binding]; other site 641491000900 active site residues [active] 641491000901 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 641491000902 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 641491000903 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491000904 Walker A motif; other site 641491000905 ATP binding site [chemical binding]; other site 641491000906 Walker B motif; other site 641491000907 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 641491000908 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 641491000909 Found in ATP-dependent protease La (LON); Region: LON; smart00464 641491000910 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491000911 Walker A motif; other site 641491000912 ATP binding site [chemical binding]; other site 641491000913 Walker B motif; other site 641491000914 arginine finger; other site 641491000915 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 641491000916 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 641491000917 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 641491000918 Peptidase family M23; Region: Peptidase_M23; pfam01551 641491000919 FOG: CBS domain [General function prediction only]; Region: COG0517 641491000920 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_15; cd04803 641491000921 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 641491000922 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 641491000923 S-adenosylmethionine binding site [chemical binding]; other site 641491000924 Domain of unknown function (DUF368); Region: DUF368; pfam04018 641491000925 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 641491000926 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 641491000927 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 641491000928 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 641491000929 Septum formation initiator; Region: DivIC; pfam04977 641491000930 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 641491000931 TPR motif; other site 641491000932 binding surface 641491000933 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 641491000934 AMP binding site [chemical binding]; other site 641491000935 metal binding site [ion binding]; metal-binding site 641491000936 active site 641491000937 UGMP family protein; Validated; Region: PRK09604 641491000938 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 641491000939 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 641491000940 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 641491000941 catalytic residues [active] 641491000942 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 641491000943 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491000944 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491000945 Outer membrane lipoprotein; Region: YfiO; pfam13525 641491000946 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 641491000947 elongation factor G; Reviewed; Region: PRK12740 641491000948 G1 box; other site 641491000949 putative GEF interaction site [polypeptide binding]; other site 641491000950 GTP/Mg2+ binding site [chemical binding]; other site 641491000951 Switch I region; other site 641491000952 G2 box; other site 641491000953 G3 box; other site 641491000954 Switch II region; other site 641491000955 G4 box; other site 641491000956 G5 box; other site 641491000957 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 641491000958 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 641491000959 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 641491000960 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 641491000961 PAS domain; Region: PAS_9; pfam13426 641491000962 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 641491000963 putative active site [active] 641491000964 heme pocket [chemical binding]; other site 641491000965 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491000966 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491000967 dimer interface [polypeptide binding]; other site 641491000968 putative CheW interface [polypeptide binding]; other site 641491000969 Heme NO binding; Region: HNOB; pfam07700 641491000970 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 641491000971 putative binding surface; other site 641491000972 active site 641491000973 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 641491000974 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 641491000975 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 641491000976 ATP binding site [chemical binding]; other site 641491000977 Mg2+ binding site [ion binding]; other site 641491000978 G-X-G motif; other site 641491000979 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 641491000980 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 641491000981 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 641491000982 active site 641491000983 phosphorylation site [posttranslational modification] 641491000984 intermolecular recognition site; other site 641491000985 dimerization interface [polypeptide binding]; other site 641491000986 CheB methylesterase; Region: CheB_methylest; pfam01339 641491000987 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 641491000988 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 641491000989 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 641491000990 putative active site [active] 641491000991 putative metal binding residues [ion binding]; other site 641491000992 signature motif; other site 641491000993 putative triphosphate binding site [ion binding]; other site 641491000994 dimer interface [polypeptide binding]; other site 641491000995 Uncharacterized conserved protein [Function unknown]; Region: COG2127 641491000996 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 641491000997 Clp amino terminal domain; Region: Clp_N; pfam02861 641491000998 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491000999 Walker A motif; other site 641491001000 ATP binding site [chemical binding]; other site 641491001001 Walker B motif; other site 641491001002 arginine finger; other site 641491001003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491001004 Walker A motif; other site 641491001005 ATP binding site [chemical binding]; other site 641491001006 Walker B motif; other site 641491001007 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 641491001008 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 641491001009 excinuclease ABC subunit B; Provisional; Region: PRK05298 641491001010 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 641491001011 ATP binding site [chemical binding]; other site 641491001012 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 641491001013 nucleotide binding region [chemical binding]; other site 641491001014 ATP-binding site [chemical binding]; other site 641491001015 Ultra-violet resistance protein B; Region: UvrB; pfam12344 641491001016 UvrB/uvrC motif; Region: UVR; pfam02151 641491001017 Ion channel; Region: Ion_trans_2; pfam07885 641491001018 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 641491001019 TrkA-N domain; Region: TrkA_N; pfam02254 641491001020 TrkA-C domain; Region: TrkA_C; pfam02080 641491001021 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 641491001022 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 641491001023 nucleotide binding pocket [chemical binding]; other site 641491001024 K-X-D-G motif; other site 641491001025 catalytic site [active] 641491001026 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 641491001027 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 641491001028 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 641491001029 Dimer interface [polypeptide binding]; other site 641491001030 BRCT sequence motif; other site 641491001031 dihydrodipicolinate reductase; Provisional; Region: PRK00048 641491001032 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 641491001033 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 641491001034 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 641491001035 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 641491001036 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 641491001037 putative active site [active] 641491001038 catalytic site [active] 641491001039 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 641491001040 putative active site [active] 641491001041 catalytic site [active] 641491001042 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 641491001043 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 641491001044 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 641491001045 putative binding surface; other site 641491001046 active site 641491001047 CAAX protease self-immunity; Region: Abi; pfam02517 641491001048 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491001049 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491001050 substrate binding pocket [chemical binding]; other site 641491001051 membrane-bound complex binding site; other site 641491001052 hinge residues; other site 641491001053 ACT domain-containing protein [General function prediction only]; Region: COG4747 641491001054 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 641491001055 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 641491001056 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491001057 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 641491001058 acyl-activating enzyme (AAE) consensus motif; other site 641491001059 AMP binding site [chemical binding]; other site 641491001060 active site 641491001061 CoA binding site [chemical binding]; other site 641491001062 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 641491001063 FMN binding site [chemical binding]; other site 641491001064 dimer interface [polypeptide binding]; other site 641491001065 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 641491001066 phosphoglyceromutase; Provisional; Region: PRK05434 641491001067 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 641491001068 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 641491001069 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491001070 dimer interface [polypeptide binding]; other site 641491001071 putative CheW interface [polypeptide binding]; other site 641491001072 Cache domain; Region: Cache_1; pfam02743 641491001073 OsmC-like protein; Region: OsmC; pfam02566 641491001074 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 641491001075 EamA-like transporter family; Region: EamA; pfam00892 641491001076 EamA-like transporter family; Region: EamA; pfam00892 641491001077 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 641491001078 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 641491001079 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 641491001080 Beta-Casp domain; Region: Beta-Casp; smart01027 641491001081 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 641491001082 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 641491001083 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 641491001084 S-adenosylmethionine binding site [chemical binding]; other site 641491001085 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 641491001086 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 641491001087 active site 641491001088 (T/H)XGH motif; other site 641491001089 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 641491001090 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491001091 Walker A motif; other site 641491001092 ATP binding site [chemical binding]; other site 641491001093 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 641491001094 catalytic core [active] 641491001095 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 641491001096 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 641491001097 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 641491001098 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 641491001099 motif II; other site 641491001100 YGGT family; Region: YGGT; pfam02325 641491001101 DivIVA protein; Region: DivIVA; pfam05103 641491001102 DivIVA domain; Region: DivI1A_domain; TIGR03544 641491001103 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 641491001104 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 641491001105 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 641491001106 PYR/PP interface [polypeptide binding]; other site 641491001107 dimer interface [polypeptide binding]; other site 641491001108 TPP binding site [chemical binding]; other site 641491001109 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 641491001110 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 641491001111 TPP-binding site [chemical binding]; other site 641491001112 dimer interface [polypeptide binding]; other site 641491001113 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 641491001114 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 641491001115 putative valine binding site [chemical binding]; other site 641491001116 dimer interface [polypeptide binding]; other site 641491001117 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 641491001118 ketol-acid reductoisomerase; Provisional; Region: PRK05479 641491001119 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 641491001120 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 641491001121 hypothetical protein; Provisional; Region: PRK04164 641491001122 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 641491001123 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 641491001124 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 641491001125 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 641491001126 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 641491001127 Syntrophus aciditrophicus Cys-Xaa-Xaa-Xaa repeat radical SAM target protein; Region: Syntroph_Cxxx; TIGR04117 641491001128 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 641491001129 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 641491001130 molybdopterin cofactor binding site; other site 641491001131 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 641491001132 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 641491001133 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 641491001134 molybdopterin cofactor binding site; other site 641491001135 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 641491001136 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 641491001137 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 641491001138 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 641491001139 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 641491001140 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 641491001141 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 641491001142 homodimer interaction site [polypeptide binding]; other site 641491001143 cofactor binding site; other site 641491001144 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 641491001145 thiamine monophosphate kinase; Provisional; Region: PRK05731 641491001146 ATP binding site [chemical binding]; other site 641491001147 dimerization interface [polypeptide binding]; other site 641491001148 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 641491001149 Part of AAA domain; Region: AAA_19; pfam13245 641491001150 Family description; Region: UvrD_C_2; pfam13538 641491001151 Uncharacterized conserved protein [Function unknown]; Region: COG3379 641491001152 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 641491001153 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 641491001154 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 641491001155 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 641491001156 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 641491001157 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 641491001158 Walker A/P-loop; other site 641491001159 ATP binding site [chemical binding]; other site 641491001160 Q-loop/lid; other site 641491001161 ABC transporter signature motif; other site 641491001162 Walker B; other site 641491001163 D-loop; other site 641491001164 H-loop/switch region; other site 641491001165 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 641491001166 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 641491001167 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 641491001168 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 641491001169 Walker A/P-loop; other site 641491001170 ATP binding site [chemical binding]; other site 641491001171 Q-loop/lid; other site 641491001172 ABC transporter signature motif; other site 641491001173 Walker B; other site 641491001174 D-loop; other site 641491001175 H-loop/switch region; other site 641491001176 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 641491001177 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 641491001178 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 641491001179 Walker A/P-loop; other site 641491001180 ATP binding site [chemical binding]; other site 641491001181 Q-loop/lid; other site 641491001182 ABC transporter signature motif; other site 641491001183 Walker B; other site 641491001184 D-loop; other site 641491001185 H-loop/switch region; other site 641491001186 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 641491001187 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 641491001188 Glucose inhibited division protein A; Region: GIDA; pfam01134 641491001189 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 641491001190 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 641491001191 homodimer interface [polypeptide binding]; other site 641491001192 substrate-cofactor binding pocket; other site 641491001193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491001194 catalytic residue [active] 641491001195 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 641491001196 protein binding site [polypeptide binding]; other site 641491001197 Peptidase family M48; Region: Peptidase_M48; cl12018 641491001198 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 641491001199 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 641491001200 catalytic residues [active] 641491001201 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491001202 dimer interface [polypeptide binding]; other site 641491001203 conserved gate region; other site 641491001204 putative PBP binding loops; other site 641491001205 ABC-ATPase subunit interface; other site 641491001206 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491001207 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491001208 substrate binding pocket [chemical binding]; other site 641491001209 membrane-bound complex binding site; other site 641491001210 hinge residues; other site 641491001211 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 641491001212 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491001213 dimer interface [polypeptide binding]; other site 641491001214 conserved gate region; other site 641491001215 putative PBP binding loops; other site 641491001216 ABC-ATPase subunit interface; other site 641491001217 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 641491001218 thymidylate kinase; Validated; Region: tmk; PRK00698 641491001219 TMP-binding site; other site 641491001220 ATP-binding site [chemical binding]; other site 641491001221 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 641491001222 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 641491001223 generic binding surface II; other site 641491001224 generic binding surface I; other site 641491001225 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491001226 Zn2+ binding site [ion binding]; other site 641491001227 Mg2+ binding site [ion binding]; other site 641491001228 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 641491001229 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 641491001230 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 641491001231 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 641491001232 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 641491001233 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 641491001234 active site 641491001235 catalytic residues [active] 641491001236 metal binding site [ion binding]; metal-binding site 641491001237 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 641491001238 aspartate kinase; Reviewed; Region: PRK06635 641491001239 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 641491001240 putative catalytic residues [active] 641491001241 putative nucleotide binding site [chemical binding]; other site 641491001242 putative aspartate binding site [chemical binding]; other site 641491001243 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 641491001244 putative allosteric regulatory site; other site 641491001245 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 641491001246 putative allosteric regulatory residue; other site 641491001247 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 641491001248 FOG: CBS domain [General function prediction only]; Region: COG0517 641491001249 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 641491001250 putative carbohydrate kinase; Provisional; Region: PRK10565 641491001251 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 641491001252 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 641491001253 putative substrate binding site [chemical binding]; other site 641491001254 putative ATP binding site [chemical binding]; other site 641491001255 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14657 641491001256 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 641491001257 active site 641491001258 hydrophilic channel; other site 641491001259 dimerization interface [polypeptide binding]; other site 641491001260 catalytic residues [active] 641491001261 active site lid [active] 641491001262 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 641491001263 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 641491001264 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 641491001265 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 641491001266 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 641491001267 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 641491001268 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 641491001269 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 641491001270 ATP binding site [chemical binding]; other site 641491001271 putative Mg++ binding site [ion binding]; other site 641491001272 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 641491001273 nucleotide binding region [chemical binding]; other site 641491001274 ATP-binding site [chemical binding]; other site 641491001275 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 641491001276 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 641491001277 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 641491001278 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 641491001279 SurA N-terminal domain; Region: SurA_N; pfam09312 641491001280 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 641491001281 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 641491001282 non-specific DNA binding site [nucleotide binding]; other site 641491001283 salt bridge; other site 641491001284 sequence-specific DNA binding site [nucleotide binding]; other site 641491001285 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 641491001286 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 641491001287 Recombination protein O N terminal; Region: RecO_N; pfam11967 641491001288 Recombination protein O C terminal; Region: RecO_C; pfam02565 641491001289 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 641491001290 dimer interface [polypeptide binding]; other site 641491001291 motif 1; other site 641491001292 active site 641491001293 motif 2; other site 641491001294 motif 3; other site 641491001295 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 641491001296 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 641491001297 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 641491001298 PBP superfamily domain; Region: PBP_like_2; pfam12849 641491001299 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 641491001300 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 641491001301 ligand binding site [chemical binding]; other site 641491001302 flexible hinge region; other site 641491001303 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 641491001304 non-specific DNA interactions [nucleotide binding]; other site 641491001305 DNA binding site [nucleotide binding] 641491001306 sequence specific DNA binding site [nucleotide binding]; other site 641491001307 putative cAMP binding site [chemical binding]; other site 641491001308 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 641491001309 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 641491001310 Ferredoxin [Energy production and conversion]; Region: COG1146 641491001311 4Fe-4S binding domain; Region: Fer4_6; pfam12837 641491001312 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 641491001313 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 641491001314 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 641491001315 TrkA-N domain; Region: TrkA_N; pfam02254 641491001316 TrkA-C domain; Region: TrkA_C; pfam02080 641491001317 TrkA-N domain; Region: TrkA_N; pfam02254 641491001318 TrkA-C domain; Region: TrkA_C; pfam02080 641491001319 Cation transport protein; Region: TrkH; cl17365 641491001320 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 641491001321 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 641491001322 L-aspartate oxidase; Provisional; Region: PRK06175 641491001323 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 641491001324 quinolinate synthetase; Provisional; Region: PRK09375 641491001325 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 641491001326 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 641491001327 dimerization interface [polypeptide binding]; other site 641491001328 active site 641491001329 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 641491001330 MgtE intracellular N domain; Region: MgtE_N; pfam03448 641491001331 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 641491001332 Divalent cation transporter; Region: MgtE; pfam01769 641491001333 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 641491001334 PilZ domain; Region: PilZ; pfam07238 641491001335 NIL domain; Region: NIL; pfam09383 641491001336 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491001337 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 641491001338 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 641491001339 TPR motif; other site 641491001340 binding surface 641491001341 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 641491001342 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 641491001343 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 641491001344 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 641491001345 active site 641491001346 HIGH motif; other site 641491001347 nucleotide binding site [chemical binding]; other site 641491001348 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 641491001349 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 641491001350 active site 641491001351 KMSKS motif; other site 641491001352 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 641491001353 tRNA binding surface [nucleotide binding]; other site 641491001354 anticodon binding site; other site 641491001355 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 641491001356 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 641491001357 binding surface 641491001358 TPR motif; other site 641491001359 TPR repeat; Region: TPR_11; pfam13414 641491001360 serine O-acetyltransferase; Region: cysE; TIGR01172 641491001361 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 641491001362 trimer interface [polypeptide binding]; other site 641491001363 active site 641491001364 substrate binding site [chemical binding]; other site 641491001365 CoA binding site [chemical binding]; other site 641491001366 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 641491001367 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 641491001368 dimer interface [polypeptide binding]; other site 641491001369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491001370 catalytic residue [active] 641491001371 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 641491001372 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 641491001373 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 641491001374 catalytic residue [active] 641491001375 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 641491001376 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 641491001377 trimerization site [polypeptide binding]; other site 641491001378 active site 641491001379 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 641491001380 NifU-like domain; Region: NifU; pfam01106 641491001381 Protein of unknown function (DUF493); Region: DUF493; pfam04359 641491001382 Response regulator receiver domain; Region: Response_reg; pfam00072 641491001383 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 641491001384 active site 641491001385 phosphorylation site [posttranslational modification] 641491001386 intermolecular recognition site; other site 641491001387 dimerization interface [polypeptide binding]; other site 641491001388 PAS domain S-box; Region: sensory_box; TIGR00229 641491001389 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 641491001390 putative active site [active] 641491001391 heme pocket [chemical binding]; other site 641491001392 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491001393 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491001394 metal binding site [ion binding]; metal-binding site 641491001395 active site 641491001396 I-site; other site 641491001397 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 641491001398 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 641491001399 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 641491001400 AAA domain; Region: AAA_32; pfam13654 641491001401 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 641491001402 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 641491001403 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 641491001404 PYR/PP interface [polypeptide binding]; other site 641491001405 dimer interface [polypeptide binding]; other site 641491001406 TPP binding site [chemical binding]; other site 641491001407 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 641491001408 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 641491001409 TPP-binding site [chemical binding]; other site 641491001410 dimer interface [polypeptide binding]; other site 641491001411 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 641491001412 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 641491001413 putative valine binding site [chemical binding]; other site 641491001414 dimer interface [polypeptide binding]; other site 641491001415 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 641491001416 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 641491001417 putative CheA interaction surface; other site 641491001418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 641491001419 Smr domain; Region: Smr; pfam01713 641491001420 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 641491001421 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 641491001422 Walker A/P-loop; other site 641491001423 ATP binding site [chemical binding]; other site 641491001424 Q-loop/lid; other site 641491001425 ABC transporter signature motif; other site 641491001426 Walker B; other site 641491001427 D-loop; other site 641491001428 H-loop/switch region; other site 641491001429 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 641491001430 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 641491001431 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491001432 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491001433 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491001434 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491001435 Succinyl-CoA synthetase, beta subunit [Energy production and conversion]; Region: SucC; COG0045 641491001436 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 641491001437 CoA-ligase; Region: Ligase_CoA; pfam00549 641491001438 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 641491001439 CoA binding domain; Region: CoA_binding; smart00881 641491001440 CoA-ligase; Region: Ligase_CoA; pfam00549 641491001441 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 641491001442 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 641491001443 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 641491001444 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 641491001445 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 641491001446 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 641491001447 pyruvate carboxylase; Reviewed; Region: PRK12999 641491001448 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 641491001449 ATP-grasp domain; Region: ATP-grasp_4; cl17255 641491001450 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 641491001451 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 641491001452 active site 641491001453 catalytic residues [active] 641491001454 metal binding site [ion binding]; metal-binding site 641491001455 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 641491001456 carboxyltransferase (CT) interaction site; other site 641491001457 biotinylation site [posttranslational modification]; other site 641491001458 Double zinc ribbon; Region: DZR; pfam12773 641491001459 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 641491001460 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 641491001461 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 641491001462 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 641491001463 FlaG protein; Region: FlaG; cl00591 641491001464 Protein of unknown function (DUF342); Region: DUF342; pfam03961 641491001465 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 641491001466 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 641491001467 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 641491001468 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 641491001469 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491001470 ligand binding site [chemical binding]; other site 641491001471 flagellar motor protein MotS; Reviewed; Region: PRK06925 641491001472 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 641491001473 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491001474 ligand binding site [chemical binding]; other site 641491001475 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 641491001476 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 641491001477 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 641491001478 molybdopterin cofactor binding site; other site 641491001479 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 641491001480 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 641491001481 4Fe-4S binding domain; Region: Fer4; cl02805 641491001482 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 641491001483 non-heme iron binding site [ion binding]; other site 641491001484 Beta propeller domain; Region: Beta_propel; pfam09826 641491001485 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 641491001486 Predicted permeases [General function prediction only]; Region: COG0795 641491001487 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 641491001488 Predicted permeases [General function prediction only]; Region: COG0795 641491001489 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 641491001490 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 641491001491 G1 box; other site 641491001492 GTP/Mg2+ binding site [chemical binding]; other site 641491001493 Switch I region; other site 641491001494 G2 box; other site 641491001495 G3 box; other site 641491001496 Switch II region; other site 641491001497 G4 box; other site 641491001498 G5 box; other site 641491001499 Dehydroquinase class II; Region: DHquinase_II; pfam01220 641491001500 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 641491001501 trimer interface [polypeptide binding]; other site 641491001502 active site 641491001503 dimer interface [polypeptide binding]; other site 641491001504 elongation factor P; Validated; Region: PRK00529 641491001505 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 641491001506 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 641491001507 RNA binding site [nucleotide binding]; other site 641491001508 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 641491001509 RNA binding site [nucleotide binding]; other site 641491001510 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 641491001511 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 641491001512 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 641491001513 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 641491001514 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 641491001515 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 641491001516 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 641491001517 RNA binding surface [nucleotide binding]; other site 641491001518 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 641491001519 active site 641491001520 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 641491001521 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 641491001522 CPxP motif; other site 641491001523 DsrE/DsrF-like family; Region: DrsE; pfam02635 641491001524 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 641491001525 putative acyl-acceptor binding pocket; other site 641491001526 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 641491001527 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 641491001528 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 641491001529 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 641491001530 active site 641491001531 dimerization interface [polypeptide binding]; other site 641491001532 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 641491001533 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 641491001534 nudix motif; other site 641491001535 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 641491001536 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491001537 Coenzyme A binding pocket [chemical binding]; other site 641491001538 Phosphoglycerate kinase; Region: PGK; pfam00162 641491001539 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 641491001540 substrate binding site [chemical binding]; other site 641491001541 hinge regions; other site 641491001542 ADP binding site [chemical binding]; other site 641491001543 catalytic site [active] 641491001544 triosephosphate isomerase; Provisional; Region: PRK14565 641491001545 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 641491001546 substrate binding site [chemical binding]; other site 641491001547 dimer interface [polypeptide binding]; other site 641491001548 catalytic triad [active] 641491001549 Preprotein translocase SecG subunit; Region: SecG; pfam03840 641491001550 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 641491001551 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 641491001552 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 641491001553 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 641491001554 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 641491001555 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 641491001556 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 641491001557 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 641491001558 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 641491001559 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 641491001560 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 641491001561 Response regulator receiver domain; Region: Response_reg; pfam00072 641491001562 active site 641491001563 phosphorylation site [posttranslational modification] 641491001564 intermolecular recognition site; other site 641491001565 dimerization interface [polypeptide binding]; other site 641491001566 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 641491001567 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491001568 Coenzyme A binding pocket [chemical binding]; other site 641491001569 Predicted membrane protein [Function unknown]; Region: COG4541 641491001570 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 641491001571 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 641491001572 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 641491001573 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 641491001574 catalytic center binding site [active] 641491001575 ATP binding site [chemical binding]; other site 641491001576 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 641491001577 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 641491001578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491001579 homodimer interface [polypeptide binding]; other site 641491001580 catalytic residue [active] 641491001581 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 641491001582 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 641491001583 active site 641491001584 DNA binding site [nucleotide binding] 641491001585 Int/Topo IB signature motif; other site 641491001586 DHH family; Region: DHH; pfam01368 641491001587 DHHA1 domain; Region: DHHA1; pfam02272 641491001588 FOG: CBS domain [General function prediction only]; Region: COG0517 641491001589 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 641491001590 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 641491001591 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 641491001592 active site 641491001593 NTP binding site [chemical binding]; other site 641491001594 metal binding triad [ion binding]; metal-binding site 641491001595 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 641491001596 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 641491001597 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 641491001598 nucleotide binding site/active site [active] 641491001599 HIT family signature motif; other site 641491001600 catalytic residue [active] 641491001601 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 641491001602 tetratricopeptide repeat protein; Provisional; Region: PRK11788 641491001603 TPR motif; other site 641491001604 binding surface 641491001605 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 641491001606 MutS domain I; Region: MutS_I; pfam01624 641491001607 MutS domain II; Region: MutS_II; pfam05188 641491001608 MutS domain III; Region: MutS_III; pfam05192 641491001609 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 641491001610 Walker A/P-loop; other site 641491001611 ATP binding site [chemical binding]; other site 641491001612 Q-loop/lid; other site 641491001613 ABC transporter signature motif; other site 641491001614 Walker B; other site 641491001615 D-loop; other site 641491001616 H-loop/switch region; other site 641491001617 diaminopimelate decarboxylase; Region: lysA; TIGR01048 641491001618 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 641491001619 active site 641491001620 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 641491001621 substrate binding site [chemical binding]; other site 641491001622 catalytic residues [active] 641491001623 dimer interface [polypeptide binding]; other site 641491001624 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 641491001625 RNA methyltransferase, RsmE family; Region: TIGR00046 641491001626 recombination factor protein RarA; Reviewed; Region: PRK13342 641491001627 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491001628 Walker A motif; other site 641491001629 ATP binding site [chemical binding]; other site 641491001630 Walker B motif; other site 641491001631 arginine finger; other site 641491001632 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 641491001633 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 641491001634 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 641491001635 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 641491001636 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 641491001637 putative active site [active] 641491001638 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 641491001639 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 641491001640 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 641491001641 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 641491001642 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 641491001643 tRNA; other site 641491001644 putative tRNA binding site [nucleotide binding]; other site 641491001645 putative NADP binding site [chemical binding]; other site 641491001646 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 641491001647 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 641491001648 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 641491001649 adenylate kinase; Provisional; Region: PRK14529 641491001650 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 641491001651 AMP-binding site [chemical binding]; other site 641491001652 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 641491001653 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 641491001654 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491001655 acyl-activating enzyme (AAE) consensus motif; other site 641491001656 active site 641491001657 AMP binding site [chemical binding]; other site 641491001658 CoA binding site [chemical binding]; other site 641491001659 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 641491001660 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 641491001661 Protein export membrane protein; Region: SecD_SecF; pfam02355 641491001662 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 641491001663 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 641491001664 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 641491001665 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 641491001666 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 641491001667 putative subunit interface; other site 641491001668 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 641491001669 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 641491001670 putative active site [active] 641491001671 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 641491001672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491001673 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 641491001674 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 641491001675 4Fe-4S binding domain; Region: Fer4; cl02805 641491001676 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 641491001677 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 641491001678 active site 641491001679 FMN binding site [chemical binding]; other site 641491001680 substrate binding site [chemical binding]; other site 641491001681 3Fe-4S cluster binding site [ion binding]; other site 641491001682 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 641491001683 Na binding site [ion binding]; other site 641491001684 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 641491001685 trimer interface [polypeptide binding]; other site 641491001686 active site 641491001687 acetylornithine aminotransferase; Provisional; Region: PRK02627 641491001688 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 641491001689 inhibitor-cofactor binding pocket; inhibition site 641491001690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491001691 catalytic residue [active] 641491001692 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 641491001693 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 641491001694 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 641491001695 minor groove reading motif; other site 641491001696 helix-hairpin-helix signature motif; other site 641491001697 substrate binding pocket [chemical binding]; other site 641491001698 active site 641491001699 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 641491001700 Peptidase family M23; Region: Peptidase_M23; pfam01551 641491001701 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 641491001702 C-terminal peptidase (prc); Region: prc; TIGR00225 641491001703 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 641491001704 protein binding site [polypeptide binding]; other site 641491001705 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 641491001706 Catalytic dyad [active] 641491001707 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 641491001708 NodB motif; other site 641491001709 putative active site [active] 641491001710 putative catalytic site [active] 641491001711 Zn binding site [ion binding]; other site 641491001712 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 641491001713 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 641491001714 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 641491001715 zinc binding site [ion binding]; other site 641491001716 putative ligand binding site [chemical binding]; other site 641491001717 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491001718 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 641491001719 TM-ABC transporter signature motif; other site 641491001720 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 641491001721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491001722 Walker A/P-loop; other site 641491001723 ATP binding site [chemical binding]; other site 641491001724 Q-loop/lid; other site 641491001725 ABC transporter signature motif; other site 641491001726 Walker B; other site 641491001727 D-loop; other site 641491001728 H-loop/switch region; other site 641491001729 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 641491001730 active site 641491001731 multimer interface [polypeptide binding]; other site 641491001732 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 641491001733 pyrroline-5-carboxylate reductase; Region: PLN02688 641491001734 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 641491001735 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 641491001736 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 641491001737 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 641491001738 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 641491001739 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 641491001740 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 641491001741 DNA binding residues [nucleotide binding] 641491001742 DNA primase; Validated; Region: dnaG; PRK05667 641491001743 CHC2 zinc finger; Region: zf-CHC2; cl17510 641491001744 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 641491001745 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 641491001746 active site 641491001747 metal binding site [ion binding]; metal-binding site 641491001748 interdomain interaction site; other site 641491001749 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 641491001750 MutS domain III; Region: MutS_III; pfam05192 641491001751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491001752 Walker A/P-loop; other site 641491001753 ATP binding site [chemical binding]; other site 641491001754 Q-loop/lid; other site 641491001755 ABC transporter signature motif; other site 641491001756 Walker B; other site 641491001757 D-loop; other site 641491001758 H-loop/switch region; other site 641491001759 Smr domain; Region: Smr; pfam01713 641491001760 Yqey-like protein; Region: YqeY; pfam09424 641491001761 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 641491001762 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 641491001763 IHF dimer interface [polypeptide binding]; other site 641491001764 IHF - DNA interface [nucleotide binding]; other site 641491001765 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 641491001766 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 641491001767 S-adenosylmethionine binding site [chemical binding]; other site 641491001768 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 641491001769 active site 641491001770 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 641491001771 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 641491001772 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 641491001773 active site 641491001774 putative substrate binding pocket [chemical binding]; other site 641491001775 diaminopimelate aminotransferase; Provisional; Region: PRK13983 641491001776 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 641491001777 metal binding site [ion binding]; metal-binding site 641491001778 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 641491001779 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 641491001780 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 641491001781 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 641491001782 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 641491001783 Transporter associated domain; Region: CorC_HlyC; smart01091 641491001784 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 641491001785 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 641491001786 putative active site [active] 641491001787 catalytic triad [active] 641491001788 putative dimer interface [polypeptide binding]; other site 641491001789 peptide chain release factor 2; Validated; Region: prfB; PRK00578 641491001790 PCRF domain; Region: PCRF; pfam03462 641491001791 RF-1 domain; Region: RF-1; pfam00472 641491001792 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 641491001793 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 641491001794 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 641491001795 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 641491001796 IHF - DNA interface [nucleotide binding]; other site 641491001797 IHF dimer interface [polypeptide binding]; other site 641491001798 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 641491001799 dihydrodipicolinate synthase; Region: dapA; TIGR00674 641491001800 dimer interface [polypeptide binding]; other site 641491001801 active site 641491001802 catalytic residue [active] 641491001803 GAF domain; Region: GAF; cl17456 641491001804 GAF domain; Region: GAF_2; pfam13185 641491001805 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 641491001806 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 641491001807 DNA binding residues [nucleotide binding] 641491001808 hypothetical protein; Provisional; Region: PRK11622 641491001809 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 641491001810 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 641491001811 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 641491001812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491001813 Walker A/P-loop; other site 641491001814 ATP binding site [chemical binding]; other site 641491001815 Q-loop/lid; other site 641491001816 ABC transporter signature motif; other site 641491001817 Walker B; other site 641491001818 D-loop; other site 641491001819 H-loop/switch region; other site 641491001820 TOBE domain; Region: TOBE_2; pfam08402 641491001821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491001822 dimer interface [polypeptide binding]; other site 641491001823 conserved gate region; other site 641491001824 putative PBP binding loops; other site 641491001825 ABC-ATPase subunit interface; other site 641491001826 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 641491001827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491001828 dimer interface [polypeptide binding]; other site 641491001829 conserved gate region; other site 641491001830 putative PBP binding loops; other site 641491001831 ABC-ATPase subunit interface; other site 641491001832 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 641491001833 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 641491001834 DHHA2 domain; Region: DHHA2; pfam02833 641491001835 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 641491001836 active site 641491001837 phosphorylation site [posttranslational modification] 641491001838 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 641491001839 active pocket/dimerization site; other site 641491001840 active site 641491001841 phosphorylation site [posttranslational modification] 641491001842 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 641491001843 AAA domain; Region: AAA_18; pfam13238 641491001844 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 641491001845 active site 641491001846 phosphorylation site [posttranslational modification] 641491001847 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 641491001848 30S subunit binding site; other site 641491001849 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 641491001850 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 641491001851 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 641491001852 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 641491001853 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 641491001854 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 641491001855 Walker A/P-loop; other site 641491001856 ATP binding site [chemical binding]; other site 641491001857 Q-loop/lid; other site 641491001858 ABC transporter signature motif; other site 641491001859 Walker B; other site 641491001860 D-loop; other site 641491001861 H-loop/switch region; other site 641491001862 Bacterial SH3 domain; Region: SH3_3; cl17532 641491001863 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 641491001864 OstA-like protein; Region: OstA; pfam03968 641491001865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 641491001866 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 641491001867 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 641491001868 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 641491001869 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 641491001870 CTP synthetase; Validated; Region: pyrG; PRK05380 641491001871 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 641491001872 Catalytic site [active] 641491001873 active site 641491001874 UTP binding site [chemical binding]; other site 641491001875 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 641491001876 active site 641491001877 putative oxyanion hole; other site 641491001878 catalytic triad [active] 641491001879 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 641491001880 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 641491001881 conserved cys residue [active] 641491001882 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 641491001883 nucleoside/Zn binding site; other site 641491001884 dimer interface [polypeptide binding]; other site 641491001885 catalytic motif [active] 641491001886 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 641491001887 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 641491001888 Int/Topo IB signature motif; other site 641491001889 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 641491001890 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 641491001891 HsdM N-terminal domain; Region: HsdM_N; pfam12161 641491001892 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 641491001893 Methyltransferase domain; Region: Methyltransf_26; pfam13659 641491001894 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 641491001895 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 641491001896 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 641491001897 ATP binding site [chemical binding]; other site 641491001898 putative Mg++ binding site [ion binding]; other site 641491001899 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 641491001900 nucleotide binding region [chemical binding]; other site 641491001901 ATP-binding site [chemical binding]; other site 641491001902 TSCPD domain; Region: TSCPD; cl14834 641491001903 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 641491001904 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 641491001905 DNA binding site [nucleotide binding] 641491001906 active site 641491001907 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 641491001908 EamA-like transporter family; Region: EamA; pfam00892 641491001909 EamA-like transporter family; Region: EamA; pfam00892 641491001910 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 641491001911 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 641491001912 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 641491001913 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 641491001914 CHASE2 domain; Region: CHASE2; pfam05226 641491001915 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 641491001916 cyclase homology domain; Region: CHD; cd07302 641491001917 nucleotidyl binding site; other site 641491001918 metal binding site [ion binding]; metal-binding site 641491001919 dimer interface [polypeptide binding]; other site 641491001920 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 641491001921 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491001922 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491001923 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 641491001924 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 641491001925 ATP-grasp domain; Region: ATP-grasp_4; cl17255 641491001926 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 641491001927 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 641491001928 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 641491001929 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 641491001930 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 641491001931 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 641491001932 FOG: CBS domain [General function prediction only]; Region: COG0517 641491001933 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491001934 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491001935 metal binding site [ion binding]; metal-binding site 641491001936 active site 641491001937 I-site; other site 641491001938 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 641491001939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491001940 Walker A/P-loop; other site 641491001941 ATP binding site [chemical binding]; other site 641491001942 Q-loop/lid; other site 641491001943 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 641491001944 ABC transporter; Region: ABC_tran_2; pfam12848 641491001945 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 641491001946 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 641491001947 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 641491001948 TPP-binding site [chemical binding]; other site 641491001949 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 641491001950 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 641491001951 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 641491001952 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 641491001953 dimer interface [polypeptide binding]; other site 641491001954 PYR/PP interface [polypeptide binding]; other site 641491001955 TPP binding site [chemical binding]; other site 641491001956 substrate binding site [chemical binding]; other site 641491001957 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 641491001958 Ferritin-like domain; Region: Ferritin; pfam00210 641491001959 ferroxidase diiron center [ion binding]; other site 641491001960 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 641491001961 AAA domain; Region: AAA_30; pfam13604 641491001962 Family description; Region: UvrD_C_2; pfam13538 641491001963 recombination protein RecR; Reviewed; Region: recR; PRK00076 641491001964 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 641491001965 putative active site [active] 641491001966 putative metal-binding site [ion binding]; other site 641491001967 tetramer interface [polypeptide binding]; other site 641491001968 hypothetical protein; Validated; Region: PRK00153 641491001969 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 641491001970 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491001971 Walker A motif; other site 641491001972 ATP binding site [chemical binding]; other site 641491001973 Walker B motif; other site 641491001974 arginine finger; other site 641491001975 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 641491001976 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 641491001977 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 641491001978 homodimer interface [polypeptide binding]; other site 641491001979 substrate-cofactor binding pocket; other site 641491001980 catalytic residue [active] 641491001981 aminotransferase; Validated; Region: PRK08175 641491001982 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 641491001983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491001984 homodimer interface [polypeptide binding]; other site 641491001985 catalytic residue [active] 641491001986 homoserine dehydrogenase; Provisional; Region: PRK06349 641491001987 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 641491001988 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 641491001989 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 641491001990 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 641491001991 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 641491001992 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 641491001993 active site 641491001994 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 641491001995 active site 641491001996 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 641491001997 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 641491001998 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 641491001999 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 641491002000 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 641491002001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491002002 dimer interface [polypeptide binding]; other site 641491002003 conserved gate region; other site 641491002004 putative PBP binding loops; other site 641491002005 ABC-ATPase subunit interface; other site 641491002006 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491002007 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491002008 substrate binding pocket [chemical binding]; other site 641491002009 membrane-bound complex binding site; other site 641491002010 hinge residues; other site 641491002011 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 641491002012 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 641491002013 Walker A/P-loop; other site 641491002014 ATP binding site [chemical binding]; other site 641491002015 Q-loop/lid; other site 641491002016 ABC transporter signature motif; other site 641491002017 Walker B; other site 641491002018 D-loop; other site 641491002019 H-loop/switch region; other site 641491002020 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 641491002021 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491002022 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 641491002023 TM-ABC transporter signature motif; other site 641491002024 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491002025 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 641491002026 TM-ABC transporter signature motif; other site 641491002027 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 641491002028 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 641491002029 putative ligand binding site [chemical binding]; other site 641491002030 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 641491002031 active site 641491002032 Glucokinase; Region: Glucokinase; cl17310 641491002033 glucokinase, proteobacterial type; Region: glk; TIGR00749 641491002034 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 641491002035 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 641491002036 flagellar motor protein MotS; Reviewed; Region: PRK06742 641491002037 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491002038 ligand binding site [chemical binding]; other site 641491002039 Maf-like protein; Reviewed; Region: PRK00078 641491002040 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 641491002041 active site 641491002042 dimer interface [polypeptide binding]; other site 641491002043 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491002044 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 641491002045 Coenzyme A binding pocket [chemical binding]; other site 641491002046 Methyltransferase domain; Region: Methyltransf_31; pfam13847 641491002047 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 641491002048 S-adenosylmethionine binding site [chemical binding]; other site 641491002049 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 641491002050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491002051 Coenzyme A binding pocket [chemical binding]; other site 641491002052 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 641491002053 putative acetyltransferase; Provisional; Region: PRK03624 641491002054 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491002055 Coenzyme A binding pocket [chemical binding]; other site 641491002056 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 641491002057 tetramer interfaces [polypeptide binding]; other site 641491002058 binuclear metal-binding site [ion binding]; other site 641491002059 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 641491002060 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491002061 ligand binding site [chemical binding]; other site 641491002062 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 641491002063 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 641491002064 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 641491002065 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 641491002066 TonB C terminal; Region: TonB_2; pfam13103 641491002067 TolR protein; Region: tolR; TIGR02801 641491002068 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 641491002069 TolQ protein; Region: tolQ; TIGR02796 641491002070 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 641491002071 active site 641491002072 hypothetical protein; Provisional; Region: PRK06361 641491002073 Bifunctional nuclease; Region: DNase-RNase; pfam02577 641491002074 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 641491002075 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 641491002076 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 641491002077 FeS/SAM binding site; other site 641491002078 TRAM domain; Region: TRAM; cl01282 641491002079 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 641491002080 active site 641491002081 Phosphotransferase enzyme family; Region: APH; pfam01636 641491002082 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 641491002083 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 641491002084 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 641491002085 substrate binding site [chemical binding]; other site 641491002086 ATP binding site [chemical binding]; other site 641491002087 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 641491002088 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 641491002089 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 641491002090 minor groove reading motif; other site 641491002091 helix-hairpin-helix signature motif; other site 641491002092 substrate binding pocket [chemical binding]; other site 641491002093 active site 641491002094 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 641491002095 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 641491002096 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 641491002097 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 641491002098 Transcriptional regulator; Region: Rrf2; cl17282 641491002099 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 641491002100 Protein of unknown function DUF89; Region: DUF89; cl15397 641491002101 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 641491002102 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 641491002103 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 641491002104 active site 641491002105 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 641491002106 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 641491002107 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 641491002108 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 641491002109 trimer interface [polypeptide binding]; other site 641491002110 active site 641491002111 UDP-GlcNAc binding site [chemical binding]; other site 641491002112 lipid binding site [chemical binding]; lipid-binding site 641491002113 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 641491002114 Predicted integral membrane protein [Function unknown]; Region: COG5616 641491002115 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 641491002116 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 641491002117 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 641491002118 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 641491002119 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 641491002120 Surface antigen; Region: Bac_surface_Ag; pfam01103 641491002121 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 641491002122 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 641491002123 Walker A/P-loop; other site 641491002124 ATP binding site [chemical binding]; other site 641491002125 Q-loop/lid; other site 641491002126 ABC transporter signature motif; other site 641491002127 Walker B; other site 641491002128 D-loop; other site 641491002129 H-loop/switch region; other site 641491002130 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 641491002131 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 641491002132 FtsX-like permease family; Region: FtsX; pfam02687 641491002133 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 641491002134 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 641491002135 dimer interface [polypeptide binding]; other site 641491002136 putative anticodon binding site; other site 641491002137 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 641491002138 motif 1; other site 641491002139 active site 641491002140 motif 2; other site 641491002141 motif 3; other site 641491002142 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 641491002143 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 641491002144 active site residue [active] 641491002145 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 641491002146 active site residue [active] 641491002147 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 641491002148 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 641491002149 dimer interface [polypeptide binding]; other site 641491002150 PYR/PP interface [polypeptide binding]; other site 641491002151 TPP binding site [chemical binding]; other site 641491002152 substrate binding site [chemical binding]; other site 641491002153 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 641491002154 Domain of unknown function; Region: EKR; pfam10371 641491002155 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491002156 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 641491002157 TPP-binding site [chemical binding]; other site 641491002158 dimer interface [polypeptide binding]; other site 641491002159 Domain of unknown function DUF77; Region: DUF77; pfam01910 641491002160 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 641491002161 substrate binding site [chemical binding]; other site 641491002162 multimerization interface [polypeptide binding]; other site 641491002163 ATP binding site [chemical binding]; other site 641491002164 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 641491002165 thiamine phosphate binding site [chemical binding]; other site 641491002166 active site 641491002167 pyrophosphate binding site [ion binding]; other site 641491002168 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 641491002169 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 641491002170 active site 641491002171 phosphorylation site [posttranslational modification] 641491002172 intermolecular recognition site; other site 641491002173 dimerization interface [polypeptide binding]; other site 641491002174 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 641491002175 DNA binding site [nucleotide binding] 641491002176 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491002177 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491002178 dimerization interface [polypeptide binding]; other site 641491002179 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491002180 dimer interface [polypeptide binding]; other site 641491002181 phosphorylation site [posttranslational modification] 641491002182 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 641491002183 ATP binding site [chemical binding]; other site 641491002184 Mg2+ binding site [ion binding]; other site 641491002185 G-X-G motif; other site 641491002186 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 641491002187 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 641491002188 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 641491002189 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 641491002190 Ligand binding site; other site 641491002191 DXD motif; other site 641491002192 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 641491002193 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 641491002194 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 641491002195 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 641491002196 putative active site [active] 641491002197 metal binding site [ion binding]; metal-binding site 641491002198 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 641491002199 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 641491002200 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 641491002201 active site 641491002202 CoA binding domain; Region: CoA_binding_2; pfam13380 641491002203 Flagellin N-methylase; Region: FliB; pfam03692 641491002204 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 641491002205 HSP70 interaction site [polypeptide binding]; other site 641491002206 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 641491002207 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 641491002208 putative active site [active] 641491002209 oxyanion strand; other site 641491002210 catalytic triad [active] 641491002211 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 641491002212 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 641491002213 substrate binding site [chemical binding]; other site 641491002214 glutamase interaction surface [polypeptide binding]; other site 641491002215 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 641491002216 trimer interface [polypeptide binding]; other site 641491002217 dimer interface [polypeptide binding]; other site 641491002218 putative active site [active] 641491002219 chaperone protein DnaJ; Provisional; Region: PRK14301 641491002220 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 641491002221 HSP70 interaction site [polypeptide binding]; other site 641491002222 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 641491002223 substrate binding site [polypeptide binding]; other site 641491002224 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 641491002225 Zn binding sites [ion binding]; other site 641491002226 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 641491002227 dimer interface [polypeptide binding]; other site 641491002228 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 641491002229 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 641491002230 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 641491002231 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 641491002232 Ligand Binding Site [chemical binding]; other site 641491002233 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 641491002234 Peptidase family M23; Region: Peptidase_M23; pfam01551 641491002235 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 641491002236 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 641491002237 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 641491002238 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 641491002239 FHIPEP family; Region: FHIPEP; pfam00771 641491002240 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 641491002241 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 641491002242 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 641491002243 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 641491002244 P-loop; other site 641491002245 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 641491002246 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 641491002247 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 641491002248 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 641491002249 DNA binding residues [nucleotide binding] 641491002250 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 641491002251 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 641491002252 active site 641491002253 phosphorylation site [posttranslational modification] 641491002254 intermolecular recognition site; other site 641491002255 dimerization interface [polypeptide binding]; other site 641491002256 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 641491002257 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 641491002258 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 641491002259 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 641491002260 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 641491002261 S-adenosylmethionine binding site [chemical binding]; other site 641491002262 peptide chain release factor 1; Validated; Region: prfA; PRK00591 641491002263 This domain is found in peptide chain release factors; Region: PCRF; smart00937 641491002264 RF-1 domain; Region: RF-1; pfam00472 641491002265 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 641491002266 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 641491002267 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 641491002268 DsrC like protein; Region: DsrC; pfam04358 641491002269 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 641491002270 YcaO-like family; Region: YcaO; pfam02624 641491002271 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 641491002272 binding surface 641491002273 TPR motif; other site 641491002274 TPR repeat; Region: TPR_11; pfam13414 641491002275 Putative methyltransferase; Region: Methyltransf_16; pfam10294 641491002276 Protein of unknown function (DUF1517); Region: DUF1517; cl01807 641491002277 Tim44-like domain; Region: Tim44; cl09208 641491002278 Response regulator receiver domain; Region: Response_reg; pfam00072 641491002279 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 641491002280 active site 641491002281 phosphorylation site [posttranslational modification] 641491002282 intermolecular recognition site; other site 641491002283 dimerization interface [polypeptide binding]; other site 641491002284 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491002285 Zn2+ binding site [ion binding]; other site 641491002286 Mg2+ binding site [ion binding]; other site 641491002287 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 641491002288 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491002289 PilZ domain; Region: PilZ; pfam07238 641491002290 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491002291 heme-binding residues [chemical binding]; other site 641491002292 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491002293 heme-binding residues [chemical binding]; other site 641491002294 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491002295 heme-binding residues [chemical binding]; other site 641491002296 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 641491002297 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 641491002298 FMN-binding domain; Region: FMN_bind; cl01081 641491002299 electron transport complex RsxE subunit; Provisional; Region: PRK12405 641491002300 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 641491002301 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 641491002302 Putative Fe-S cluster; Region: FeS; cl17515 641491002303 4Fe-4S binding domain; Region: Fer4; pfam00037 641491002304 putative oxidoreductase; Provisional; Region: PRK12831 641491002305 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 641491002306 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 641491002307 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 641491002308 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 641491002309 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 641491002310 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 641491002311 binding surface 641491002312 TPR motif; other site 641491002313 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 641491002314 binding surface 641491002315 TPR motif; other site 641491002316 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 641491002317 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 641491002318 iron-sulfur cluster [ion binding]; other site 641491002319 [2Fe-2S] cluster binding site [ion binding]; other site 641491002320 intrachain domain interface; other site 641491002321 heme bH binding site [chemical binding]; other site 641491002322 heme bL binding site [chemical binding]; other site 641491002323 interchain domain interface [polypeptide binding]; other site 641491002324 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 641491002325 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 641491002326 Qo binding site; other site 641491002327 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 641491002328 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 641491002329 motif II; other site 641491002330 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 641491002331 Sulfatase; Region: Sulfatase; pfam00884 641491002332 Transcriptional regulator [Transcription]; Region: LysR; COG0583 641491002333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491002334 LysR substrate binding domain; Region: LysR_substrate; pfam03466 641491002335 dimerization interface [polypeptide binding]; other site 641491002336 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 641491002337 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 641491002338 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 641491002339 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 641491002340 MoaE interaction surface [polypeptide binding]; other site 641491002341 MoeB interaction surface [polypeptide binding]; other site 641491002342 thiocarboxylated glycine; other site 641491002343 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 641491002344 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 641491002345 ATP binding site [chemical binding]; other site 641491002346 substrate interface [chemical binding]; other site 641491002347 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 641491002348 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 641491002349 PBP superfamily domain; Region: PBP_like_2; pfam12849 641491002350 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491002351 dimer interface [polypeptide binding]; other site 641491002352 conserved gate region; other site 641491002353 putative PBP binding loops; other site 641491002354 ABC-ATPase subunit interface; other site 641491002355 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 641491002356 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 641491002357 Walker A/P-loop; other site 641491002358 ATP binding site [chemical binding]; other site 641491002359 Q-loop/lid; other site 641491002360 ABC transporter signature motif; other site 641491002361 Walker B; other site 641491002362 D-loop; other site 641491002363 H-loop/switch region; other site 641491002364 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 641491002365 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 641491002366 Putative Fe-S cluster; Region: FeS; cl17515 641491002367 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 641491002368 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 641491002369 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 641491002370 NAD binding site [chemical binding]; other site 641491002371 substrate binding site [chemical binding]; other site 641491002372 homodimer interface [polypeptide binding]; other site 641491002373 active site 641491002374 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 641491002375 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 641491002376 NADP binding site [chemical binding]; other site 641491002377 active site 641491002378 putative substrate binding site [chemical binding]; other site 641491002379 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 641491002380 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 641491002381 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 641491002382 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 641491002383 ligand binding site [chemical binding]; other site 641491002384 flexible hinge region; other site 641491002385 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 641491002386 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 641491002387 active site 641491002388 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 641491002389 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 641491002390 homodimer interface [polypeptide binding]; other site 641491002391 substrate-cofactor binding pocket; other site 641491002392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491002393 catalytic residue [active] 641491002394 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 641491002395 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 641491002396 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 641491002397 FAD binding site [chemical binding]; other site 641491002398 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 641491002399 active site 641491002400 8-oxo-dGMP binding site [chemical binding]; other site 641491002401 nudix motif; other site 641491002402 metal binding site [ion binding]; metal-binding site 641491002403 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 641491002404 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 641491002405 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 641491002406 ABC transporter; Region: ABC_tran_2; pfam12848 641491002407 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 641491002408 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 641491002409 GIY-YIG motif/motif A; other site 641491002410 putative active site [active] 641491002411 putative metal binding site [ion binding]; other site 641491002412 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 641491002413 tartrate dehydrogenase; Provisional; Region: PRK08194 641491002414 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 641491002415 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 641491002416 substrate binding site [chemical binding]; other site 641491002417 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 641491002418 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 641491002419 substrate binding site [chemical binding]; other site 641491002420 ligand binding site [chemical binding]; other site 641491002421 2-isopropylmalate synthase; Validated; Region: PRK00915 641491002422 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 641491002423 active site 641491002424 catalytic residues [active] 641491002425 metal binding site [ion binding]; metal-binding site 641491002426 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 641491002427 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 641491002428 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 641491002429 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 641491002430 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 641491002431 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 641491002432 Domain of unknown function (DUF814); Region: DUF814; pfam05670 641491002433 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 641491002434 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 641491002435 minor groove reading motif; other site 641491002436 helix-hairpin-helix signature motif; other site 641491002437 substrate binding pocket [chemical binding]; other site 641491002438 active site 641491002439 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 641491002440 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 641491002441 active site 641491002442 8-oxo-dGMP binding site [chemical binding]; other site 641491002443 nudix motif; other site 641491002444 metal binding site [ion binding]; metal-binding site 641491002445 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 641491002446 catalytic core [active] 641491002447 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 641491002448 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 641491002449 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 641491002450 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 641491002451 active site 641491002452 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491002453 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491002454 Transglycosylase SLT domain; Region: SLT_2; pfam13406 641491002455 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 641491002456 N-acetyl-D-glucosamine binding site [chemical binding]; other site 641491002457 catalytic residue [active] 641491002458 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 641491002459 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 641491002460 MPT binding site; other site 641491002461 trimer interface [polypeptide binding]; other site 641491002462 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 641491002463 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 641491002464 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 641491002465 substrate binding site; other site 641491002466 tetramer interface; other site 641491002467 PilZ domain; Region: PilZ; pfam07238 641491002468 Putative exonuclease, RdgC; Region: RdgC; cl01122 641491002469 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 641491002470 active site 641491002471 catalytic triad [active] 641491002472 oxyanion hole [active] 641491002473 switch loop; other site 641491002474 Uncharacterized conserved protein [Function unknown]; Region: COG0398 641491002475 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 641491002476 YcaO-like family; Region: YcaO; pfam02624 641491002477 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 641491002478 amino acid transporter; Region: 2A0306; TIGR00909 641491002479 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 641491002480 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491002481 substrate binding pocket [chemical binding]; other site 641491002482 membrane-bound complex binding site; other site 641491002483 hinge residues; other site 641491002484 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 641491002485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491002486 conserved gate region; other site 641491002487 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491002488 putative PBP binding loops; other site 641491002489 dimer interface [polypeptide binding]; other site 641491002490 ABC-ATPase subunit interface; other site 641491002491 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491002492 dimer interface [polypeptide binding]; other site 641491002493 conserved gate region; other site 641491002494 putative PBP binding loops; other site 641491002495 ABC-ATPase subunit interface; other site 641491002496 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 641491002497 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 641491002498 Walker A/P-loop; other site 641491002499 ATP binding site [chemical binding]; other site 641491002500 Q-loop/lid; other site 641491002501 ABC transporter signature motif; other site 641491002502 Walker B; other site 641491002503 D-loop; other site 641491002504 H-loop/switch region; other site 641491002505 PEP-CTERM motif; Region: VPEP; pfam07589 641491002506 putative transporter; Provisional; Region: PRK11660 641491002507 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 641491002508 Sulfate transporter family; Region: Sulfate_transp; pfam00916 641491002509 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 641491002510 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 641491002511 active site 641491002512 Int/Topo IB signature motif; other site 641491002513 catalytic residues [active] 641491002514 DNA binding site [nucleotide binding] 641491002515 TOBE domain; Region: TOBE; cl01440 641491002516 TOBE domain; Region: TOBE; cl01440 641491002517 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 641491002518 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 641491002519 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 641491002520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491002521 dimer interface [polypeptide binding]; other site 641491002522 conserved gate region; other site 641491002523 putative PBP binding loops; other site 641491002524 ABC-ATPase subunit interface; other site 641491002525 Domain of unknown function (DUF364); Region: DUF364; pfam04016 641491002526 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 641491002527 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 641491002528 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 641491002529 Walker A/P-loop; other site 641491002530 ATP binding site [chemical binding]; other site 641491002531 Q-loop/lid; other site 641491002532 ABC transporter signature motif; other site 641491002533 Walker B; other site 641491002534 D-loop; other site 641491002535 H-loop/switch region; other site 641491002536 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 641491002537 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 641491002538 domain_subunit interface; other site 641491002539 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 641491002540 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 641491002541 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491002542 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491002543 4Fe-4S binding domain; Region: Fer4; pfam00037 641491002544 4Fe-4S binding domain; Region: Fer4_6; pfam12837 641491002545 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 641491002546 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 641491002547 phosphate binding site [ion binding]; other site 641491002548 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 641491002549 active site 641491002550 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 641491002551 MltA specific insert domain; Region: MltA; smart00925 641491002552 3D domain; Region: 3D; pfam06725 641491002553 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 641491002554 Domain of unknown function DUF20; Region: UPF0118; pfam01594 641491002555 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491002556 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 641491002557 active site 641491002558 phosphorylation site [posttranslational modification] 641491002559 intermolecular recognition site; other site 641491002560 dimerization interface [polypeptide binding]; other site 641491002561 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491002562 dimer interface [polypeptide binding]; other site 641491002563 phosphorylation site [posttranslational modification] 641491002564 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 641491002565 ATP binding site [chemical binding]; other site 641491002566 Mg2+ binding site [ion binding]; other site 641491002567 G-X-G motif; other site 641491002568 Response regulator receiver domain; Region: Response_reg; pfam00072 641491002569 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 641491002570 active site 641491002571 phosphorylation site [posttranslational modification] 641491002572 intermolecular recognition site; other site 641491002573 dimerization interface [polypeptide binding]; other site 641491002574 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491002575 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491002576 substrate binding pocket [chemical binding]; other site 641491002577 membrane-bound complex binding site; other site 641491002578 hinge residues; other site 641491002579 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 641491002580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491002581 dimer interface [polypeptide binding]; other site 641491002582 conserved gate region; other site 641491002583 putative PBP binding loops; other site 641491002584 ABC-ATPase subunit interface; other site 641491002585 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 641491002586 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 641491002587 Walker A/P-loop; other site 641491002588 ATP binding site [chemical binding]; other site 641491002589 Q-loop/lid; other site 641491002590 ABC transporter signature motif; other site 641491002591 Walker B; other site 641491002592 D-loop; other site 641491002593 H-loop/switch region; other site 641491002594 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 641491002595 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 641491002596 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 641491002597 putative active site [active] 641491002598 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 641491002599 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 641491002600 NAD binding site [chemical binding]; other site 641491002601 substrate binding site [chemical binding]; other site 641491002602 active site 641491002603 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 641491002604 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 641491002605 inhibitor-cofactor binding pocket; inhibition site 641491002606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491002607 catalytic residue [active] 641491002608 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 641491002609 NeuB family; Region: NeuB; pfam03102 641491002610 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 641491002611 NeuB binding interface [polypeptide binding]; other site 641491002612 putative substrate binding site [chemical binding]; other site 641491002613 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 641491002614 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 641491002615 active site 641491002616 homodimer interface [polypeptide binding]; other site 641491002617 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 641491002618 FOG: CBS domain [General function prediction only]; Region: COG0517 641491002619 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 641491002620 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 641491002621 Substrate binding site; other site 641491002622 metal-binding site 641491002623 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 641491002624 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 641491002625 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 641491002626 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 641491002627 ligand binding site; other site 641491002628 tetramer interface; other site 641491002629 flagellin modification protein A; Provisional; Region: PRK09186 641491002630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 641491002631 NAD(P) binding site [chemical binding]; other site 641491002632 active site 641491002633 FeoA domain; Region: FeoA; pfam04023 641491002634 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 641491002635 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 641491002636 G1 box; other site 641491002637 GTP/Mg2+ binding site [chemical binding]; other site 641491002638 Switch I region; other site 641491002639 G2 box; other site 641491002640 G3 box; other site 641491002641 Switch II region; other site 641491002642 G4 box; other site 641491002643 G5 box; other site 641491002644 Nucleoside recognition; Region: Gate; pfam07670 641491002645 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 641491002646 Nucleoside recognition; Region: Gate; pfam07670 641491002647 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 641491002648 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 641491002649 homotrimer interaction site [polypeptide binding]; other site 641491002650 putative active site [active] 641491002651 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 641491002652 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 641491002653 putative active site; other site 641491002654 catalytic residue [active] 641491002655 Hpt domain; Region: Hpt; pfam01627 641491002656 putative binding surface; other site 641491002657 active site 641491002658 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 641491002659 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 641491002660 N-acetyl-D-glucosamine binding site [chemical binding]; other site 641491002661 catalytic residue [active] 641491002662 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 641491002663 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 641491002664 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 641491002665 putative active site [active] 641491002666 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 641491002667 metal binding triad; other site 641491002668 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 641491002669 Protein of unknown function, DUF485; Region: DUF485; pfam04341 641491002670 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 641491002671 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 641491002672 Na binding site [ion binding]; other site 641491002673 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 641491002674 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 641491002675 B12 binding site [chemical binding]; other site 641491002676 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 641491002677 FeS/SAM binding site; other site 641491002678 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 641491002679 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 641491002680 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 641491002681 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 641491002682 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 641491002683 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491002684 dimer interface [polypeptide binding]; other site 641491002685 conserved gate region; other site 641491002686 putative PBP binding loops; other site 641491002687 ABC-ATPase subunit interface; other site 641491002688 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 641491002689 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 641491002690 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491002691 dimer interface [polypeptide binding]; other site 641491002692 conserved gate region; other site 641491002693 putative PBP binding loops; other site 641491002694 ABC-ATPase subunit interface; other site 641491002695 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 641491002696 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 641491002697 Walker A/P-loop; other site 641491002698 ATP binding site [chemical binding]; other site 641491002699 Q-loop/lid; other site 641491002700 ABC transporter signature motif; other site 641491002701 Walker B; other site 641491002702 D-loop; other site 641491002703 H-loop/switch region; other site 641491002704 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 641491002705 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 641491002706 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 641491002707 Walker A/P-loop; other site 641491002708 ATP binding site [chemical binding]; other site 641491002709 Q-loop/lid; other site 641491002710 ABC transporter signature motif; other site 641491002711 Walker B; other site 641491002712 D-loop; other site 641491002713 H-loop/switch region; other site 641491002714 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 641491002715 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 641491002716 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491002717 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491002718 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 641491002719 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 641491002720 active site residue [active] 641491002721 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 641491002722 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 641491002723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491002724 homodimer interface [polypeptide binding]; other site 641491002725 catalytic residue [active] 641491002726 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491002727 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491002728 substrate binding pocket [chemical binding]; other site 641491002729 membrane-bound complex binding site; other site 641491002730 hinge residues; other site 641491002731 Fumarase C-terminus; Region: Fumerase_C; cl00795 641491002732 fumarate hydratase; Provisional; Region: PRK06246 641491002733 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 641491002734 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 641491002735 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491002736 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 641491002737 L-aspartate oxidase; Provisional; Region: PRK06175 641491002738 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 641491002739 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; 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:quinone...; Region: QFR_TypeB_TM; cd00581 641491002740 Iron-sulfur protein interface; other site 641491002741 proximal heme binding site [chemical binding]; other site 641491002742 distal heme binding site [chemical binding]; other site 641491002743 dimer interface [polypeptide binding]; other site 641491002744 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 641491002745 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 641491002746 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 641491002747 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 641491002748 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 641491002749 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491002750 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491002751 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 641491002752 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 641491002753 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 641491002754 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 641491002755 Tetramer interface [polypeptide binding]; other site 641491002756 active site 641491002757 FMN-binding site [chemical binding]; other site 641491002758 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 641491002759 TrkA-N domain; Region: TrkA_N; pfam02254 641491002760 TrkA-C domain; Region: TrkA_C; pfam02080 641491002761 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 641491002762 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 641491002763 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 641491002764 Shikimate kinase; Region: SKI; pfam01202 641491002765 ADP binding site [chemical binding]; other site 641491002766 magnesium binding site [ion binding]; other site 641491002767 putative shikimate binding site; other site 641491002768 GTP-binding protein YchF; Reviewed; Region: PRK09601 641491002769 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 641491002770 G3 box; other site 641491002771 Switch II region; other site 641491002772 GTP/Mg2+ binding site [chemical binding]; other site 641491002773 G4 box; other site 641491002774 G5 box; other site 641491002775 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 641491002776 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 641491002777 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 641491002778 4Fe-4S binding domain; Region: Fer4; pfam00037 641491002779 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 641491002780 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 641491002781 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 641491002782 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 641491002783 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 641491002784 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 641491002785 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 641491002786 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 641491002787 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 641491002788 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 641491002789 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 641491002790 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 641491002791 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 641491002792 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 641491002793 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 641491002794 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 641491002795 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 641491002796 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 641491002797 NADH dehydrogenase subunit B; Validated; Region: PRK06411 641491002798 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 641491002799 Response regulator receiver domain; Region: Response_reg; pfam00072 641491002800 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 641491002801 active site 641491002802 phosphorylation site [posttranslational modification] 641491002803 intermolecular recognition site; other site 641491002804 dimerization interface [polypeptide binding]; other site 641491002805 PAS domain S-box; Region: sensory_box; TIGR00229 641491002806 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 641491002807 putative active site [active] 641491002808 heme pocket [chemical binding]; other site 641491002809 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491002810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491002811 metal binding site [ion binding]; metal-binding site 641491002812 active site 641491002813 I-site; other site 641491002814 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 641491002815 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 641491002816 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 641491002817 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 641491002818 NAD binding site [chemical binding]; other site 641491002819 putative substrate binding site 2 [chemical binding]; other site 641491002820 putative substrate binding site 1 [chemical binding]; other site 641491002821 active site 641491002822 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491002823 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 641491002824 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 641491002825 active site 641491002826 Uncharacterized conserved protein [Function unknown]; Region: COG0398 641491002827 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 641491002828 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 641491002829 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 641491002830 Ligand binding site; other site 641491002831 Putative Catalytic site; other site 641491002832 DXD motif; other site 641491002833 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 641491002834 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 641491002835 active site 641491002836 catalytic tetrad [active] 641491002837 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 641491002838 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 641491002839 Cytochrome c; Region: Cytochrom_C; pfam00034 641491002840 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 641491002841 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 641491002842 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 641491002843 transmembrane helices; other site 641491002844 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 641491002845 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 641491002846 putative NAD(P) binding site [chemical binding]; other site 641491002847 catalytic Zn binding site [ion binding]; other site 641491002848 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 641491002849 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 641491002850 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 641491002851 thiamine phosphate binding site [chemical binding]; other site 641491002852 active site 641491002853 pyrophosphate binding site [ion binding]; other site 641491002854 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 641491002855 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 641491002856 ATP binding site [chemical binding]; other site 641491002857 substrate interface [chemical binding]; other site 641491002858 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 641491002859 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 641491002860 FeS/SAM binding site; other site 641491002861 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 641491002862 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 641491002863 ThiS interaction site; other site 641491002864 putative active site [active] 641491002865 tetramer interface [polypeptide binding]; other site 641491002866 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 641491002867 thiS-thiF/thiG interaction site; other site 641491002868 Bacterial SH3 domain; Region: SH3_3; cl17532 641491002869 Bacterial SH3 domain; Region: SH3_3; cl17532 641491002870 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 641491002871 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 641491002872 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 641491002873 ATP binding site [chemical binding]; other site 641491002874 putative Mg++ binding site [ion binding]; other site 641491002875 helicase superfamily c-terminal domain; Region: HELICc; smart00490 641491002876 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 641491002877 active site 641491002878 tetramer interface; other site 641491002879 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 641491002880 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 641491002881 active site 641491002882 substrate binding site [chemical binding]; other site 641491002883 metal binding site [ion binding]; metal-binding site 641491002884 YbbR-like protein; Region: YbbR; pfam07949 641491002885 Uncharacterized conserved protein [Function unknown]; Region: COG1624 641491002886 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 641491002887 dihydropteroate synthase; Region: DHPS; TIGR01496 641491002888 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 641491002889 substrate binding pocket [chemical binding]; other site 641491002890 dimer interface [polypeptide binding]; other site 641491002891 inhibitor binding site; inhibition site 641491002892 FtsH Extracellular; Region: FtsH_ext; pfam06480 641491002893 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 641491002894 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491002895 Walker A motif; other site 641491002896 ATP binding site [chemical binding]; other site 641491002897 Walker B motif; other site 641491002898 arginine finger; other site 641491002899 Peptidase family M41; Region: Peptidase_M41; pfam01434 641491002900 argininosuccinate lyase; Provisional; Region: PRK00855 641491002901 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 641491002902 active sites [active] 641491002903 tetramer interface [polypeptide binding]; other site 641491002904 argininosuccinate synthase; Provisional; Region: PRK13820 641491002905 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 641491002906 ANP binding site [chemical binding]; other site 641491002907 Substrate Binding Site II [chemical binding]; other site 641491002908 Substrate Binding Site I [chemical binding]; other site 641491002909 ornithine carbamoyltransferase; Provisional; Region: PRK00779 641491002910 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 641491002911 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 641491002912 Divergent AAA domain; Region: AAA_4; pfam04326 641491002913 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 641491002914 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 641491002915 PhoH-like protein; Region: PhoH; pfam02562 641491002916 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 641491002917 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 641491002918 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 641491002919 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 641491002920 Walker A/P-loop; other site 641491002921 ATP binding site [chemical binding]; other site 641491002922 Q-loop/lid; other site 641491002923 ABC transporter signature motif; other site 641491002924 Walker B; other site 641491002925 D-loop; other site 641491002926 H-loop/switch region; other site 641491002927 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 641491002928 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 641491002929 Predicted permeases [General function prediction only]; Region: COG0701 641491002930 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 641491002931 dimerization interface [polypeptide binding]; other site 641491002932 putative DNA binding site [nucleotide binding]; other site 641491002933 putative Zn2+ binding site [ion binding]; other site 641491002934 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 641491002935 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 641491002936 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 641491002937 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491002938 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 641491002939 active site 641491002940 phosphorylation site [posttranslational modification] 641491002941 intermolecular recognition site; other site 641491002942 dimerization interface [polypeptide binding]; other site 641491002943 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 641491002944 putative binding surface; other site 641491002945 active site 641491002946 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 641491002947 Hemerythrin; Region: Hemerythrin; cd12107 641491002948 Fe binding site [ion binding]; other site 641491002949 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 641491002950 Flavoprotein; Region: Flavoprotein; pfam02441 641491002951 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 641491002952 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 641491002953 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 641491002954 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 641491002955 active site 641491002956 catalytic tetrad [active] 641491002957 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 641491002958 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 641491002959 GIY-YIG motif/motif A; other site 641491002960 active site 641491002961 catalytic site [active] 641491002962 putative DNA binding site [nucleotide binding]; other site 641491002963 metal binding site [ion binding]; metal-binding site 641491002964 UvrB/uvrC motif; Region: UVR; pfam02151 641491002965 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 641491002966 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 641491002967 DNA binding site [nucleotide binding] 641491002968 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 641491002969 histidinol dehydrogenase; Region: hisD; TIGR00069 641491002970 NAD binding site [chemical binding]; other site 641491002971 dimerization interface [polypeptide binding]; other site 641491002972 product binding site; other site 641491002973 substrate binding site [chemical binding]; other site 641491002974 zinc binding site [ion binding]; other site 641491002975 catalytic residues [active] 641491002976 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 641491002977 ATP binding site [chemical binding]; other site 641491002978 active site 641491002979 substrate binding site [chemical binding]; other site 641491002980 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 641491002981 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 641491002982 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 641491002983 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 641491002984 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 641491002985 replicative DNA helicase; Region: DnaB; TIGR00665 641491002986 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 641491002987 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 641491002988 Walker A motif; other site 641491002989 ATP binding site [chemical binding]; other site 641491002990 Walker B motif; other site 641491002991 DNA binding loops [nucleotide binding] 641491002992 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 641491002993 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491002994 acyl-activating enzyme (AAE) consensus motif; other site 641491002995 AMP binding site [chemical binding]; other site 641491002996 active site 641491002997 CoA binding site [chemical binding]; other site 641491002998 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 641491002999 hypothetical protein; Provisional; Region: PRK10279 641491003000 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 641491003001 active site 641491003002 nucleophile elbow; other site 641491003003 threonine synthase; Validated; Region: PRK06260 641491003004 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 641491003005 homodimer interface [polypeptide binding]; other site 641491003006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491003007 catalytic residue [active] 641491003008 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 641491003009 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 641491003010 RNA binding surface [nucleotide binding]; other site 641491003011 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 641491003012 S-adenosylmethionine binding site [chemical binding]; other site 641491003013 EamA-like transporter family; Region: EamA; pfam00892 641491003014 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 641491003015 active site residue [active] 641491003016 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 641491003017 diiron binding motif [ion binding]; other site 641491003018 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 641491003019 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 641491003020 Walker A/P-loop; other site 641491003021 ATP binding site [chemical binding]; other site 641491003022 Q-loop/lid; other site 641491003023 ABC transporter signature motif; other site 641491003024 Walker B; other site 641491003025 D-loop; other site 641491003026 H-loop/switch region; other site 641491003027 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 641491003028 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 641491003029 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 641491003030 Sodium Bile acid symporter family; Region: SBF; pfam01758 641491003031 PAS domain S-box; Region: sensory_box; TIGR00229 641491003032 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 641491003033 putative active site [active] 641491003034 heme pocket [chemical binding]; other site 641491003035 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491003036 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491003037 dimer interface [polypeptide binding]; other site 641491003038 phosphorylation site [posttranslational modification] 641491003039 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 641491003040 ATP binding site [chemical binding]; other site 641491003041 Mg2+ binding site [ion binding]; other site 641491003042 G-X-G motif; other site 641491003043 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491003044 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 641491003045 active site 641491003046 phosphorylation site [posttranslational modification] 641491003047 intermolecular recognition site; other site 641491003048 dimerization interface [polypeptide binding]; other site 641491003049 Response regulator receiver domain; Region: Response_reg; pfam00072 641491003050 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 641491003051 active site 641491003052 phosphorylation site [posttranslational modification] 641491003053 intermolecular recognition site; other site 641491003054 dimerization interface [polypeptide binding]; other site 641491003055 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 641491003056 putative binding surface; other site 641491003057 active site 641491003058 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491003059 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491003060 substrate binding pocket [chemical binding]; other site 641491003061 membrane-bound complex binding site; other site 641491003062 hinge residues; other site 641491003063 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 641491003064 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 641491003065 heterodimer interface [polypeptide binding]; other site 641491003066 active site 641491003067 FMN binding site [chemical binding]; other site 641491003068 homodimer interface [polypeptide binding]; other site 641491003069 substrate binding site [chemical binding]; other site 641491003070 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 641491003071 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 641491003072 FAD binding pocket [chemical binding]; other site 641491003073 FAD binding motif [chemical binding]; other site 641491003074 phosphate binding motif [ion binding]; other site 641491003075 beta-alpha-beta structure motif; other site 641491003076 NAD binding pocket [chemical binding]; other site 641491003077 Iron coordination center [ion binding]; other site 641491003078 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 641491003079 Peptidase family U32; Region: Peptidase_U32; pfam01136 641491003080 Peptidase family U32; Region: Peptidase_U32; cl03113 641491003081 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491003082 dimerization interface [polypeptide binding]; other site 641491003083 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491003084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491003085 dimer interface [polypeptide binding]; other site 641491003086 putative CheW interface [polypeptide binding]; other site 641491003087 Macrophage migration inhibitory factor (MIF); Region: MIF; pfam01187 641491003088 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 641491003089 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 641491003090 Transglycosylase; Region: Transgly; pfam00912 641491003091 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 641491003092 Flagellin N-methylase; Region: FliB; cl00497 641491003093 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 641491003094 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 641491003095 putative active site [active] 641491003096 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 641491003097 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 641491003098 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 641491003099 active site 641491003100 tetramer interface [polypeptide binding]; other site 641491003101 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 641491003102 active site 641491003103 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 641491003104 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 641491003105 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 641491003106 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 641491003107 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 641491003108 ATP-grasp domain; Region: ATP-grasp_4; cl17255 641491003109 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 641491003110 IMP binding site; other site 641491003111 dimer interface [polypeptide binding]; other site 641491003112 interdomain contacts; other site 641491003113 partial ornithine binding site; other site 641491003114 FeoA domain; Region: FeoA; pfam04023 641491003115 Protein of unknown function (DUF523); Region: DUF523; pfam04463 641491003116 Uncharacterized conserved protein [Function unknown]; Region: COG3272 641491003117 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 641491003118 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 641491003119 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 641491003120 active site 641491003121 HIGH motif; other site 641491003122 KMSKS motif; other site 641491003123 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 641491003124 anticodon binding site; other site 641491003125 tRNA binding surface [nucleotide binding]; other site 641491003126 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 641491003127 dimer interface [polypeptide binding]; other site 641491003128 putative tRNA-binding site [nucleotide binding]; other site 641491003129 PSP1 C-terminal conserved region; Region: PSP1; cl00770 641491003130 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 641491003131 Response regulator receiver domain; Region: Response_reg; pfam00072 641491003132 active site 641491003133 phosphorylation site [posttranslational modification] 641491003134 intermolecular recognition site; other site 641491003135 dimerization interface [polypeptide binding]; other site 641491003136 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 641491003137 HDOD domain; Region: HDOD; pfam08668 641491003138 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491003139 Zn2+ binding site [ion binding]; other site 641491003140 Mg2+ binding site [ion binding]; other site 641491003141 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 641491003142 Competence protein; Region: Competence; pfam03772 641491003143 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 641491003144 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 641491003145 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 641491003146 hinge; other site 641491003147 active site 641491003148 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 641491003149 putative amphipathic alpha helix; other site 641491003150 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 641491003151 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 641491003152 G1 box; other site 641491003153 putative GEF interaction site [polypeptide binding]; other site 641491003154 GTP/Mg2+ binding site [chemical binding]; other site 641491003155 Switch I region; other site 641491003156 G2 box; other site 641491003157 G3 box; other site 641491003158 Switch II region; other site 641491003159 G4 box; other site 641491003160 G5 box; other site 641491003161 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 641491003162 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 641491003163 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 641491003164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 641491003165 FecR protein; Region: FecR; pfam04773 641491003166 Sel1-like repeats; Region: SEL1; smart00671 641491003167 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 641491003168 Sel1-like repeats; Region: SEL1; smart00671 641491003169 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 641491003170 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 641491003171 oligomer interface [polypeptide binding]; other site 641491003172 putative active site [active] 641491003173 metal binding site [ion binding]; metal-binding site 641491003174 selenocysteine synthase; Provisional; Region: PRK04311 641491003175 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 641491003176 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 641491003177 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 641491003178 catalytic residue [active] 641491003179 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 641491003180 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 641491003181 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 641491003182 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 641491003183 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491003184 dimerization interface [polypeptide binding]; other site 641491003185 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491003186 dimer interface [polypeptide binding]; other site 641491003187 putative CheW interface [polypeptide binding]; other site 641491003188 Predicted permeases [General function prediction only]; Region: COG0679 641491003189 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 641491003190 FAD binding domain; Region: FAD_binding_4; pfam01565 641491003191 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491003192 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491003193 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491003194 Walker A motif; other site 641491003195 ATP binding site [chemical binding]; other site 641491003196 Walker B motif; other site 641491003197 arginine finger; other site 641491003198 Uncharacterized conserved protein [Function unknown]; Region: COG3379 641491003199 Uncharacterized conserved protein [Function unknown]; Region: COG3379 641491003200 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 641491003201 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 641491003202 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 641491003203 D-galactonate transporter; Region: 2A0114; TIGR00893 641491003204 putative substrate translocation pore; other site 641491003205 DsrH like protein; Region: DsrH; cl17347 641491003206 DsrE/DsrF-like family; Region: DrsE; cl00672 641491003207 DsrE/DsrF-like family; Region: DrsE; pfam02635 641491003208 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 641491003209 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 641491003210 Uncharacterized conserved protein [Function unknown]; Region: COG3379 641491003211 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 641491003212 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 641491003213 active site 641491003214 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 641491003215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 641491003216 NAD(P) binding site [chemical binding]; other site 641491003217 active site 641491003218 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 641491003219 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 641491003220 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 641491003221 putative active site [active] 641491003222 putative metal binding site [ion binding]; other site 641491003223 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491003224 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 641491003225 Walker A/P-loop; other site 641491003226 ATP binding site [chemical binding]; other site 641491003227 Q-loop/lid; other site 641491003228 ABC transporter signature motif; other site 641491003229 Walker B; other site 641491003230 D-loop; other site 641491003231 H-loop/switch region; other site 641491003232 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 641491003233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491003234 dimer interface [polypeptide binding]; other site 641491003235 conserved gate region; other site 641491003236 putative PBP binding loops; other site 641491003237 ABC-ATPase subunit interface; other site 641491003238 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 641491003239 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 641491003240 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 641491003241 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 641491003242 dimerization interface [polypeptide binding]; other site 641491003243 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491003244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491003245 dimer interface [polypeptide binding]; other site 641491003246 putative CheW interface [polypeptide binding]; other site 641491003247 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 641491003248 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491003249 substrate binding pocket [chemical binding]; other site 641491003250 membrane-bound complex binding site; other site 641491003251 hinge residues; other site 641491003252 PAS domain; Region: PAS; smart00091 641491003253 PAS domain; Region: PAS_9; pfam13426 641491003254 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 641491003255 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491003256 Walker A motif; other site 641491003257 ATP binding site [chemical binding]; other site 641491003258 Walker B motif; other site 641491003259 arginine finger; other site 641491003260 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491003261 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 641491003262 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 641491003263 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 641491003264 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 641491003265 transmembrane helices; other site 641491003266 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 641491003267 putative trimer interface [polypeptide binding]; other site 641491003268 putative CoA binding site [chemical binding]; other site 641491003269 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 641491003270 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 641491003271 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 641491003272 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491003273 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 641491003274 putative active site [active] 641491003275 heme pocket [chemical binding]; other site 641491003276 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491003277 dimer interface [polypeptide binding]; other site 641491003278 phosphorylation site [posttranslational modification] 641491003279 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 641491003280 ATP binding site [chemical binding]; other site 641491003281 Mg2+ binding site [ion binding]; other site 641491003282 G-X-G motif; other site 641491003283 Response regulator receiver domain; Region: Response_reg; pfam00072 641491003284 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 641491003285 active site 641491003286 phosphorylation site [posttranslational modification] 641491003287 intermolecular recognition site; other site 641491003288 dimerization interface [polypeptide binding]; other site 641491003289 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491003290 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 641491003291 active site 641491003292 phosphorylation site [posttranslational modification] 641491003293 intermolecular recognition site; other site 641491003294 dimerization interface [polypeptide binding]; other site 641491003295 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491003296 Walker A motif; other site 641491003297 ATP binding site [chemical binding]; other site 641491003298 Walker B motif; other site 641491003299 arginine finger; other site 641491003300 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 641491003301 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 641491003302 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 641491003303 dimer interface [polypeptide binding]; other site 641491003304 PYR/PP interface [polypeptide binding]; other site 641491003305 TPP binding site [chemical binding]; other site 641491003306 substrate binding site [chemical binding]; other site 641491003307 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 641491003308 Domain of unknown function; Region: EKR; pfam10371 641491003309 4Fe-4S binding domain; Region: Fer4_6; pfam12837 641491003310 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 641491003311 TPP-binding site [chemical binding]; other site 641491003312 dimer interface [polypeptide binding]; other site 641491003313 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 641491003314 L-lactate permease; Region: Lactate_perm; cl00701 641491003315 FAD binding domain; Region: FAD_binding_4; pfam01565 641491003316 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 641491003317 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491003318 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491003319 Cysteine-rich domain; Region: CCG; pfam02754 641491003320 Cysteine-rich domain; Region: CCG; pfam02754 641491003321 phosphate acetyltransferase; Reviewed; Region: PRK05632 641491003322 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 641491003323 DRTGG domain; Region: DRTGG; pfam07085 641491003324 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 641491003325 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 641491003326 propionate/acetate kinase; Provisional; Region: PRK12379 641491003327 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 641491003328 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 641491003329 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 641491003330 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491003331 Cysteine-rich domain; Region: CCG; pfam02754 641491003332 Cysteine-rich domain; Region: CCG; pfam02754 641491003333 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 641491003334 PAS domain; Region: PAS_9; pfam13426 641491003335 putative active site [active] 641491003336 heme pocket [chemical binding]; other site 641491003337 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491003338 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491003339 dimer interface [polypeptide binding]; other site 641491003340 putative CheW interface [polypeptide binding]; other site 641491003341 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 641491003342 IHF dimer interface [polypeptide binding]; other site 641491003343 IHF - DNA interface [nucleotide binding]; other site 641491003344 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 641491003345 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 641491003346 Sporulation related domain; Region: SPOR; pfam05036 641491003347 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 641491003348 Aspartase; Region: Aspartase; cd01357 641491003349 active sites [active] 641491003350 tetramer interface [polypeptide binding]; other site 641491003351 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 641491003352 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 641491003353 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 641491003354 G1 box; other site 641491003355 putative GEF interaction site [polypeptide binding]; other site 641491003356 GTP/Mg2+ binding site [chemical binding]; other site 641491003357 Switch I region; other site 641491003358 G2 box; other site 641491003359 G3 box; other site 641491003360 Switch II region; other site 641491003361 G4 box; other site 641491003362 G5 box; other site 641491003363 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 641491003364 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 641491003365 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 641491003366 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 641491003367 sulfate transport protein; Provisional; Region: cysT; CHL00187 641491003368 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491003369 dimer interface [polypeptide binding]; other site 641491003370 conserved gate region; other site 641491003371 putative PBP binding loops; other site 641491003372 ABC-ATPase subunit interface; other site 641491003373 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 641491003374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491003375 Walker A/P-loop; other site 641491003376 ATP binding site [chemical binding]; other site 641491003377 Q-loop/lid; other site 641491003378 ABC transporter signature motif; other site 641491003379 Walker B; other site 641491003380 D-loop; other site 641491003381 H-loop/switch region; other site 641491003382 TOBE domain; Region: TOBE_2; pfam08402 641491003383 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 641491003384 Domain of unknown function (DUF202); Region: DUF202; cl09954 641491003385 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491003386 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 641491003387 Protein of unknown function (DUF401); Region: DUF401; cl00830 641491003388 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 641491003389 TPR motif; other site 641491003390 TPR repeat; Region: TPR_11; pfam13414 641491003391 binding surface 641491003392 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 641491003393 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 641491003394 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 641491003395 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 641491003396 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 641491003397 intersubunit interface [polypeptide binding]; other site 641491003398 active site 641491003399 Zn2+ binding site [ion binding]; other site 641491003400 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 641491003401 Rubredoxin; Region: Rubredoxin; pfam00301 641491003402 iron binding site [ion binding]; other site 641491003403 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 641491003404 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491003405 Walker A motif; other site 641491003406 ATP binding site [chemical binding]; other site 641491003407 Walker B motif; other site 641491003408 arginine finger; other site 641491003409 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 641491003410 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 641491003411 RuvA N terminal domain; Region: RuvA_N; pfam01330 641491003412 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 641491003413 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 641491003414 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 641491003415 active site 641491003416 putative DNA-binding cleft [nucleotide binding]; other site 641491003417 dimer interface [polypeptide binding]; other site 641491003418 hypothetical protein; Validated; Region: PRK00110 641491003419 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 641491003420 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 641491003421 S-adenosylmethionine binding site [chemical binding]; other site 641491003422 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 641491003423 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491003424 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491003425 substrate binding pocket [chemical binding]; other site 641491003426 membrane-bound complex binding site; other site 641491003427 hinge residues; other site 641491003428 PAS domain; Region: PAS; smart00091 641491003429 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491003430 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 641491003431 putative active site [active] 641491003432 heme pocket [chemical binding]; other site 641491003433 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 641491003434 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491003435 Walker A motif; other site 641491003436 ATP binding site [chemical binding]; other site 641491003437 Walker B motif; other site 641491003438 arginine finger; other site 641491003439 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491003440 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 641491003441 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 641491003442 inhibitor-cofactor binding pocket; inhibition site 641491003443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491003444 catalytic residue [active] 641491003445 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 641491003446 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 641491003447 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 641491003448 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 641491003449 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491003450 Walker A/P-loop; other site 641491003451 ATP binding site [chemical binding]; other site 641491003452 Q-loop/lid; other site 641491003453 ABC transporter signature motif; other site 641491003454 Walker B; other site 641491003455 D-loop; other site 641491003456 H-loop/switch region; other site 641491003457 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 641491003458 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491003459 dimer interface [polypeptide binding]; other site 641491003460 conserved gate region; other site 641491003461 putative PBP binding loops; other site 641491003462 ABC-ATPase subunit interface; other site 641491003463 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 641491003464 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491003465 dimer interface [polypeptide binding]; other site 641491003466 conserved gate region; other site 641491003467 putative PBP binding loops; other site 641491003468 ABC-ATPase subunit interface; other site 641491003469 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 641491003470 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 641491003471 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 641491003472 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 641491003473 active site 641491003474 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 641491003475 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 641491003476 inhibitor-cofactor binding pocket; inhibition site 641491003477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491003478 catalytic residue [active] 641491003479 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 641491003480 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 641491003481 tetrameric interface [polypeptide binding]; other site 641491003482 NAD binding site [chemical binding]; other site 641491003483 catalytic residues [active] 641491003484 substrate binding site [chemical binding]; other site 641491003485 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 641491003486 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 641491003487 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 641491003488 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 641491003489 putative active site; other site 641491003490 catalytic triad [active] 641491003491 putative dimer interface [polypeptide binding]; other site 641491003492 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 641491003493 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 641491003494 FeS/SAM binding site; other site 641491003495 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 641491003496 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 641491003497 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491003498 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 641491003499 active site 641491003500 phosphorylation site [posttranslational modification] 641491003501 intermolecular recognition site; other site 641491003502 dimerization interface [polypeptide binding]; other site 641491003503 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491003504 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 641491003505 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491003506 putative active site [active] 641491003507 heme pocket [chemical binding]; other site 641491003508 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 641491003509 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491003510 putative active site [active] 641491003511 heme pocket [chemical binding]; other site 641491003512 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 641491003513 putative active site [active] 641491003514 heme pocket [chemical binding]; other site 641491003515 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 641491003516 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491003517 Walker A motif; other site 641491003518 ATP binding site [chemical binding]; other site 641491003519 Walker B motif; other site 641491003520 arginine finger; other site 641491003521 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491003522 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 641491003523 Response regulator receiver domain; Region: Response_reg; pfam00072 641491003524 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 641491003525 active site 641491003526 phosphorylation site [posttranslational modification] 641491003527 intermolecular recognition site; other site 641491003528 dimerization interface [polypeptide binding]; other site 641491003529 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 641491003530 active site 641491003531 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491003532 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 641491003533 acyl-activating enzyme (AAE) consensus motif; other site 641491003534 putative AMP binding site [chemical binding]; other site 641491003535 putative active site [active] 641491003536 putative CoA binding site [chemical binding]; other site 641491003537 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 641491003538 aspartate racemase; Region: asp_race; TIGR00035 641491003539 Predicted membrane protein [Function unknown]; Region: COG4392 641491003540 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 641491003541 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 641491003542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 641491003543 DNA-binding site [nucleotide binding]; DNA binding site 641491003544 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 641491003545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491003546 homodimer interface [polypeptide binding]; other site 641491003547 catalytic residue [active] 641491003548 Predicted permeases [General function prediction only]; Region: RarD; COG2962 641491003549 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 641491003550 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 641491003551 dimerization interface [polypeptide binding]; other site 641491003552 putative DNA binding site [nucleotide binding]; other site 641491003553 putative Zn2+ binding site [ion binding]; other site 641491003554 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 641491003555 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 641491003556 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491003557 Isochorismatase family; Region: Isochorismatase; pfam00857 641491003558 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 641491003559 catalytic triad [active] 641491003560 conserved cis-peptide bond; other site 641491003561 DsrE/DsrF-like family; Region: DrsE; cl00672 641491003562 Response regulator receiver domain; Region: Response_reg; pfam00072 641491003563 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 641491003564 active site 641491003565 phosphorylation site [posttranslational modification] 641491003566 intermolecular recognition site; other site 641491003567 dimerization interface [polypeptide binding]; other site 641491003568 PAS domain; Region: PAS_9; pfam13426 641491003569 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 641491003570 putative active site [active] 641491003571 GAF domain; Region: GAF_2; pfam13185 641491003572 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491003573 dimer interface [polypeptide binding]; other site 641491003574 phosphorylation site [posttranslational modification] 641491003575 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 641491003576 ATP binding site [chemical binding]; other site 641491003577 Mg2+ binding site [ion binding]; other site 641491003578 G-X-G motif; other site 641491003579 Response regulator receiver domain; Region: Response_reg; pfam00072 641491003580 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 641491003581 active site 641491003582 phosphorylation site [posttranslational modification] 641491003583 intermolecular recognition site; other site 641491003584 dimerization interface [polypeptide binding]; other site 641491003585 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 641491003586 Electron transfer flavoprotein domain; Region: ETF; smart00893 641491003587 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 641491003588 Ligand Binding Site [chemical binding]; other site 641491003589 Electron transfer flavoprotein domain; Region: ETF; pfam01012 641491003590 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 641491003591 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 641491003592 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 641491003593 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 641491003594 active site 641491003595 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 641491003596 active site 641491003597 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 641491003598 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 641491003599 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 641491003600 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 641491003601 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 641491003602 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 641491003603 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 641491003604 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 641491003605 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 641491003606 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491003607 Coenzyme A binding pocket [chemical binding]; other site 641491003608 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 641491003609 DNA polymerase III subunit delta'; Validated; Region: PRK08485 641491003610 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 641491003611 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 641491003612 GDP-binding site [chemical binding]; other site 641491003613 ACT binding site; other site 641491003614 IMP binding site; other site 641491003615 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 641491003616 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491003617 dimerization interface [polypeptide binding]; other site 641491003618 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491003619 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491003620 dimer interface [polypeptide binding]; other site 641491003621 putative CheW interface [polypeptide binding]; other site 641491003622 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 641491003623 Uncharacterized conserved protein [Function unknown]; Region: COG4095 641491003624 RNB domain; Region: RNB; pfam00773 641491003625 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 641491003626 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 641491003627 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 641491003628 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 641491003629 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 641491003630 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 641491003631 HflX GTPase family; Region: HflX; cd01878 641491003632 G1 box; other site 641491003633 GTP/Mg2+ binding site [chemical binding]; other site 641491003634 Switch I region; other site 641491003635 G2 box; other site 641491003636 G3 box; other site 641491003637 Switch II region; other site 641491003638 G4 box; other site 641491003639 G5 box; other site 641491003640 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 641491003641 purine monophosphate binding site [chemical binding]; other site 641491003642 dimer interface [polypeptide binding]; other site 641491003643 putative catalytic residues [active] 641491003644 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 641491003645 binding surface 641491003646 TPR repeat; Region: TPR_11; pfam13414 641491003647 TPR motif; other site 641491003648 TPR repeat; Region: TPR_11; pfam13414 641491003649 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 641491003650 binding surface 641491003651 TPR motif; other site 641491003652 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 641491003653 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 641491003654 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 641491003655 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 641491003656 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 641491003657 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 641491003658 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 641491003659 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 641491003660 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 641491003661 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 641491003662 MgtE intracellular N domain; Region: MgtE_N; cl15244 641491003663 FliG C-terminal domain; Region: FliG_C; pfam01706 641491003664 Flagellar assembly protein FliH; Region: FliH; pfam02108 641491003665 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 641491003666 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 641491003667 Walker A motif/ATP binding site; other site 641491003668 Walker B motif; other site 641491003669 AsmA family; Region: AsmA; pfam05170 641491003670 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 641491003671 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 641491003672 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 641491003673 DNA binding residues [nucleotide binding] 641491003674 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 641491003675 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 641491003676 putative tRNA-binding site [nucleotide binding]; other site 641491003677 B3/4 domain; Region: B3_4; pfam03483 641491003678 tRNA synthetase B5 domain; Region: B5; pfam03484 641491003679 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 641491003680 dimer interface [polypeptide binding]; other site 641491003681 motif 1; other site 641491003682 motif 3; other site 641491003683 motif 2; other site 641491003684 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 641491003685 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 641491003686 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 641491003687 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 641491003688 dimer interface [polypeptide binding]; other site 641491003689 motif 1; other site 641491003690 active site 641491003691 motif 2; other site 641491003692 motif 3; other site 641491003693 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 641491003694 23S rRNA binding site [nucleotide binding]; other site 641491003695 L21 binding site [polypeptide binding]; other site 641491003696 L13 binding site [polypeptide binding]; other site 641491003697 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 641491003698 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 641491003699 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 641491003700 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 641491003701 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 641491003702 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 641491003703 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 641491003704 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 641491003705 active site 641491003706 dimer interface [polypeptide binding]; other site 641491003707 motif 1; other site 641491003708 motif 2; other site 641491003709 motif 3; other site 641491003710 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 641491003711 anticodon binding site; other site 641491003712 Uncharacterized conserved protein [Function unknown]; Region: COG1432 641491003713 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 641491003714 putative metal binding site [ion binding]; other site 641491003715 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 641491003716 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 641491003717 active site 641491003718 metal binding site [ion binding]; metal-binding site 641491003719 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 641491003720 HEAT repeats; Region: HEAT_2; pfam13646 641491003721 TPR repeat; Region: TPR_11; pfam13414 641491003722 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 641491003723 binding surface 641491003724 TPR motif; other site 641491003725 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 641491003726 binding surface 641491003727 TPR motif; other site 641491003728 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491003729 Flagellin N-methylase; Region: FliB; cl00497 641491003730 Flagellin N-methylase; Region: FliB; pfam03692 641491003731 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491003732 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 641491003733 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 641491003734 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 641491003735 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 641491003736 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 641491003737 dimer interface [polypeptide binding]; other site 641491003738 putative functional site; other site 641491003739 putative MPT binding site; other site 641491003740 PBP superfamily domain; Region: PBP_like; pfam12727 641491003741 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 641491003742 DNA-binding site [nucleotide binding]; DNA binding site 641491003743 RNA-binding motif; other site 641491003744 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 641491003745 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 641491003746 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491003747 Walker A/P-loop; other site 641491003748 ATP binding site [chemical binding]; other site 641491003749 Q-loop/lid; other site 641491003750 ABC transporter signature motif; other site 641491003751 Walker B; other site 641491003752 D-loop; other site 641491003753 H-loop/switch region; other site 641491003754 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491003755 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 641491003756 Walker A/P-loop; other site 641491003757 ATP binding site [chemical binding]; other site 641491003758 Q-loop/lid; other site 641491003759 ABC transporter signature motif; other site 641491003760 Walker B; other site 641491003761 D-loop; other site 641491003762 H-loop/switch region; other site 641491003763 Uncharacterized conserved protein [Function unknown]; Region: COG2006 641491003764 Domain of unknown function (DUF362); Region: DUF362; pfam04015 641491003765 Acylphosphatase; Region: Acylphosphatase; pfam00708 641491003766 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 641491003767 HypF finger; Region: zf-HYPF; pfam07503 641491003768 HypF finger; Region: zf-HYPF; pfam07503 641491003769 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 641491003770 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 641491003771 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 641491003772 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 641491003773 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 641491003774 ligand binding site [chemical binding]; other site 641491003775 NAD binding site [chemical binding]; other site 641491003776 dimerization interface [polypeptide binding]; other site 641491003777 catalytic site [active] 641491003778 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 641491003779 L-serine binding site [chemical binding]; other site 641491003780 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 641491003781 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 641491003782 catalytic residue [active] 641491003783 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491003784 dimerization interface [polypeptide binding]; other site 641491003785 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491003786 dimer interface [polypeptide binding]; other site 641491003787 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 641491003788 putative CheW interface [polypeptide binding]; other site 641491003789 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 641491003790 FAD binding domain; Region: FAD_binding_4; pfam01565 641491003791 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 641491003792 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491003793 Cysteine-rich domain; Region: CCG; pfam02754 641491003794 Membrane transport protein; Region: Mem_trans; cl09117 641491003795 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 641491003796 CoenzymeA binding site [chemical binding]; other site 641491003797 subunit interaction site [polypeptide binding]; other site 641491003798 PHB binding site; other site 641491003799 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 641491003800 YceG-like family; Region: YceG; pfam02618 641491003801 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 641491003802 dimerization interface [polypeptide binding]; other site 641491003803 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 641491003804 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 641491003805 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 641491003806 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 641491003807 Catalytic site [active] 641491003808 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 641491003809 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 641491003810 homodimer interface [polypeptide binding]; other site 641491003811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491003812 catalytic residue [active] 641491003813 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 641491003814 homotrimer interaction site [polypeptide binding]; other site 641491003815 putative active site [active] 641491003816 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 641491003817 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 641491003818 active site 641491003819 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 641491003820 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 641491003821 Ligand Binding Site [chemical binding]; other site 641491003822 TIGR00269 family protein; Region: TIGR00269 641491003823 Ubiquitin-like proteins; Region: UBQ; cl00155 641491003824 charged pocket; other site 641491003825 hydrophobic patch; other site 641491003826 Response regulator receiver domain; Region: Response_reg; pfam00072 641491003827 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 641491003828 active site 641491003829 phosphorylation site [posttranslational modification] 641491003830 intermolecular recognition site; other site 641491003831 dimerization interface [polypeptide binding]; other site 641491003832 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491003833 Zn2+ binding site [ion binding]; other site 641491003834 Mg2+ binding site [ion binding]; other site 641491003835 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 641491003836 Peptidase family M50; Region: Peptidase_M50; pfam02163 641491003837 active site 641491003838 putative substrate binding region [chemical binding]; other site 641491003839 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 641491003840 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 641491003841 active site 641491003842 HIGH motif; other site 641491003843 dimer interface [polypeptide binding]; other site 641491003844 KMSKS motif; other site 641491003845 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 641491003846 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 641491003847 aspartate aminotransferase; Provisional; Region: PRK05764 641491003848 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 641491003849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491003850 homodimer interface [polypeptide binding]; other site 641491003851 catalytic residue [active] 641491003852 Late competence development protein ComFB; Region: ComFB; pfam10719 641491003853 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 641491003854 Protein export membrane protein; Region: SecD_SecF; cl14618 641491003855 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 641491003856 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491003857 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 641491003858 MarR family; Region: MarR_2; pfam12802 641491003859 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 641491003860 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 641491003861 Part of AAA domain; Region: AAA_19; pfam13245 641491003862 Family description; Region: UvrD_C_2; pfam13538 641491003863 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 641491003864 Metal-binding active site; metal-binding site 641491003865 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 641491003866 homotrimer interface [polypeptide binding]; other site 641491003867 Walker A motif; other site 641491003868 GTP binding site [chemical binding]; other site 641491003869 Walker B motif; other site 641491003870 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 641491003871 DHH family; Region: DHH; pfam01368 641491003872 DNA polymerase I; Provisional; Region: PRK05755 641491003873 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 641491003874 active site 641491003875 metal binding site 1 [ion binding]; metal-binding site 641491003876 putative 5' ssDNA interaction site; other site 641491003877 metal binding site 3; metal-binding site 641491003878 metal binding site 2 [ion binding]; metal-binding site 641491003879 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 641491003880 putative DNA binding site [nucleotide binding]; other site 641491003881 putative metal binding site [ion binding]; other site 641491003882 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 641491003883 active site 641491003884 DNA binding site [nucleotide binding] 641491003885 catalytic site [active] 641491003886 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491003887 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491003888 substrate binding pocket [chemical binding]; other site 641491003889 membrane-bound complex binding site; other site 641491003890 hinge residues; other site 641491003891 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 641491003892 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 641491003893 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 641491003894 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491003895 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 641491003896 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 641491003897 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 641491003898 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 641491003899 dimer interface [polypeptide binding]; other site 641491003900 FMN binding site [chemical binding]; other site 641491003901 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 641491003902 dimer interface [polypeptide binding]; other site 641491003903 putative tRNA-binding site [nucleotide binding]; other site 641491003904 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 641491003905 4Fe-4S binding domain; Region: Fer4; pfam00037 641491003906 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 641491003907 dimer interface [polypeptide binding]; other site 641491003908 Citrate synthase; Region: Citrate_synt; pfam00285 641491003909 active site 641491003910 citrylCoA binding site [chemical binding]; other site 641491003911 NADH binding [chemical binding]; other site 641491003912 cationic pore residues; other site 641491003913 oxalacetate/citrate binding site [chemical binding]; other site 641491003914 coenzyme A binding site [chemical binding]; other site 641491003915 catalytic triad [active] 641491003916 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 641491003917 ATP-NAD kinase; Region: NAD_kinase; pfam01513 641491003918 helicase 45; Provisional; Region: PTZ00424 641491003919 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 641491003920 ATP binding site [chemical binding]; other site 641491003921 Mg++ binding site [ion binding]; other site 641491003922 motif III; other site 641491003923 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 641491003924 nucleotide binding region [chemical binding]; other site 641491003925 ATP-binding site [chemical binding]; other site 641491003926 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 641491003927 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 641491003928 active site 641491003929 phosphorylation site [posttranslational modification] 641491003930 intermolecular recognition site; other site 641491003931 dimerization interface [polypeptide binding]; other site 641491003932 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491003933 Zn2+ binding site [ion binding]; other site 641491003934 Mg2+ binding site [ion binding]; other site 641491003935 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491003936 dimer interface [polypeptide binding]; other site 641491003937 phosphorylation site [posttranslational modification] 641491003938 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 641491003939 ATP binding site [chemical binding]; other site 641491003940 Mg2+ binding site [ion binding]; other site 641491003941 G-X-G motif; other site 641491003942 Response regulator receiver domain; Region: Response_reg; pfam00072 641491003943 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 641491003944 active site 641491003945 phosphorylation site [posttranslational modification] 641491003946 intermolecular recognition site; other site 641491003947 dimerization interface [polypeptide binding]; other site 641491003948 Response regulator receiver domain; Region: Response_reg; pfam00072 641491003949 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 641491003950 active site 641491003951 phosphorylation site [posttranslational modification] 641491003952 intermolecular recognition site; other site 641491003953 dimerization interface [polypeptide binding]; other site 641491003954 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 641491003955 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 641491003956 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 641491003957 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 641491003958 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491003959 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 641491003960 SET domain; Region: SET; pfam00856 641491003961 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 641491003962 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491003963 Coenzyme A binding pocket [chemical binding]; other site 641491003964 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 641491003965 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 641491003966 ATP-grasp domain; Region: ATP-grasp_4; cl17255 641491003967 VCBS repeat; Region: VCBS_repeat; TIGR01965 641491003968 VCBS repeat; Region: VCBS_repeat; TIGR01965 641491003969 VCBS repeat; Region: VCBS_repeat; TIGR01965 641491003970 VCBS repeat; Region: VCBS_repeat; TIGR01965 641491003971 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 641491003972 putative deacylase active site [active] 641491003973 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 641491003974 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 641491003975 putative substrate translocation pore; other site 641491003976 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 641491003977 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 641491003978 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491003979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491003980 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491003981 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491003982 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491003983 dimerization interface [polypeptide binding]; other site 641491003984 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491003985 dimer interface [polypeptide binding]; other site 641491003986 phosphorylation site [posttranslational modification] 641491003987 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 641491003988 ATP binding site [chemical binding]; other site 641491003989 Mg2+ binding site [ion binding]; other site 641491003990 G-X-G motif; other site 641491003991 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491003992 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 641491003993 active site 641491003994 phosphorylation site [posttranslational modification] 641491003995 intermolecular recognition site; other site 641491003996 dimerization interface [polypeptide binding]; other site 641491003997 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491003998 Walker A motif; other site 641491003999 ATP binding site [chemical binding]; other site 641491004000 Walker B motif; other site 641491004001 arginine finger; other site 641491004002 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491004003 Response regulator receiver domain; Region: Response_reg; pfam00072 641491004004 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 641491004005 active site 641491004006 phosphorylation site [posttranslational modification] 641491004007 intermolecular recognition site; other site 641491004008 dimerization interface [polypeptide binding]; other site 641491004009 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491004010 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004011 Walker A motif; other site 641491004012 ATP binding site [chemical binding]; other site 641491004013 Walker B motif; other site 641491004014 arginine finger; other site 641491004015 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 641491004016 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 641491004017 Ligand Binding Site [chemical binding]; other site 641491004018 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 641491004019 TrkA-C domain; Region: TrkA_C; pfam02080 641491004020 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 641491004021 TrkA-C domain; Region: TrkA_C; pfam02080 641491004022 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 641491004023 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 641491004024 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 641491004025 active site 641491004026 dimer interfaces [polypeptide binding]; other site 641491004027 catalytic residues [active] 641491004028 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 641491004029 Ferritin-like domain; Region: Ferritin; pfam00210 641491004030 heme binding site [chemical binding]; other site 641491004031 ferroxidase pore; other site 641491004032 ferroxidase diiron center [ion binding]; other site 641491004033 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 641491004034 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 641491004035 NAD(P) binding site [chemical binding]; other site 641491004036 catalytic residues [active] 641491004037 UDP-glucose 4-epimerase; Region: PLN02240 641491004038 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 641491004039 NAD binding site [chemical binding]; other site 641491004040 homodimer interface [polypeptide binding]; other site 641491004041 active site 641491004042 substrate binding site [chemical binding]; other site 641491004043 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 641491004044 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 641491004045 DXD motif; other site 641491004046 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 641491004047 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 641491004048 putative ADP-binding pocket [chemical binding]; other site 641491004049 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 641491004050 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 641491004051 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 641491004052 active site 641491004053 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 641491004054 colanic acid exporter; Provisional; Region: PRK10459 641491004055 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491004056 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491004057 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 641491004058 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491004059 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 641491004060 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 641491004061 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491004062 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491004063 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 641491004064 O-Antigen ligase; Region: Wzy_C; cl04850 641491004065 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491004066 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 641491004067 putative ADP-binding pocket [chemical binding]; other site 641491004068 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 641491004069 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 641491004070 active site 641491004071 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 641491004072 dimer interface [polypeptide binding]; other site 641491004073 active site 641491004074 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 641491004075 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 641491004076 Substrate binding site; other site 641491004077 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 641491004078 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 641491004079 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 641491004080 active site 641491004081 phosphorylation site [posttranslational modification] 641491004082 intermolecular recognition site; other site 641491004083 dimerization interface [polypeptide binding]; other site 641491004084 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004085 Walker A motif; other site 641491004086 ATP binding site [chemical binding]; other site 641491004087 Walker B motif; other site 641491004088 arginine finger; other site 641491004089 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491004090 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 641491004091 GAF domain; Region: GAF_3; pfam13492 641491004092 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 641491004093 ATP binding site [chemical binding]; other site 641491004094 Mg2+ binding site [ion binding]; other site 641491004095 G-X-G motif; other site 641491004096 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 641491004097 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 641491004098 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 641491004099 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 641491004100 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 641491004101 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 641491004102 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004103 Walker A motif; other site 641491004104 ATP binding site [chemical binding]; other site 641491004105 Walker B motif; other site 641491004106 arginine finger; other site 641491004107 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 641491004108 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 641491004109 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 641491004110 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 641491004111 Chain length determinant protein; Region: Wzz; pfam02706 641491004112 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 641491004113 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 641491004114 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 641491004115 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 641491004116 SLBB domain; Region: SLBB; pfam10531 641491004117 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 641491004118 Bacterial sugar transferase; Region: Bac_transf; pfam02397 641491004119 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 641491004120 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 641491004121 binding surface 641491004122 TPR motif; other site 641491004123 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 641491004124 binding surface 641491004125 TPR motif; other site 641491004126 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 641491004127 binding surface 641491004128 TPR motif; other site 641491004129 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 641491004130 TPR motif; other site 641491004131 binding surface 641491004132 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 641491004133 binding surface 641491004134 TPR motif; other site 641491004135 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 641491004136 binding surface 641491004137 TPR motif; other site 641491004138 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 641491004139 binding surface 641491004140 TPR motif; other site 641491004141 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 641491004142 TPR motif; other site 641491004143 binding surface 641491004144 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 641491004145 binding surface 641491004146 TPR motif; other site 641491004147 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 641491004148 TPR motif; other site 641491004149 binding surface 641491004150 DevC protein; Region: devC; TIGR01185 641491004151 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 641491004152 FtsX-like permease family; Region: FtsX; pfam02687 641491004153 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 641491004154 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 641491004155 Walker A/P-loop; other site 641491004156 ATP binding site [chemical binding]; other site 641491004157 Q-loop/lid; other site 641491004158 ABC transporter signature motif; other site 641491004159 Walker B; other site 641491004160 D-loop; other site 641491004161 H-loop/switch region; other site 641491004162 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 641491004163 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491004164 CAAX prenyl protease-related protein; Region: pepcterm_CAAX; TIGR03008 641491004165 PEP-CTERM motif; Region: VPEP; pfam07589 641491004166 Methyltransferase domain; Region: Methyltransf_31; pfam13847 641491004167 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 641491004168 S-adenosylmethionine binding site [chemical binding]; other site 641491004169 hypothetical protein; Provisional; Region: PRK14851 641491004170 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 641491004171 ATP binding site [chemical binding]; other site 641491004172 substrate interface [chemical binding]; other site 641491004173 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 641491004174 dimer interface [polypeptide binding]; other site 641491004175 hypothetical protein; Provisional; Region: PRK14852 641491004176 PilZ domain; Region: PilZ; pfam07238 641491004177 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491004178 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 641491004179 active site 641491004180 phosphorylation site [posttranslational modification] 641491004181 intermolecular recognition site; other site 641491004182 dimerization interface [polypeptide binding]; other site 641491004183 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004184 Walker A motif; other site 641491004185 ATP binding site [chemical binding]; other site 641491004186 Walker B motif; other site 641491004187 arginine finger; other site 641491004188 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 641491004189 dimer interface [polypeptide binding]; other site 641491004190 catalytic triad [active] 641491004191 peroxidatic and resolving cysteines [active] 641491004192 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 641491004193 MarR family; Region: MarR; pfam01047 641491004194 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 641491004195 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 641491004196 putative substrate translocation pore; other site 641491004197 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 641491004198 FAD binding site [chemical binding]; other site 641491004199 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 641491004200 ATP cone domain; Region: ATP-cone; pfam03477 641491004201 Class III ribonucleotide reductase; Region: RNR_III; cd01675 641491004202 effector binding site; other site 641491004203 active site 641491004204 Zn binding site [ion binding]; other site 641491004205 glycine loop; other site 641491004206 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 641491004207 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 641491004208 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 641491004209 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 641491004210 dimer interface [polypeptide binding]; other site 641491004211 active site 641491004212 metal binding site [ion binding]; metal-binding site 641491004213 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 641491004214 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491004215 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 641491004216 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491004217 Transcriptional regulator [Transcription]; Region: LysR; COG0583 641491004218 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491004219 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 641491004220 dimerization interface [polypeptide binding]; other site 641491004221 putative effector binding pocket; other site 641491004222 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 641491004223 TSCPD domain; Region: TSCPD; cl14834 641491004224 Uncharacterized conserved protein [Function unknown]; Region: COG1284 641491004225 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 641491004226 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 641491004227 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 641491004228 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 641491004229 Transcriptional regulators [Transcription]; Region: MarR; COG1846 641491004230 MarR family; Region: MarR_2; cl17246 641491004231 Predicted membrane protein [Function unknown]; Region: COG2364 641491004232 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 641491004233 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 641491004234 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 641491004235 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 641491004236 CoenzymeA binding site [chemical binding]; other site 641491004237 subunit interaction site [polypeptide binding]; other site 641491004238 PHB binding site; other site 641491004239 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 641491004240 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 641491004241 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491004242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491004243 Uncharacterized conserved protein [Function unknown]; Region: COG2014 641491004244 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 641491004245 Domain of unknown function (DUF364); Region: DUF364; pfam04016 641491004246 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 641491004247 Transcriptional regulator [Transcription]; Region: IclR; COG1414 641491004248 Bacterial transcriptional regulator; Region: IclR; pfam01614 641491004249 BCCT family transporter; Region: BCCT; pfam02028 641491004250 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 641491004251 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 641491004252 dimer interface [polypeptide binding]; other site 641491004253 PYR/PP interface [polypeptide binding]; other site 641491004254 TPP binding site [chemical binding]; other site 641491004255 substrate binding site [chemical binding]; other site 641491004256 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 641491004257 TPP-binding site [chemical binding]; other site 641491004258 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 641491004259 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 641491004260 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 641491004261 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491004262 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 641491004263 CoA binding domain; Region: CoA_binding_2; pfam13380 641491004264 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 641491004265 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 641491004266 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 641491004267 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 641491004268 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 641491004269 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 641491004270 homotrimer interaction site [polypeptide binding]; other site 641491004271 putative active site [active] 641491004272 benzoate transport; Region: 2A0115; TIGR00895 641491004273 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 641491004274 putative substrate translocation pore; other site 641491004275 EamA-like transporter family; Region: EamA; pfam00892 641491004276 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 641491004277 EamA-like transporter family; Region: EamA; pfam00892 641491004278 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 641491004279 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 641491004280 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 641491004281 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 641491004282 Protein of unknown function (DUF997); Region: DUF997; pfam06196 641491004283 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 641491004284 Na binding site [ion binding]; other site 641491004285 CGGC domain; Region: CGGC; pfam08821 641491004286 Transcriptional regulators [Transcription]; Region: FadR; COG2186 641491004287 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 641491004288 DNA-binding site [nucleotide binding]; DNA binding site 641491004289 FCD domain; Region: FCD; pfam07729 641491004290 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491004291 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491004292 substrate binding pocket [chemical binding]; other site 641491004293 membrane-bound complex binding site; other site 641491004294 hinge residues; other site 641491004295 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004296 dimer interface [polypeptide binding]; other site 641491004297 conserved gate region; other site 641491004298 putative PBP binding loops; other site 641491004299 ABC-ATPase subunit interface; other site 641491004300 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 641491004301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004302 dimer interface [polypeptide binding]; other site 641491004303 conserved gate region; other site 641491004304 putative PBP binding loops; other site 641491004305 ABC-ATPase subunit interface; other site 641491004306 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 641491004307 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 641491004308 Walker A/P-loop; other site 641491004309 ATP binding site [chemical binding]; other site 641491004310 Q-loop/lid; other site 641491004311 ABC transporter signature motif; other site 641491004312 Walker B; other site 641491004313 D-loop; other site 641491004314 H-loop/switch region; other site 641491004315 allantoate amidohydrolase; Reviewed; Region: PRK09290 641491004316 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 641491004317 active site 641491004318 metal binding site [ion binding]; metal-binding site 641491004319 dimer interface [polypeptide binding]; other site 641491004320 ketol-acid reductoisomerase; Provisional; Region: PRK05479 641491004321 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 641491004322 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 641491004323 hypothetical protein; Provisional; Region: PRK11171 641491004324 Cupin domain; Region: Cupin_2; pfam07883 641491004325 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 641491004326 ATP-grasp domain; Region: ATP-grasp; pfam02222 641491004327 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 641491004328 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 641491004329 putative FMN binding site [chemical binding]; other site 641491004330 Bacterial SH3 domain homologues; Region: SH3b; smart00287 641491004331 Peptidase family M48; Region: Peptidase_M48; cl12018 641491004332 CHASE2 domain; Region: CHASE2; pfam05226 641491004333 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 641491004334 cyclase homology domain; Region: CHD; cd07302 641491004335 nucleotidyl binding site; other site 641491004336 metal binding site [ion binding]; metal-binding site 641491004337 dimer interface [polypeptide binding]; other site 641491004338 VCBS repeat; Region: VCBS_repeat; TIGR01965 641491004339 VCBS repeat; Region: VCBS_repeat; TIGR01965 641491004340 VCBS repeat; Region: VCBS_repeat; TIGR01965 641491004341 VCBS repeat; Region: VCBS_repeat; TIGR01965 641491004342 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 641491004343 PAS fold; Region: PAS_4; pfam08448 641491004344 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 641491004345 putative active site [active] 641491004346 heme pocket [chemical binding]; other site 641491004347 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491004348 Zn2+ binding site [ion binding]; other site 641491004349 Mg2+ binding site [ion binding]; other site 641491004350 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 641491004351 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 641491004352 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491004353 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_C39_likeD; cd02421 641491004354 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 641491004355 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 641491004356 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 641491004357 Walker A/P-loop; other site 641491004358 ATP binding site [chemical binding]; other site 641491004359 Q-loop/lid; other site 641491004360 ABC transporter signature motif; other site 641491004361 Walker B; other site 641491004362 D-loop; other site 641491004363 H-loop/switch region; other site 641491004364 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 641491004365 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 641491004366 putative NAD(P) binding site [chemical binding]; other site 641491004367 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 641491004368 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 641491004369 Nif-specific regulatory protein; Region: nifA; TIGR01817 641491004370 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 641491004371 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004372 Walker A motif; other site 641491004373 ATP binding site [chemical binding]; other site 641491004374 Walker B motif; other site 641491004375 arginine finger; other site 641491004376 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491004377 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 641491004378 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 641491004379 FeS/SAM binding site; other site 641491004380 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 641491004381 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 641491004382 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 641491004383 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 641491004384 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 641491004385 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491004386 Coenzyme A binding pocket [chemical binding]; other site 641491004387 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 641491004388 dimer interface [polypeptide binding]; other site 641491004389 [2Fe-2S] cluster binding site [ion binding]; other site 641491004390 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 641491004391 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 641491004392 FeS/SAM binding site; other site 641491004393 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 641491004394 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 641491004395 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 641491004396 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 641491004397 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 641491004398 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 641491004399 Nitrogen regulatory protein P-II; Region: P-II; smart00938 641491004400 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 641491004401 Nitrogen regulatory protein P-II; Region: P-II; smart00938 641491004402 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 641491004403 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 641491004404 Nucleotide-binding sites [chemical binding]; other site 641491004405 Walker A motif; other site 641491004406 Switch I region of nucleotide binding site; other site 641491004407 Fe4S4 binding sites [ion binding]; other site 641491004408 Switch II region of nucleotide binding site; other site 641491004409 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 641491004410 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 641491004411 active site 641491004412 catalytic residues [active] 641491004413 metal binding site [ion binding]; metal-binding site 641491004414 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 641491004415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004416 dimer interface [polypeptide binding]; other site 641491004417 conserved gate region; other site 641491004418 putative PBP binding loops; other site 641491004419 ABC-ATPase subunit interface; other site 641491004420 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 641491004421 active site 641491004422 catalytic residues [active] 641491004423 Flagellin N-methylase; Region: FliB; cl00497 641491004424 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 641491004425 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 641491004426 Response regulator receiver domain; Region: Response_reg; pfam00072 641491004427 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 641491004428 active site 641491004429 phosphorylation site [posttranslational modification] 641491004430 intermolecular recognition site; other site 641491004431 dimerization interface [polypeptide binding]; other site 641491004432 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491004433 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 641491004434 putative active site [active] 641491004435 heme pocket [chemical binding]; other site 641491004436 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491004437 dimer interface [polypeptide binding]; other site 641491004438 phosphorylation site [posttranslational modification] 641491004439 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 641491004440 ATP binding site [chemical binding]; other site 641491004441 Mg2+ binding site [ion binding]; other site 641491004442 G-X-G motif; other site 641491004443 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 641491004444 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 641491004445 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 641491004446 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 641491004447 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491004448 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 641491004449 thiosulfate reductase PhsA; Provisional; Region: PRK15488 641491004450 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 641491004451 putative [Fe4-S4] binding site [ion binding]; other site 641491004452 putative molybdopterin cofactor binding site [chemical binding]; other site 641491004453 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 641491004454 putative molybdopterin cofactor binding site; other site 641491004455 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 641491004456 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 641491004457 active site 641491004458 substrate binding site [chemical binding]; other site 641491004459 metal binding site [ion binding]; metal-binding site 641491004460 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 641491004461 dimerization interface [polypeptide binding]; other site 641491004462 putative DNA binding site [nucleotide binding]; other site 641491004463 putative Zn2+ binding site [ion binding]; other site 641491004464 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 641491004465 arsenical-resistance protein; Region: acr3; TIGR00832 641491004466 Low molecular weight phosphatase family; Region: LMWPc; cd00115 641491004467 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 641491004468 active site 641491004469 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 641491004470 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 641491004471 Walker A/P-loop; other site 641491004472 ATP binding site [chemical binding]; other site 641491004473 Q-loop/lid; other site 641491004474 ABC transporter signature motif; other site 641491004475 Walker B; other site 641491004476 D-loop; other site 641491004477 H-loop/switch region; other site 641491004478 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 641491004479 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 641491004480 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004481 dimer interface [polypeptide binding]; other site 641491004482 conserved gate region; other site 641491004483 putative PBP binding loops; other site 641491004484 ABC-ATPase subunit interface; other site 641491004485 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 641491004486 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 641491004487 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 641491004488 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004489 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491004490 Walker A motif; other site 641491004491 ATP binding site [chemical binding]; other site 641491004492 Walker B motif; other site 641491004493 arginine finger; other site 641491004494 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491004495 dimer interface [polypeptide binding]; other site 641491004496 phosphorylation site [posttranslational modification] 641491004497 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 641491004498 ATP binding site [chemical binding]; other site 641491004499 Mg2+ binding site [ion binding]; other site 641491004500 G-X-G motif; other site 641491004501 Response regulator receiver domain; Region: Response_reg; pfam00072 641491004502 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 641491004503 active site 641491004504 phosphorylation site [posttranslational modification] 641491004505 intermolecular recognition site; other site 641491004506 dimerization interface [polypeptide binding]; other site 641491004507 Response regulator receiver domain; Region: Response_reg; pfam00072 641491004508 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 641491004509 active site 641491004510 phosphorylation site [posttranslational modification] 641491004511 intermolecular recognition site; other site 641491004512 dimerization interface [polypeptide binding]; other site 641491004513 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 641491004514 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 641491004515 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 641491004516 transmembrane helices; other site 641491004517 Response regulator receiver domain; Region: Response_reg; pfam00072 641491004518 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 641491004519 active site 641491004520 phosphorylation site [posttranslational modification] 641491004521 intermolecular recognition site; other site 641491004522 dimerization interface [polypeptide binding]; other site 641491004523 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 641491004524 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 641491004525 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491004526 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491004527 dimer interface [polypeptide binding]; other site 641491004528 phosphorylation site [posttranslational modification] 641491004529 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 641491004530 ATP binding site [chemical binding]; other site 641491004531 Mg2+ binding site [ion binding]; other site 641491004532 G-X-G motif; other site 641491004533 Response regulator receiver domain; Region: Response_reg; pfam00072 641491004534 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 641491004535 active site 641491004536 phosphorylation site [posttranslational modification] 641491004537 intermolecular recognition site; other site 641491004538 dimerization interface [polypeptide binding]; other site 641491004539 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491004540 dimer interface [polypeptide binding]; other site 641491004541 phosphorylation site [posttranslational modification] 641491004542 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 641491004543 ATP binding site [chemical binding]; other site 641491004544 Mg2+ binding site [ion binding]; other site 641491004545 G-X-G motif; other site 641491004546 Response regulator receiver domain; Region: Response_reg; pfam00072 641491004547 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 641491004548 active site 641491004549 phosphorylation site [posttranslational modification] 641491004550 intermolecular recognition site; other site 641491004551 dimerization interface [polypeptide binding]; other site 641491004552 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 641491004553 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491004554 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 641491004555 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491004556 dimer interface [polypeptide binding]; other site 641491004557 phosphorylation site [posttranslational modification] 641491004558 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 641491004559 ATP binding site [chemical binding]; other site 641491004560 Mg2+ binding site [ion binding]; other site 641491004561 G-X-G motif; other site 641491004562 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 641491004563 TSCPD domain; Region: TSCPD; cl14834 641491004564 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 641491004565 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 641491004566 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 641491004567 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491004568 Walker A/P-loop; other site 641491004569 ATP binding site [chemical binding]; other site 641491004570 Q-loop/lid; other site 641491004571 ABC transporter signature motif; other site 641491004572 Walker B; other site 641491004573 D-loop; other site 641491004574 H-loop/switch region; other site 641491004575 TOBE domain; Region: TOBE_2; pfam08402 641491004576 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 641491004577 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004578 dimer interface [polypeptide binding]; other site 641491004579 putative PBP binding loops; other site 641491004580 ABC-ATPase subunit interface; other site 641491004581 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 641491004582 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004583 dimer interface [polypeptide binding]; other site 641491004584 conserved gate region; other site 641491004585 putative PBP binding loops; other site 641491004586 ABC-ATPase subunit interface; other site 641491004587 phenylhydantoinase; Validated; Region: PRK08323 641491004588 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 641491004589 tetramer interface [polypeptide binding]; other site 641491004590 active site 641491004591 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 641491004592 GAF domain; Region: GAF; cl17456 641491004593 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004594 Walker A motif; other site 641491004595 ATP binding site [chemical binding]; other site 641491004596 Walker B motif; other site 641491004597 arginine finger; other site 641491004598 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491004599 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 641491004600 DctM-like transporters; Region: DctM; pfam06808 641491004601 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 641491004602 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 641491004603 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 641491004604 threonine synthase; Validated; Region: PRK06260 641491004605 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 641491004606 homodimer interface [polypeptide binding]; other site 641491004607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491004608 catalytic residue [active] 641491004609 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 641491004610 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 641491004611 peptidase; Reviewed; Region: PRK13004 641491004612 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 641491004613 putative metal binding site [ion binding]; other site 641491004614 putative dimer interface [polypeptide binding]; other site 641491004615 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 641491004616 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 641491004617 active site 641491004618 putative substrate binding pocket [chemical binding]; other site 641491004619 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 641491004620 putative cation:proton antiport protein; Provisional; Region: PRK10669 641491004621 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 641491004622 TrkA-N domain; Region: TrkA_N; pfam02254 641491004623 TrkA-C domain; Region: TrkA_C; pfam02080 641491004624 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 641491004625 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 641491004626 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 641491004627 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491004628 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 641491004629 active site 641491004630 phosphorylation site [posttranslational modification] 641491004631 intermolecular recognition site; other site 641491004632 dimerization interface [polypeptide binding]; other site 641491004633 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004634 Walker A motif; other site 641491004635 ATP binding site [chemical binding]; other site 641491004636 Walker B motif; other site 641491004637 arginine finger; other site 641491004638 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491004639 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491004640 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491004641 substrate binding pocket [chemical binding]; other site 641491004642 membrane-bound complex binding site; other site 641491004643 PAS domain; Region: PAS; smart00091 641491004644 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 641491004645 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491004646 dimer interface [polypeptide binding]; other site 641491004647 phosphorylation site [posttranslational modification] 641491004648 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 641491004649 ATP binding site [chemical binding]; other site 641491004650 Mg2+ binding site [ion binding]; other site 641491004651 G-X-G motif; other site 641491004652 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 641491004653 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 641491004654 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 641491004655 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 641491004656 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 641491004657 homodimer interaction site [polypeptide binding]; other site 641491004658 cofactor binding site; other site 641491004659 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 641491004660 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 641491004661 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 641491004662 Ligand Binding Site [chemical binding]; other site 641491004663 Response regulator receiver domain; Region: Response_reg; pfam00072 641491004664 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 641491004665 active site 641491004666 phosphorylation site [posttranslational modification] 641491004667 intermolecular recognition site; other site 641491004668 dimerization interface [polypeptide binding]; other site 641491004669 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 641491004670 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 641491004671 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 641491004672 Predicted permeases [General function prediction only]; Region: COG0730 641491004673 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 641491004674 Ligand Binding Site [chemical binding]; other site 641491004675 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491004676 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 641491004677 active site 641491004678 phosphorylation site [posttranslational modification] 641491004679 intermolecular recognition site; other site 641491004680 dimerization interface [polypeptide binding]; other site 641491004681 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004682 Walker A motif; other site 641491004683 ATP binding site [chemical binding]; other site 641491004684 Walker B motif; other site 641491004685 arginine finger; other site 641491004686 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491004687 HAMP domain; Region: HAMP; pfam00672 641491004688 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491004689 dimer interface [polypeptide binding]; other site 641491004690 phosphorylation site [posttranslational modification] 641491004691 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 641491004692 ATP binding site [chemical binding]; other site 641491004693 Mg2+ binding site [ion binding]; other site 641491004694 G-X-G motif; other site 641491004695 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 641491004696 4Fe-4S binding domain; Region: Fer4; cl02805 641491004697 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 641491004698 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 641491004699 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 641491004700 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 641491004701 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 641491004702 Radical SAM superfamily; Region: Radical_SAM; pfam04055 641491004703 FeS/SAM binding site; other site 641491004704 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 641491004705 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 641491004706 active site 641491004707 NAD binding site [chemical binding]; other site 641491004708 metal binding site [ion binding]; metal-binding site 641491004709 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491004710 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 641491004711 putative active site [active] 641491004712 heme pocket [chemical binding]; other site 641491004713 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491004714 dimer interface [polypeptide binding]; other site 641491004715 phosphorylation site [posttranslational modification] 641491004716 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 641491004717 ATP binding site [chemical binding]; other site 641491004718 Mg2+ binding site [ion binding]; other site 641491004719 G-X-G motif; other site 641491004720 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491004721 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 641491004722 active site 641491004723 phosphorylation site [posttranslational modification] 641491004724 intermolecular recognition site; other site 641491004725 dimerization interface [polypeptide binding]; other site 641491004726 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004727 Walker A motif; other site 641491004728 ATP binding site [chemical binding]; other site 641491004729 Walker B motif; other site 641491004730 arginine finger; other site 641491004731 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491004732 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491004733 Cysteine-rich domain; Region: CCG; pfam02754 641491004734 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 641491004735 Ligand Binding Site [chemical binding]; other site 641491004736 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 641491004737 Ligand Binding Site [chemical binding]; other site 641491004738 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 641491004739 Cysteine-rich domain; Region: CCG; pfam02754 641491004740 Cysteine-rich domain; Region: CCG; pfam02754 641491004741 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491004742 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 641491004743 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 641491004744 4Fe-4S binding domain; Region: Fer4; pfam00037 641491004745 4Fe-4S binding domain; Region: Fer4; pfam00037 641491004746 Response regulator receiver domain; Region: Response_reg; pfam00072 641491004747 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 641491004748 active site 641491004749 phosphorylation site [posttranslational modification] 641491004750 intermolecular recognition site; other site 641491004751 dimerization interface [polypeptide binding]; other site 641491004752 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 641491004753 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 641491004754 4Fe-4S binding domain; Region: Fer4; pfam00037 641491004755 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 641491004756 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 641491004757 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491004758 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 641491004759 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 641491004760 4Fe-4S binding domain; Region: Fer4; pfam00037 641491004761 Transposase; Region: HTH_Tnp_1; cl17663 641491004762 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491004763 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 641491004764 active site 641491004765 phosphorylation site [posttranslational modification] 641491004766 intermolecular recognition site; other site 641491004767 dimerization interface [polypeptide binding]; other site 641491004768 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491004769 Walker A motif; other site 641491004770 ATP binding site [chemical binding]; other site 641491004771 Walker B motif; other site 641491004772 arginine finger; other site 641491004773 Protein of unknown function, DUF599; Region: DUF599; cl01575 641491004774 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 641491004775 Glucosyl transferase GtrII; Region: Glucos_trans_II; pfam14264 641491004776 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 641491004777 Ligand Binding Site [chemical binding]; other site 641491004778 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 641491004779 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 641491004780 active site 641491004781 catalytic site [active] 641491004782 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 641491004783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004784 dimer interface [polypeptide binding]; other site 641491004785 conserved gate region; other site 641491004786 putative PBP binding loops; other site 641491004787 ABC-ATPase subunit interface; other site 641491004788 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 641491004789 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004790 dimer interface [polypeptide binding]; other site 641491004791 conserved gate region; other site 641491004792 putative PBP binding loops; other site 641491004793 ABC-ATPase subunit interface; other site 641491004794 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 641491004795 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491004796 Walker A/P-loop; other site 641491004797 ATP binding site [chemical binding]; other site 641491004798 Q-loop/lid; other site 641491004799 ABC transporter signature motif; other site 641491004800 Walker B; other site 641491004801 D-loop; other site 641491004802 H-loop/switch region; other site 641491004803 TOBE domain; Region: TOBE_2; pfam08402 641491004804 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 641491004805 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 641491004806 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 641491004807 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 641491004808 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 641491004809 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 641491004810 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 641491004811 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 641491004812 putative metal binding site [ion binding]; other site 641491004813 dimer interface [polypeptide binding]; other site 641491004814 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 641491004815 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491004816 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491004817 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 641491004818 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 641491004819 N-terminal plug; other site 641491004820 ligand-binding site [chemical binding]; other site 641491004821 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 641491004822 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 641491004823 Walker A/P-loop; other site 641491004824 ATP binding site [chemical binding]; other site 641491004825 Q-loop/lid; other site 641491004826 ABC transporter signature motif; other site 641491004827 Walker B; other site 641491004828 D-loop; other site 641491004829 H-loop/switch region; other site 641491004830 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 641491004831 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 641491004832 Walker A/P-loop; other site 641491004833 ATP binding site [chemical binding]; other site 641491004834 Q-loop/lid; other site 641491004835 ABC transporter signature motif; other site 641491004836 Walker B; other site 641491004837 D-loop; other site 641491004838 H-loop/switch region; other site 641491004839 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 641491004840 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 641491004841 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 641491004842 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 641491004843 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 641491004844 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 641491004845 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 641491004846 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 641491004847 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 641491004848 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 641491004849 TPR motif; other site 641491004850 binding surface 641491004851 Flagellin N-methylase; Region: FliB; cl00497 641491004852 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 641491004853 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 641491004854 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 641491004855 active site 641491004856 EamA-like transporter family; Region: EamA; cl17759 641491004857 EamA-like transporter family; Region: EamA; pfam00892 641491004858 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491004859 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491004860 substrate binding pocket [chemical binding]; other site 641491004861 membrane-bound complex binding site; other site 641491004862 hinge residues; other site 641491004863 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 641491004864 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004865 dimer interface [polypeptide binding]; other site 641491004866 conserved gate region; other site 641491004867 putative PBP binding loops; other site 641491004868 ABC-ATPase subunit interface; other site 641491004869 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 641491004870 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004871 ABC-ATPase subunit interface; other site 641491004872 putative PBP binding loops; other site 641491004873 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 641491004874 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 641491004875 Walker A/P-loop; other site 641491004876 ATP binding site [chemical binding]; other site 641491004877 Q-loop/lid; other site 641491004878 ABC transporter signature motif; other site 641491004879 Walker B; other site 641491004880 D-loop; other site 641491004881 H-loop/switch region; other site 641491004882 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 641491004883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491004884 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 641491004885 dimerization interface [polypeptide binding]; other site 641491004886 substrate binding pocket [chemical binding]; other site 641491004887 UreD urease accessory protein; Region: UreD; cl00530 641491004888 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 641491004889 alpha-gamma subunit interface [polypeptide binding]; other site 641491004890 beta-gamma subunit interface [polypeptide binding]; other site 641491004891 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 641491004892 gamma-beta subunit interface [polypeptide binding]; other site 641491004893 alpha-beta subunit interface [polypeptide binding]; other site 641491004894 urease subunit alpha; Reviewed; Region: ureC; PRK13207 641491004895 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 641491004896 subunit interactions [polypeptide binding]; other site 641491004897 active site 641491004898 flap region; other site 641491004899 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 641491004900 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 641491004901 dimer interface [polypeptide binding]; other site 641491004902 catalytic residues [active] 641491004903 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 641491004904 UreF; Region: UreF; pfam01730 641491004905 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 641491004906 G1 box; other site 641491004907 GTP/Mg2+ binding site [chemical binding]; other site 641491004908 G2 box; other site 641491004909 Switch I region; other site 641491004910 G3 box; other site 641491004911 Switch II region; other site 641491004912 G4 box; other site 641491004913 G5 box; other site 641491004914 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 641491004915 Protein of unknown function (DUF524); Region: DUF524; pfam04411 641491004916 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 641491004917 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 641491004918 Family description; Region: UvrD_C_2; pfam13538 641491004919 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 641491004920 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 641491004921 Predicted transcriptional regulator [Transcription]; Region: COG2378 641491004922 WYL domain; Region: WYL; pfam13280 641491004923 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 641491004924 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004925 dimer interface [polypeptide binding]; other site 641491004926 conserved gate region; other site 641491004927 putative PBP binding loops; other site 641491004928 ABC-ATPase subunit interface; other site 641491004929 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 641491004930 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491004931 dimer interface [polypeptide binding]; other site 641491004932 conserved gate region; other site 641491004933 putative PBP binding loops; other site 641491004934 ABC-ATPase subunit interface; other site 641491004935 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 641491004936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491004937 Coenzyme A binding pocket [chemical binding]; other site 641491004938 Alginate lyase; Region: Alginate_lyase; pfam05426 641491004939 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 641491004940 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 641491004941 Walker A/P-loop; other site 641491004942 ATP binding site [chemical binding]; other site 641491004943 Q-loop/lid; other site 641491004944 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 641491004945 ABC transporter signature motif; other site 641491004946 Walker B; other site 641491004947 D-loop; other site 641491004948 H-loop/switch region; other site 641491004949 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 641491004950 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 641491004951 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491004952 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 641491004953 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 641491004954 active site 2 [active] 641491004955 active site 1 [active] 641491004956 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 641491004957 active site 2 [active] 641491004958 active site 1 [active] 641491004959 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 641491004960 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491004961 Coenzyme A binding pocket [chemical binding]; other site 641491004962 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 641491004963 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491004964 Zn2+ binding site [ion binding]; other site 641491004965 Mg2+ binding site [ion binding]; other site 641491004966 TPR repeat; Region: TPR_11; pfam13414 641491004967 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 641491004968 binding surface 641491004969 TPR motif; other site 641491004970 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 641491004971 TPR repeat; Region: TPR_11; pfam13414 641491004972 binding surface 641491004973 TPR motif; other site 641491004974 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 641491004975 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 641491004976 glycogen binding site [chemical binding]; other site 641491004977 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 641491004978 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 641491004979 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 641491004980 DNA binding residues [nucleotide binding] 641491004981 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 641491004982 putative FMN binding site [chemical binding]; other site 641491004983 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 641491004984 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 641491004985 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 641491004986 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 641491004987 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 641491004988 active site 641491004989 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 641491004990 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 641491004991 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 641491004992 GTPase CgtA; Reviewed; Region: obgE; PRK12299 641491004993 GTP1/OBG; Region: GTP1_OBG; pfam01018 641491004994 Obg GTPase; Region: Obg; cd01898 641491004995 G1 box; other site 641491004996 GTP/Mg2+ binding site [chemical binding]; other site 641491004997 Switch I region; other site 641491004998 G2 box; other site 641491004999 G3 box; other site 641491005000 Switch II region; other site 641491005001 G4 box; other site 641491005002 G5 box; other site 641491005003 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 641491005004 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 641491005005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491005006 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 641491005007 dimerization interface [polypeptide binding]; other site 641491005008 substrate binding pocket [chemical binding]; other site 641491005009 gamma-glutamyl kinase; Provisional; Region: PRK05429 641491005010 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 641491005011 nucleotide binding site [chemical binding]; other site 641491005012 homotetrameric interface [polypeptide binding]; other site 641491005013 putative phosphate binding site [ion binding]; other site 641491005014 putative allosteric binding site; other site 641491005015 PUA domain; Region: PUA; pfam01472 641491005016 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 641491005017 Major Facilitator Superfamily; Region: MFS_1; pfam07690 641491005018 putative substrate translocation pore; other site 641491005019 Transcriptional regulator PadR-like family; Region: PadR; cl17335 641491005020 Predicted transcriptional regulators [Transcription]; Region: COG1695 641491005021 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 641491005022 nucleotide binding site [chemical binding]; other site 641491005023 substrate binding site [chemical binding]; other site 641491005024 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 641491005025 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 641491005026 homohexameric interface [polypeptide binding]; other site 641491005027 feedback inhibition sensing region; other site 641491005028 carbamate kinase; Reviewed; Region: PRK12686 641491005029 nucleotide binding site [chemical binding]; other site 641491005030 N-acetyl-L-glutamate binding site [chemical binding]; other site 641491005031 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 641491005032 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 641491005033 dimer interface [polypeptide binding]; other site 641491005034 putative functional site; other site 641491005035 putative MPT binding site; other site 641491005036 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 641491005037 Adenosylhomocysteinase; Provisional; Region: PTZ00075 641491005038 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 641491005039 homotetramer interface [polypeptide binding]; other site 641491005040 ligand binding site [chemical binding]; other site 641491005041 catalytic site [active] 641491005042 NAD binding site [chemical binding]; other site 641491005043 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 641491005044 dimerization interface [polypeptide binding]; other site 641491005045 putative DNA binding site [nucleotide binding]; other site 641491005046 putative Zn2+ binding site [ion binding]; other site 641491005047 Methyltransferase domain; Region: Methyltransf_23; pfam13489 641491005048 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 641491005049 S-adenosylmethionine binding site [chemical binding]; other site 641491005050 PEGA domain; Region: PEGA; pfam08308 641491005051 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491005052 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 641491005053 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 641491005054 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 641491005055 Ligand binding site; other site 641491005056 Putative Catalytic site; other site 641491005057 DXD motif; other site 641491005058 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 641491005059 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 641491005060 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 641491005061 Ligand Binding Site [chemical binding]; other site 641491005062 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 641491005063 Ligand Binding Site [chemical binding]; other site 641491005064 PEGA domain; Region: PEGA; pfam08308 641491005065 Protein of unknown function (DUF721); Region: DUF721; pfam05258 641491005066 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 641491005067 active site 641491005068 Int/Topo IB signature motif; other site 641491005069 DNA binding site [nucleotide binding] 641491005070 Helix-turn-helix domain; Region: HTH_17; cl17695 641491005071 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 641491005072 active site 641491005073 catalytic residues [active] 641491005074 Int/Topo IB signature motif; other site 641491005075 DNA binding site [nucleotide binding] 641491005076 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 641491005077 non-specific DNA binding site [nucleotide binding]; other site 641491005078 salt bridge; other site 641491005079 sequence-specific DNA binding site [nucleotide binding]; other site 641491005080 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 641491005081 DNA methylase; Region: N6_N4_Mtase; pfam01555 641491005082 AAA domain; Region: AAA_21; pfam13304 641491005083 AAA domain; Region: AAA_21; pfam13304 641491005084 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 641491005085 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 641491005086 HsdM N-terminal domain; Region: HsdM_N; pfam12161 641491005087 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 641491005088 Methyltransferase domain; Region: Methyltransf_26; pfam13659 641491005089 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 641491005090 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 641491005091 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 641491005092 ATP binding site [chemical binding]; other site 641491005093 putative Mg++ binding site [ion binding]; other site 641491005094 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 641491005095 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 641491005096 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 641491005097 active site 641491005098 Int/Topo IB signature motif; other site 641491005099 DNA binding site [nucleotide binding] 641491005100 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 641491005101 active site 641491005102 catalytic residues [active] 641491005103 Int/Topo IB signature motif; other site 641491005104 DNA binding site [nucleotide binding] 641491005105 RNA polymerase sigma factor; Reviewed; Region: PRK05602 641491005106 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 641491005107 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 641491005108 DNA binding residues [nucleotide binding] 641491005109 Putative zinc-finger; Region: zf-HC2; pfam13490 641491005110 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 641491005111 dimer interface [polypeptide binding]; other site 641491005112 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 641491005113 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 641491005114 Walker A/P-loop; other site 641491005115 ATP binding site [chemical binding]; other site 641491005116 Q-loop/lid; other site 641491005117 ABC transporter signature motif; other site 641491005118 Walker B; other site 641491005119 D-loop; other site 641491005120 H-loop/switch region; other site 641491005121 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 641491005122 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 641491005123 FtsX-like permease family; Region: FtsX; pfam02687 641491005124 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 641491005125 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 641491005126 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 641491005127 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 641491005128 Soluble P-type ATPase [General function prediction only]; Region: COG4087 641491005129 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 641491005130 Transcriptional regulators [Transcription]; Region: MarR; COG1846 641491005131 MarR family; Region: MarR_2; pfam12802 641491005132 Predicted membrane protein [Function unknown]; Region: COG2364 641491005133 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 641491005134 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 641491005135 Domain of unknown function (DUF389); Region: DUF389; cl00781 641491005136 HAMP domain; Region: HAMP; pfam00672 641491005137 dimerization interface [polypeptide binding]; other site 641491005138 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 641491005139 PAS domain; Region: PAS_9; pfam13426 641491005140 putative active site [active] 641491005141 heme pocket [chemical binding]; other site 641491005142 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491005143 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491005144 dimer interface [polypeptide binding]; other site 641491005145 putative CheW interface [polypeptide binding]; other site 641491005146 TonB C terminal; Region: TonB_2; pfam13103 641491005147 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 641491005148 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 641491005149 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 641491005150 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 641491005151 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 641491005152 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 641491005153 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 641491005154 Transcriptional regulators [Transcription]; Region: FadR; COG2186 641491005155 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 641491005156 DNA-binding site [nucleotide binding]; DNA binding site 641491005157 FCD domain; Region: FCD; pfam07729 641491005158 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 641491005159 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 641491005160 [4Fe-4S] binding site [ion binding]; other site 641491005161 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 641491005162 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 641491005163 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 641491005164 molybdopterin cofactor binding site; other site 641491005165 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 641491005166 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 641491005167 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 641491005168 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 641491005169 Soluble P-type ATPase [General function prediction only]; Region: COG4087 641491005170 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 641491005171 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 641491005172 Walker A/P-loop; other site 641491005173 ATP binding site [chemical binding]; other site 641491005174 Q-loop/lid; other site 641491005175 ABC transporter signature motif; other site 641491005176 Walker B; other site 641491005177 D-loop; other site 641491005178 H-loop/switch region; other site 641491005179 TOBE domain; Region: TOBE_2; pfam08402 641491005180 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 641491005181 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 641491005182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491005183 dimer interface [polypeptide binding]; other site 641491005184 conserved gate region; other site 641491005185 putative PBP binding loops; other site 641491005186 ABC-ATPase subunit interface; other site 641491005187 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 641491005188 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 641491005189 Uncharacterized conserved protein [Function unknown]; Region: COG1359 641491005190 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 641491005191 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 641491005192 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 641491005193 DNA binding residues [nucleotide binding] 641491005194 Thrombospondin C-terminal region; Region: TSP_C; pfam05735 641491005195 CGGC domain; Region: CGGC; pfam08821 641491005196 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491005197 heme-binding residues [chemical binding]; other site 641491005198 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491005199 heme-binding residues [chemical binding]; other site 641491005200 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491005201 heme-binding residues [chemical binding]; other site 641491005202 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491005203 heme-binding residues [chemical binding]; other site 641491005204 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 641491005205 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 641491005206 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 641491005207 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 641491005208 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491005209 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 641491005210 Ligand Binding Site [chemical binding]; other site 641491005211 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 641491005212 Ligand Binding Site [chemical binding]; other site 641491005213 Response regulator receiver domain; Region: Response_reg; pfam00072 641491005214 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 641491005215 active site 641491005216 phosphorylation site [posttranslational modification] 641491005217 intermolecular recognition site; other site 641491005218 dimerization interface [polypeptide binding]; other site 641491005219 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491005220 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 641491005221 active site 641491005222 phosphorylation site [posttranslational modification] 641491005223 intermolecular recognition site; other site 641491005224 dimerization interface [polypeptide binding]; other site 641491005225 Response regulator receiver domain; Region: Response_reg; pfam00072 641491005226 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 641491005227 active site 641491005228 phosphorylation site [posttranslational modification] 641491005229 intermolecular recognition site; other site 641491005230 dimerization interface [polypeptide binding]; other site 641491005231 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491005232 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 641491005233 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 641491005234 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 641491005235 putative active site [active] 641491005236 heme pocket [chemical binding]; other site 641491005237 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 641491005238 ATP binding site [chemical binding]; other site 641491005239 Mg2+ binding site [ion binding]; other site 641491005240 G-X-G motif; other site 641491005241 Transcriptional regulator; Region: Rrf2; cl17282 641491005242 Rrf2 family protein; Region: rrf2_super; TIGR00738 641491005243 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491005244 dimerization interface [polypeptide binding]; other site 641491005245 PAS domain; Region: PAS_8; pfam13188 641491005246 PAS fold; Region: PAS_4; pfam08448 641491005247 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491005248 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 641491005249 putative active site [active] 641491005250 heme pocket [chemical binding]; other site 641491005251 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491005252 dimer interface [polypeptide binding]; other site 641491005253 phosphorylation site [posttranslational modification] 641491005254 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 641491005255 ATP binding site [chemical binding]; other site 641491005256 Mg2+ binding site [ion binding]; other site 641491005257 G-X-G motif; other site 641491005258 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 641491005259 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 641491005260 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 641491005261 PAS domain S-box; Region: sensory_box; TIGR00229 641491005262 PAS domain; Region: PAS; smart00091 641491005263 GAF domain; Region: GAF_2; pfam13185 641491005264 GAF domain; Region: GAF_3; pfam13492 641491005265 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 641491005266 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491005267 putative active site [active] 641491005268 heme pocket [chemical binding]; other site 641491005269 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 641491005270 putative active site [active] 641491005271 heme pocket [chemical binding]; other site 641491005272 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491005273 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491005274 metal binding site [ion binding]; metal-binding site 641491005275 active site 641491005276 I-site; other site 641491005277 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 641491005278 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 641491005279 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 641491005280 catalytic residues [active] 641491005281 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 641491005282 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491005283 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491005284 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491005285 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491005286 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 641491005287 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 641491005288 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 641491005289 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 641491005290 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 641491005291 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 641491005292 DctM-like transporters; Region: DctM; pfam06808 641491005293 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 641491005294 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 641491005295 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 641491005296 CoA binding domain; Region: CoA_binding_2; pfam13380 641491005297 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 641491005298 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491005299 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491005300 substrate binding pocket [chemical binding]; other site 641491005301 membrane-bound complex binding site; other site 641491005302 hinge residues; other site 641491005303 Ferredoxin [Energy production and conversion]; Region: COG1146 641491005304 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 641491005305 FMN binding site [chemical binding]; other site 641491005306 dimer interface [polypeptide binding]; other site 641491005307 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 641491005308 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 641491005309 active site 641491005310 HIGH motif; other site 641491005311 nucleotide binding site [chemical binding]; other site 641491005312 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 641491005313 KMSKS motif; other site 641491005314 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 641491005315 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491005316 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491005317 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491005318 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491005319 dimerization interface [polypeptide binding]; other site 641491005320 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491005321 dimer interface [polypeptide binding]; other site 641491005322 phosphorylation site [posttranslational modification] 641491005323 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 641491005324 ATP binding site [chemical binding]; other site 641491005325 Mg2+ binding site [ion binding]; other site 641491005326 G-X-G motif; other site 641491005327 Response regulator receiver domain; Region: Response_reg; pfam00072 641491005328 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 641491005329 active site 641491005330 phosphorylation site [posttranslational modification] 641491005331 intermolecular recognition site; other site 641491005332 dimerization interface [polypeptide binding]; other site 641491005333 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 641491005334 Serine hydrolase; Region: Ser_hydrolase; cl17834 641491005335 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 641491005336 active site residue [active] 641491005337 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 641491005338 active site residue [active] 641491005339 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 641491005340 NMT1/THI5 like; Region: NMT1; pfam09084 641491005341 Cache domain; Region: Cache_1; pfam02743 641491005342 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 641491005343 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491005344 dimerization interface [polypeptide binding]; other site 641491005345 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 641491005346 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 641491005347 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 641491005348 active site 641491005349 zinc binding site [ion binding]; other site 641491005350 Na+ binding site [ion binding]; other site 641491005351 GTP-binding protein YchF; Reviewed; Region: PRK09601 641491005352 YchF GTPase; Region: YchF; cd01900 641491005353 G1 box; other site 641491005354 GTP/Mg2+ binding site [chemical binding]; other site 641491005355 Switch I region; other site 641491005356 G2 box; other site 641491005357 Switch II region; other site 641491005358 G3 box; other site 641491005359 G4 box; other site 641491005360 G5 box; other site 641491005361 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 641491005362 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 641491005363 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 641491005364 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 641491005365 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 641491005366 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 641491005367 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491005368 Walker A motif; other site 641491005369 ATP binding site [chemical binding]; other site 641491005370 Walker B motif; other site 641491005371 arginine finger; other site 641491005372 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491005373 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 641491005374 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 641491005375 dimer interface [polypeptide binding]; other site 641491005376 active site 641491005377 glycine loop; other site 641491005378 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 641491005379 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491005380 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 641491005381 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 641491005382 motif II; other site 641491005383 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 641491005384 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 641491005385 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 641491005386 sucrose-6F-phosphate phosphohydrolase; Region: SPP_plant-cyano; TIGR01485 641491005387 Uncharacterized conserved protein [Function unknown]; Region: COG5316 641491005388 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 641491005389 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 641491005390 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491005391 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 641491005392 active site 641491005393 phosphorylation site [posttranslational modification] 641491005394 intermolecular recognition site; other site 641491005395 dimerization interface [polypeptide binding]; other site 641491005396 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491005397 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491005398 metal binding site [ion binding]; metal-binding site 641491005399 active site 641491005400 I-site; other site 641491005401 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 641491005402 Predicted transcriptional regulator [Transcription]; Region: COG2932 641491005403 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 641491005404 Catalytic site [active] 641491005405 ribonuclease R; Region: RNase_R; TIGR02063 641491005406 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 641491005407 RNB domain; Region: RNB; pfam00773 641491005408 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 641491005409 RNA binding site [nucleotide binding]; other site 641491005410 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 641491005411 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 641491005412 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 641491005413 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 641491005414 hypothetical protein; Provisional; Region: PRK11770 641491005415 Domain of unknown function (DUF307); Region: DUF307; pfam03733 641491005416 Domain of unknown function (DUF307); Region: DUF307; pfam03733 641491005417 YibE/F-like protein; Region: YibE_F; pfam07907 641491005418 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 641491005419 dimer interface [polypeptide binding]; other site 641491005420 Alkaline phosphatase homologues; Region: alkPPc; smart00098 641491005421 active site 641491005422 Methyltransferase domain; Region: Methyltransf_31; pfam13847 641491005423 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 641491005424 S-adenosylmethionine binding site [chemical binding]; other site 641491005425 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 641491005426 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 641491005427 active site 641491005428 HIGH motif; other site 641491005429 dimer interface [polypeptide binding]; other site 641491005430 KMSKS motif; other site 641491005431 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 641491005432 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 641491005433 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 641491005434 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 641491005435 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491005436 substrate binding pocket [chemical binding]; other site 641491005437 membrane-bound complex binding site; other site 641491005438 recombinase A; Provisional; Region: recA; PRK09354 641491005439 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 641491005440 hexamer interface [polypeptide binding]; other site 641491005441 Walker A motif; other site 641491005442 ATP binding site [chemical binding]; other site 641491005443 Walker B motif; other site 641491005444 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 641491005445 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 641491005446 motif 1; other site 641491005447 active site 641491005448 motif 2; other site 641491005449 motif 3; other site 641491005450 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 641491005451 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 641491005452 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 641491005453 putative substrate translocation pore; other site 641491005454 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 641491005455 23S rRNA interface [nucleotide binding]; other site 641491005456 L3 interface [polypeptide binding]; other site 641491005457 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 641491005458 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 641491005459 Radical SAM superfamily; Region: Radical_SAM; pfam04055 641491005460 FeS/SAM binding site; other site 641491005461 Predicted membrane protein [Function unknown]; Region: COG4420 641491005462 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 641491005463 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 641491005464 dimerization interface [polypeptide binding]; other site 641491005465 putative ATP binding site [chemical binding]; other site 641491005466 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 641491005467 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 641491005468 FeS/SAM binding site; other site 641491005469 Hemerythrin; Region: Hemerythrin; cd12107 641491005470 Fe binding site [ion binding]; other site 641491005471 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 641491005472 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 641491005473 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 641491005474 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 641491005475 DsrE/DsrF-like family; Region: DrsE; pfam02635 641491005476 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 641491005477 Na2 binding site [ion binding]; other site 641491005478 putative substrate binding site 1 [chemical binding]; other site 641491005479 Na binding site 1 [ion binding]; other site 641491005480 putative substrate binding site 2 [chemical binding]; other site 641491005481 Sulphur transport; Region: Sulf_transp; pfam04143 641491005482 Sulphur transport; Region: Sulf_transp; pfam04143 641491005483 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 641491005484 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 641491005485 Transcriptional regulator; Region: Rrf2; cl17282 641491005486 Rrf2 family protein; Region: rrf2_super; TIGR00738 641491005487 cobalt transport protein CbiM; Validated; Region: PRK06265 641491005488 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 641491005489 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 641491005490 HD domain; Region: HD_3; pfam13023 641491005491 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 641491005492 TRAM domain; Region: TRAM; pfam01938 641491005493 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 641491005494 FOG: CBS domain [General function prediction only]; Region: COG0517 641491005495 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 641491005496 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491005497 Zn2+ binding site [ion binding]; other site 641491005498 Mg2+ binding site [ion binding]; other site 641491005499 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 641491005500 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 641491005501 domain interfaces; other site 641491005502 active site 641491005503 cell division protein MraZ; Reviewed; Region: PRK00326 641491005504 MraZ protein; Region: MraZ; pfam02381 641491005505 MraZ protein; Region: MraZ; pfam02381 641491005506 MraW methylase family; Region: Methyltransf_5; cl17771 641491005507 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 641491005508 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 641491005509 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 641491005510 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 641491005511 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 641491005512 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 641491005513 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 641491005514 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 641491005515 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 641491005516 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 641491005517 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 641491005518 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 641491005519 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 641491005520 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 641491005521 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 641491005522 Mg++ binding site [ion binding]; other site 641491005523 putative catalytic motif [active] 641491005524 putative substrate binding site [chemical binding]; other site 641491005525 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 641491005526 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 641491005527 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 641491005528 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 641491005529 cell division protein FtsW; Region: ftsW; TIGR02614 641491005530 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 641491005531 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 641491005532 active site 641491005533 homodimer interface [polypeptide binding]; other site 641491005534 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 641491005535 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 641491005536 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 641491005537 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 641491005538 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 641491005539 FAD binding domain; Region: FAD_binding_4; pfam01565 641491005540 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 641491005541 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 641491005542 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 641491005543 Cell division protein FtsQ; Region: FtsQ; pfam03799 641491005544 cell division protein FtsA; Region: ftsA; TIGR01174 641491005545 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 641491005546 nucleotide binding site [chemical binding]; other site 641491005547 Cell division protein FtsA; Region: FtsA; pfam14450 641491005548 cell division protein FtsZ; Validated; Region: PRK09330 641491005549 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 641491005550 nucleotide binding site [chemical binding]; other site 641491005551 SulA interaction site; other site 641491005552 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 641491005553 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 641491005554 FeS/SAM binding site; other site 641491005555 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 641491005556 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 641491005557 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 641491005558 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 641491005559 dimer interface [polypeptide binding]; other site 641491005560 active site 641491005561 glycine-pyridoxal phosphate binding site [chemical binding]; other site 641491005562 folate binding site [chemical binding]; other site 641491005563 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 641491005564 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 641491005565 dimer interface [polypeptide binding]; other site 641491005566 active site 641491005567 acyl carrier protein; Provisional; Region: acpP; PRK00982 641491005568 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 641491005569 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 641491005570 NAD(P) binding site [chemical binding]; other site 641491005571 homotetramer interface [polypeptide binding]; other site 641491005572 homodimer interface [polypeptide binding]; other site 641491005573 active site 641491005574 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 641491005575 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 641491005576 dimer interface [polypeptide binding]; other site 641491005577 active site 641491005578 CoA binding pocket [chemical binding]; other site 641491005579 putative phosphate acyltransferase; Provisional; Region: PRK05331 641491005580 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 641491005581 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 641491005582 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 641491005583 Short C-terminal domain; Region: SHOCT; pfam09851 641491005584 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 641491005585 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 641491005586 HIGH motif; other site 641491005587 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 641491005588 active site 641491005589 KMSKS motif; other site 641491005590 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 641491005591 HDOD domain; Region: HDOD; pfam08668 641491005592 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491005593 Zn2+ binding site [ion binding]; other site 641491005594 Mg2+ binding site [ion binding]; other site 641491005595 outer membrane porin, OprD family; Region: OprD; pfam03573 641491005596 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 641491005597 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 641491005598 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491005599 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 641491005600 active site 641491005601 phosphorylation site [posttranslational modification] 641491005602 intermolecular recognition site; other site 641491005603 dimerization interface [polypeptide binding]; other site 641491005604 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491005605 Walker A motif; other site 641491005606 ATP binding site [chemical binding]; other site 641491005607 Walker B motif; other site 641491005608 arginine finger; other site 641491005609 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491005610 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 641491005611 PAS domain; Region: PAS; smart00091 641491005612 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491005613 dimer interface [polypeptide binding]; other site 641491005614 phosphorylation site [posttranslational modification] 641491005615 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 641491005616 ATP binding site [chemical binding]; other site 641491005617 Mg2+ binding site [ion binding]; other site 641491005618 G-X-G motif; other site 641491005619 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 641491005620 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 641491005621 dimer interface [polypeptide binding]; other site 641491005622 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 641491005623 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 641491005624 catalytic motif [active] 641491005625 Zn binding site [ion binding]; other site 641491005626 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 641491005627 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 641491005628 catalytic motif [active] 641491005629 Zn binding site [ion binding]; other site 641491005630 RibD C-terminal domain; Region: RibD_C; cl17279 641491005631 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491005632 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491005633 substrate binding pocket [chemical binding]; other site 641491005634 membrane-bound complex binding site; other site 641491005635 hinge residues; other site 641491005636 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 641491005637 Lumazine binding domain; Region: Lum_binding; pfam00677 641491005638 Lumazine binding domain; Region: Lum_binding; pfam00677 641491005639 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 641491005640 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 641491005641 HIGH motif; other site 641491005642 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 641491005643 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 641491005644 active site 641491005645 KMSKS motif; other site 641491005646 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 641491005647 tRNA binding surface [nucleotide binding]; other site 641491005648 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 641491005649 putative RNA binding site [nucleotide binding]; other site 641491005650 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 641491005651 homopentamer interface [polypeptide binding]; other site 641491005652 active site 641491005653 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 641491005654 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 641491005655 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 641491005656 dimerization interface [polypeptide binding]; other site 641491005657 active site 641491005658 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491005659 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491005660 metal binding site [ion binding]; metal-binding site 641491005661 active site 641491005662 I-site; other site 641491005663 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 641491005664 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 641491005665 active site 641491005666 Lipopolysaccharide-assembly; Region: LptE; cl01125 641491005667 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 641491005668 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 641491005669 MPN+ (JAMM) motif; other site 641491005670 Zinc-binding site [ion binding]; other site 641491005671 Acylphosphatase; Region: Acylphosphatase; pfam00708 641491005672 Found in ATP-dependent protease La (LON); Region: LON; smart00464 641491005673 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 641491005674 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491005675 Walker A motif; other site 641491005676 ATP binding site [chemical binding]; other site 641491005677 Walker B motif; other site 641491005678 arginine finger; other site 641491005679 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 641491005680 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 641491005681 binding surface 641491005682 TPR motif; other site 641491005683 TPR repeat; Region: TPR_11; pfam13414 641491005684 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 641491005685 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491005686 binding surface 641491005687 TPR motif; other site 641491005688 TPR repeat; Region: TPR_11; pfam13414 641491005689 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 641491005690 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 641491005691 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 641491005692 domain interfaces; other site 641491005693 active site 641491005694 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 641491005695 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 641491005696 putative dimer interface [polypeptide binding]; other site 641491005697 active site pocket [active] 641491005698 putative cataytic base [active] 641491005699 shikimate kinase; Reviewed; Region: aroK; PRK00131 641491005700 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 641491005701 ADP binding site [chemical binding]; other site 641491005702 magnesium binding site [ion binding]; other site 641491005703 putative shikimate binding site; other site 641491005704 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 641491005705 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 641491005706 active site 641491005707 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 641491005708 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 641491005709 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 641491005710 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491005711 acyl-activating enzyme (AAE) consensus motif; other site 641491005712 active site 641491005713 AMP binding site [chemical binding]; other site 641491005714 CoA binding site [chemical binding]; other site 641491005715 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 641491005716 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 641491005717 Walker A/P-loop; other site 641491005718 ATP binding site [chemical binding]; other site 641491005719 Q-loop/lid; other site 641491005720 ABC transporter signature motif; other site 641491005721 Walker B; other site 641491005722 D-loop; other site 641491005723 H-loop/switch region; other site 641491005724 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 641491005725 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 641491005726 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 641491005727 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 641491005728 TM-ABC transporter signature motif; other site 641491005729 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491005730 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 641491005731 TM-ABC transporter signature motif; other site 641491005732 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 641491005733 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491005734 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 641491005735 acyl-activating enzyme (AAE) consensus motif; other site 641491005736 putative AMP binding site [chemical binding]; other site 641491005737 putative active site [active] 641491005738 putative CoA binding site [chemical binding]; other site 641491005739 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 641491005740 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 641491005741 Walker A/P-loop; other site 641491005742 ATP binding site [chemical binding]; other site 641491005743 Q-loop/lid; other site 641491005744 ABC transporter signature motif; other site 641491005745 Walker B; other site 641491005746 D-loop; other site 641491005747 H-loop/switch region; other site 641491005748 FOG: CBS domain [General function prediction only]; Region: COG0517 641491005749 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 641491005750 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 641491005751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491005752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491005753 metal binding site [ion binding]; metal-binding site 641491005754 active site 641491005755 I-site; other site 641491005756 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 641491005757 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 641491005758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491005759 homodimer interface [polypeptide binding]; other site 641491005760 catalytic residue [active] 641491005761 cobyric acid synthase; Provisional; Region: PRK00784 641491005762 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 641491005763 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 641491005764 catalytic triad [active] 641491005765 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 641491005766 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 641491005767 putative [4Fe-4S] binding site [ion binding]; other site 641491005768 putative molybdopterin cofactor binding site [chemical binding]; other site 641491005769 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 641491005770 molybdopterin cofactor binding site; other site 641491005771 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 641491005772 VacJ like lipoprotein; Region: VacJ; cl01073 641491005773 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 641491005774 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 641491005775 active site 641491005776 phosphorylation site [posttranslational modification] 641491005777 intermolecular recognition site; other site 641491005778 dimerization interface [polypeptide binding]; other site 641491005779 LytTr DNA-binding domain; Region: LytTR; pfam04397 641491005780 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 641491005781 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 641491005782 Catalytic site [active] 641491005783 GTP-binding protein LepA; Provisional; Region: PRK05433 641491005784 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 641491005785 G1 box; other site 641491005786 putative GEF interaction site [polypeptide binding]; other site 641491005787 GTP/Mg2+ binding site [chemical binding]; other site 641491005788 Switch I region; other site 641491005789 G2 box; other site 641491005790 G3 box; other site 641491005791 Switch II region; other site 641491005792 G4 box; other site 641491005793 G5 box; other site 641491005794 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 641491005795 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 641491005796 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 641491005797 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 641491005798 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 641491005799 S-adenosylmethionine binding site [chemical binding]; other site 641491005800 Uncharacterized conserved protein [Function unknown]; Region: COG1284 641491005801 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 641491005802 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 641491005803 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 641491005804 cobalamin synthase; Reviewed; Region: cobS; PRK00235 641491005805 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 641491005806 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 641491005807 tandem repeat interface [polypeptide binding]; other site 641491005808 oligomer interface [polypeptide binding]; other site 641491005809 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 641491005810 active site residues [active] 641491005811 aspartate aminotransferase; Provisional; Region: PRK06836 641491005812 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 641491005813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491005814 homodimer interface [polypeptide binding]; other site 641491005815 catalytic residue [active] 641491005816 Cache domain; Region: Cache_1; pfam02743 641491005817 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 641491005818 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 641491005819 dimerization interface [polypeptide binding]; other site 641491005820 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491005821 dimer interface [polypeptide binding]; other site 641491005822 putative CheW interface [polypeptide binding]; other site 641491005823 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 641491005824 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 641491005825 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 641491005826 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 641491005827 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 641491005828 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 641491005829 Protein of unknown function DUF262; Region: DUF262; pfam03235 641491005830 Uncharacterized conserved protein [Function unknown]; Region: COG1479 641491005831 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 641491005832 PAS domain; Region: PAS_9; pfam13426 641491005833 putative active site [active] 641491005834 heme pocket [chemical binding]; other site 641491005835 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491005836 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491005837 Walker A motif; other site 641491005838 ATP binding site [chemical binding]; other site 641491005839 Walker B motif; other site 641491005840 arginine finger; other site 641491005841 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 641491005842 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 641491005843 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 641491005844 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 641491005845 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 641491005846 Phosphate transporter family; Region: PHO4; pfam01384 641491005847 Phosphate transporter family; Region: PHO4; pfam01384 641491005848 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491005849 dimerization interface [polypeptide binding]; other site 641491005850 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 641491005851 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 641491005852 putative active site [active] 641491005853 heme pocket [chemical binding]; other site 641491005854 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491005855 dimer interface [polypeptide binding]; other site 641491005856 phosphorylation site [posttranslational modification] 641491005857 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 641491005858 ATP binding site [chemical binding]; other site 641491005859 Mg2+ binding site [ion binding]; other site 641491005860 G-X-G motif; other site 641491005861 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 641491005862 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 641491005863 active site 641491005864 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 641491005865 dimer interface [polypeptide binding]; other site 641491005866 substrate binding site [chemical binding]; other site 641491005867 catalytic residues [active] 641491005868 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 641491005869 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 641491005870 ATP binding site [chemical binding]; other site 641491005871 Mg2+ binding site [ion binding]; other site 641491005872 G-X-G motif; other site 641491005873 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 641491005874 ATP binding site [chemical binding]; other site 641491005875 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 641491005876 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 641491005877 Organic solvent tolerance protein; Region: OstA_C; pfam04453 641491005878 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 641491005879 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 641491005880 NADP binding site [chemical binding]; other site 641491005881 homopentamer interface [polypeptide binding]; other site 641491005882 substrate binding site [chemical binding]; other site 641491005883 active site 641491005884 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 641491005885 metal ion-dependent adhesion site (MIDAS); other site 641491005886 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 641491005887 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491005888 ligand binding site [chemical binding]; other site 641491005889 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 641491005890 putative active site [active] 641491005891 putative catalytic site [active] 641491005892 putative Mg binding site IVb [ion binding]; other site 641491005893 putative phosphate binding site [ion binding]; other site 641491005894 putative DNA binding site [nucleotide binding]; other site 641491005895 putative Mg binding site IVa [ion binding]; other site 641491005896 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 641491005897 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 641491005898 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 641491005899 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 641491005900 Flavodoxin; Region: Flavodoxin_1; pfam00258 641491005901 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 641491005902 Rubredoxin; Region: Rubredoxin; pfam00301 641491005903 iron binding site [ion binding]; other site 641491005904 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 641491005905 Rubredoxin; Region: Rubredoxin; pfam00301 641491005906 iron binding site [ion binding]; other site 641491005907 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 641491005908 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 641491005909 non-heme iron binding site [ion binding]; other site 641491005910 dimer interface [polypeptide binding]; other site 641491005911 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 641491005912 non-heme iron binding site [ion binding]; other site 641491005913 dimer interface [polypeptide binding]; other site 641491005914 Rubrerythrin [Energy production and conversion]; Region: COG1592 641491005915 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 641491005916 binuclear metal center [ion binding]; other site 641491005917 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 641491005918 iron binding site [ion binding]; other site 641491005919 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 641491005920 metal binding site 2 [ion binding]; metal-binding site 641491005921 putative DNA binding helix; other site 641491005922 metal binding site 1 [ion binding]; metal-binding site 641491005923 dimer interface [polypeptide binding]; other site 641491005924 structural Zn2+ binding site [ion binding]; other site 641491005925 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491005926 dimerization interface [polypeptide binding]; other site 641491005927 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 641491005928 PAS domain; Region: PAS_9; pfam13426 641491005929 putative active site [active] 641491005930 heme pocket [chemical binding]; other site 641491005931 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491005932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491005933 dimer interface [polypeptide binding]; other site 641491005934 putative CheW interface [polypeptide binding]; other site 641491005935 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 641491005936 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 641491005937 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 641491005938 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 641491005939 dimerization interface [polypeptide binding]; other site 641491005940 ATP binding site [chemical binding]; other site 641491005941 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 641491005942 dimerization interface [polypeptide binding]; other site 641491005943 ATP binding site [chemical binding]; other site 641491005944 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 641491005945 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 641491005946 substrate binding pocket [chemical binding]; other site 641491005947 chain length determination region; other site 641491005948 substrate-Mg2+ binding site; other site 641491005949 catalytic residues [active] 641491005950 aspartate-rich region 1; other site 641491005951 active site lid residues [active] 641491005952 aspartate-rich region 2; other site 641491005953 futalosine nucleosidase; Region: fut_nucase; TIGR03664 641491005954 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 641491005955 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 641491005956 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 641491005957 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 641491005958 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 641491005959 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 641491005960 S-adenosylmethionine binding site [chemical binding]; other site 641491005961 Protein of unknown function, DUF486; Region: DUF486; cl01236 641491005962 CreA protein; Region: CreA; pfam05981 641491005963 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 641491005964 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 641491005965 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 641491005966 nucleotide binding region [chemical binding]; other site 641491005967 ATP-binding site [chemical binding]; other site 641491005968 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491005969 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491005970 Cysteine-rich domain; Region: CCG; pfam02754 641491005971 Cysteine-rich domain; Region: CCG; pfam02754 641491005972 FAD binding domain; Region: FAD_binding_4; pfam01565 641491005973 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 641491005974 Competence-damaged protein; Region: CinA; pfam02464 641491005975 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 641491005976 RNA/DNA hybrid binding site [nucleotide binding]; other site 641491005977 active site 641491005978 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 641491005979 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 641491005980 FtsX-like permease family; Region: FtsX; pfam02687 641491005981 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 641491005982 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 641491005983 Walker A/P-loop; other site 641491005984 ATP binding site [chemical binding]; other site 641491005985 Q-loop/lid; other site 641491005986 ABC transporter signature motif; other site 641491005987 Walker B; other site 641491005988 D-loop; other site 641491005989 H-loop/switch region; other site 641491005990 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 641491005991 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 641491005992 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491005993 Flagellin N-methylase; Region: FliB; cl00497 641491005994 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 641491005995 HflK protein; Region: hflK; TIGR01933 641491005996 HflC protein; Region: hflC; TIGR01932 641491005997 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 641491005998 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 641491005999 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 641491006000 Catalytic site [active] 641491006001 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 641491006002 active site 641491006003 oligomerization interface [polypeptide binding]; other site 641491006004 metal binding site [ion binding]; metal-binding site 641491006005 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 641491006006 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 641491006007 ATP binding site [chemical binding]; other site 641491006008 Mg2+ binding site [ion binding]; other site 641491006009 G-X-G motif; other site 641491006010 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 641491006011 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 641491006012 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 641491006013 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 641491006014 phosphoserine phosphatase SerB; Region: serB; TIGR00338 641491006015 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 641491006016 motif II; other site 641491006017 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 641491006018 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 641491006019 Periplasmic binding protein TroA_e. 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_e; cd01142 641491006020 putative ligand binding residues [chemical binding]; other site 641491006021 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 641491006022 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 641491006023 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 641491006024 ABC-ATPase subunit interface; other site 641491006025 dimer interface [polypeptide binding]; other site 641491006026 putative PBP binding regions; other site 641491006027 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 641491006028 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 641491006029 Walker A/P-loop; other site 641491006030 ATP binding site [chemical binding]; other site 641491006031 Q-loop/lid; other site 641491006032 ABC transporter signature motif; other site 641491006033 Walker B; other site 641491006034 D-loop; other site 641491006035 H-loop/switch region; other site 641491006036 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 641491006037 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 641491006038 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 641491006039 N-acetyl-D-glucosamine binding site [chemical binding]; other site 641491006040 catalytic residue [active] 641491006041 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 641491006042 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 641491006043 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 641491006044 putative active site [active] 641491006045 PhoH-like protein; Region: PhoH; cl17668 641491006046 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 641491006047 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 641491006048 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491006049 Zn2+ binding site [ion binding]; other site 641491006050 Mg2+ binding site [ion binding]; other site 641491006051 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 641491006052 heat shock protein 90; Provisional; Region: PRK05218 641491006053 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 641491006054 ATP binding site [chemical binding]; other site 641491006055 Mg2+ binding site [ion binding]; other site 641491006056 G-X-G motif; other site 641491006057 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 641491006058 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 641491006059 DNA binding residues [nucleotide binding] 641491006060 Methylamine utilisation protein MauE; Region: MauE; pfam07291 641491006061 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 641491006062 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 641491006063 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 641491006064 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 641491006065 hexamer interface [polypeptide binding]; other site 641491006066 ligand binding site [chemical binding]; other site 641491006067 putative active site [active] 641491006068 NAD(P) binding site [chemical binding]; other site 641491006069 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 641491006070 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 641491006071 AsnC family; Region: AsnC_trans_reg; pfam01037 641491006072 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 641491006073 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 641491006074 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491006075 substrate binding pocket [chemical binding]; other site 641491006076 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491006077 membrane-bound complex binding site; other site 641491006078 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 641491006079 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 641491006080 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 641491006081 putative active site [active] 641491006082 heme pocket [chemical binding]; other site 641491006083 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491006084 dimer interface [polypeptide binding]; other site 641491006085 phosphorylation site [posttranslational modification] 641491006086 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 641491006087 ATP binding site [chemical binding]; other site 641491006088 Mg2+ binding site [ion binding]; other site 641491006089 G-X-G motif; other site 641491006090 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 641491006091 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 641491006092 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 641491006093 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 641491006094 homodimer interface [polypeptide binding]; other site 641491006095 oligonucleotide binding site [chemical binding]; other site 641491006096 Radical SAM superfamily; Region: Radical_SAM; pfam04055 641491006097 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 641491006098 FeS/SAM binding site; other site 641491006099 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; cl17220 641491006100 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491006101 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 641491006102 putative active site [active] 641491006103 heme pocket [chemical binding]; other site 641491006104 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491006105 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 641491006106 putative active site [active] 641491006107 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 641491006108 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 641491006109 ATP binding site [chemical binding]; other site 641491006110 Mg2+ binding site [ion binding]; other site 641491006111 G-X-G motif; other site 641491006112 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 641491006113 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 641491006114 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491006115 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 641491006116 putative active site [active] 641491006117 heme pocket [chemical binding]; other site 641491006118 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 641491006119 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491006120 putative active site [active] 641491006121 heme pocket [chemical binding]; other site 641491006122 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 641491006123 putative active site [active] 641491006124 heme pocket [chemical binding]; other site 641491006125 PAS domain S-box; Region: sensory_box; TIGR00229 641491006126 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 641491006127 putative active site [active] 641491006128 heme pocket [chemical binding]; other site 641491006129 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491006130 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491006131 metal binding site [ion binding]; metal-binding site 641491006132 active site 641491006133 I-site; other site 641491006134 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 641491006135 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 641491006136 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 641491006137 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 641491006138 4Fe-4S binding domain; Region: Fer4; cl02805 641491006139 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 641491006140 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 641491006141 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 641491006142 putative MPT binding site; other site 641491006143 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 641491006144 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 641491006145 putative substrate binding site [chemical binding]; other site 641491006146 putative ATP binding site [chemical binding]; other site 641491006147 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491006148 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491006149 Tetratricopeptide repeat; Region: TPR_10; pfam13374 641491006150 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 641491006151 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 641491006152 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 641491006153 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 641491006154 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 641491006155 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 641491006156 putative binding surface; other site 641491006157 active site 641491006158 3D domain; Region: 3D; cl01439 641491006159 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 641491006160 4Fe-4S binding domain; Region: Fer4; cl02805 641491006161 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 641491006162 FMN binding site [chemical binding]; other site 641491006163 dimer interface [polypeptide binding]; other site 641491006164 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491006165 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491006166 metal binding site [ion binding]; metal-binding site 641491006167 active site 641491006168 I-site; other site 641491006169 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 641491006170 PAS domain S-box; Region: sensory_box; TIGR00229 641491006171 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 641491006172 putative active site [active] 641491006173 heme pocket [chemical binding]; other site 641491006174 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491006175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491006176 metal binding site [ion binding]; metal-binding site 641491006177 active site 641491006178 I-site; other site 641491006179 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 641491006180 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 641491006181 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 641491006182 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 641491006183 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491006184 membrane-bound complex binding site; other site 641491006185 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 641491006186 DctM-like transporters; Region: DctM; pfam06808 641491006187 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 641491006188 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 641491006189 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491006190 membrane-bound complex binding site; other site 641491006191 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 641491006192 Malic enzyme, N-terminal domain; Region: malic; pfam00390 641491006193 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 641491006194 putative NAD(P) binding site [chemical binding]; other site 641491006195 hypothetical protein; Provisional; Region: PRK12839 641491006196 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 641491006197 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 641491006198 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 641491006199 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 641491006200 putative catalytic site [active] 641491006201 putative metal binding site [ion binding]; other site 641491006202 putative phosphate binding site [ion binding]; other site 641491006203 intracellular protease, PfpI family; Region: PfpI; TIGR01382 641491006204 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 641491006205 conserved cys residue [active] 641491006206 HI0933-like protein; Region: HI0933_like; pfam03486 641491006207 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 641491006208 active site 641491006209 dimerization interface [polypeptide binding]; other site 641491006210 PAS domain; Region: PAS_9; pfam13426 641491006211 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 641491006212 putative active site [active] 641491006213 heme pocket [chemical binding]; other site 641491006214 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491006215 dimer interface [polypeptide binding]; other site 641491006216 phosphorylation site [posttranslational modification] 641491006217 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 641491006218 ATP binding site [chemical binding]; other site 641491006219 Mg2+ binding site [ion binding]; other site 641491006220 G-X-G motif; other site 641491006221 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 641491006222 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 641491006223 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 641491006224 FeS/SAM binding site; other site 641491006225 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491006226 Zn2+ binding site [ion binding]; other site 641491006227 Mg2+ binding site [ion binding]; other site 641491006228 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 641491006229 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 641491006230 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 641491006231 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 641491006232 elongation factor 2; Provisional; Region: PTZ00416 641491006233 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 641491006234 HAMP domain; Region: HAMP; pfam00672 641491006235 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 641491006236 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 641491006237 FtsX-like permease family; Region: FtsX; pfam02687 641491006238 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 641491006239 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 641491006240 Walker A/P-loop; other site 641491006241 ATP binding site [chemical binding]; other site 641491006242 Q-loop/lid; other site 641491006243 ABC transporter signature motif; other site 641491006244 Walker B; other site 641491006245 D-loop; other site 641491006246 H-loop/switch region; other site 641491006247 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 641491006248 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 641491006249 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 641491006250 FtsX-like permease family; Region: FtsX; pfam02687 641491006251 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491006252 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491006253 substrate binding pocket [chemical binding]; other site 641491006254 membrane-bound complex binding site; other site 641491006255 hinge residues; other site 641491006256 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 641491006257 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 641491006258 Substrate binding site; other site 641491006259 Mg++ binding site; other site 641491006260 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 641491006261 active site 641491006262 substrate binding site [chemical binding]; other site 641491006263 CoA binding site [chemical binding]; other site 641491006264 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 641491006265 phosphodiesterase; Provisional; Region: PRK12704 641491006266 periplasmic chaperone; Provisional; Region: PRK10780 641491006267 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491006268 Zn2+ binding site [ion binding]; other site 641491006269 Mg2+ binding site [ion binding]; other site 641491006270 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 641491006271 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 641491006272 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 641491006273 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 641491006274 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 641491006275 putative active site [active] 641491006276 metal binding site [ion binding]; metal-binding site 641491006277 homodimer binding site [polypeptide binding]; other site 641491006278 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 641491006279 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 641491006280 active site 641491006281 HIGH motif; other site 641491006282 dimer interface [polypeptide binding]; other site 641491006283 KMSKS motif; other site 641491006284 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 641491006285 RNA binding surface [nucleotide binding]; other site 641491006286 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 641491006287 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 641491006288 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 641491006289 trimer interface [polypeptide binding]; other site 641491006290 active site 641491006291 substrate binding site [chemical binding]; other site 641491006292 CoA binding site [chemical binding]; other site 641491006293 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 641491006294 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 641491006295 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 641491006296 active site 641491006297 HIGH motif; other site 641491006298 KMSK motif region; other site 641491006299 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 641491006300 tRNA binding surface [nucleotide binding]; other site 641491006301 anticodon binding site; other site 641491006302 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 641491006303 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 641491006304 EamA-like transporter family; Region: EamA; pfam00892 641491006305 EamA-like transporter family; Region: EamA; pfam00892 641491006306 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 641491006307 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491006308 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 641491006309 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491006310 AAA domain; Region: AAA_22; pfam13401 641491006311 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 641491006312 Bacterial transcriptional activator domain; Region: BTAD; smart01043 641491006313 Tetratricopeptide repeat; Region: TPR_16; pfam13432 641491006314 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 641491006315 TPR motif; other site 641491006316 binding surface 641491006317 TPR repeat; Region: TPR_11; pfam13414 641491006318 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 641491006319 binding surface 641491006320 TPR motif; other site 641491006321 TPR repeat; Region: TPR_11; pfam13414 641491006322 Response regulator receiver domain; Region: Response_reg; pfam00072 641491006323 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 641491006324 binding surface 641491006325 TPR motif; other site 641491006326 TPR repeat; Region: TPR_11; pfam13414 641491006327 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 641491006328 binding surface 641491006329 TPR motif; other site 641491006330 TPR repeat; Region: TPR_11; pfam13414 641491006331 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 641491006332 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 641491006333 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 641491006334 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 641491006335 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 641491006336 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 641491006337 tetramer interface [polypeptide binding]; other site 641491006338 heme binding pocket [chemical binding]; other site 641491006339 NADPH binding site [chemical binding]; other site 641491006340 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 641491006341 CoenzymeA binding site [chemical binding]; other site 641491006342 subunit interaction site [polypeptide binding]; other site 641491006343 PHB binding site; other site 641491006344 acetyl-CoA synthetase; Provisional; Region: PRK00174 641491006345 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 641491006346 active site 641491006347 CoA binding site [chemical binding]; other site 641491006348 acyl-activating enzyme (AAE) consensus motif; other site 641491006349 AMP binding site [chemical binding]; other site 641491006350 acetate binding site [chemical binding]; other site 641491006351 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 641491006352 Protein kinase domain; Region: Pkinase; pfam00069 641491006353 Catalytic domain of Protein Kinases; Region: PKc; cd00180 641491006354 active site 641491006355 ATP binding site [chemical binding]; other site 641491006356 substrate binding site [chemical binding]; other site 641491006357 activation loop (A-loop); other site 641491006358 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 641491006359 Ion channel; Region: Ion_trans_2; pfam07885 641491006360 TrkA-N domain; Region: TrkA_N; pfam02254 641491006361 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 641491006362 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 641491006363 ligand binding site [chemical binding]; other site 641491006364 flexible hinge region; other site 641491006365 Sporulation related domain; Region: SPOR; pfam05036 641491006366 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 641491006367 IHF - DNA interface [nucleotide binding]; other site 641491006368 IHF dimer interface [polypeptide binding]; other site 641491006369 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 641491006370 HIT family signature motif; other site 641491006371 catalytic residue [active] 641491006372 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 641491006373 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 641491006374 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 641491006375 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 641491006376 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 641491006377 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 641491006378 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 641491006379 shikimate binding site; other site 641491006380 NAD(P) binding site [chemical binding]; other site 641491006381 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 641491006382 active site 641491006383 HDOD domain; Region: HDOD; pfam08668 641491006384 CheD chemotactic sensory transduction; Region: CheD; cl00810 641491006385 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 641491006386 active site 641491006387 metal binding site [ion binding]; metal-binding site 641491006388 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 641491006389 Tetratricopeptide repeat; Region: TPR_6; pfam13174 641491006390 AMIN domain; Region: AMIN; pfam11741 641491006391 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 641491006392 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 641491006393 active site 641491006394 metal binding site [ion binding]; metal-binding site 641491006395 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 641491006396 Sel1-like repeats; Region: SEL1; smart00671 641491006397 Sel1-like repeats; Region: SEL1; smart00671 641491006398 Sel1-like repeats; Region: SEL1; smart00671 641491006399 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 641491006400 Major Facilitator Superfamily; Region: MFS_1; pfam07690 641491006401 putative substrate translocation pore; other site 641491006402 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 641491006403 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 641491006404 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 641491006405 ATP binding site [chemical binding]; other site 641491006406 putative Mg++ binding site [ion binding]; other site 641491006407 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 641491006408 nucleotide binding region [chemical binding]; other site 641491006409 ATP-binding site [chemical binding]; other site 641491006410 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 641491006411 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 641491006412 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491006413 Zn2+ binding site [ion binding]; other site 641491006414 Mg2+ binding site [ion binding]; other site 641491006415 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 641491006416 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 641491006417 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491006418 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 641491006419 active site 641491006420 phosphorylation site [posttranslational modification] 641491006421 intermolecular recognition site; other site 641491006422 dimerization interface [polypeptide binding]; other site 641491006423 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491006424 Walker A motif; other site 641491006425 ATP binding site [chemical binding]; other site 641491006426 Walker B motif; other site 641491006427 arginine finger; other site 641491006428 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491006429 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 641491006430 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 641491006431 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 641491006432 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 641491006433 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 641491006434 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 641491006435 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 641491006436 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 641491006437 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 641491006438 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 641491006439 FeS/SAM binding site; other site 641491006440 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 641491006441 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 641491006442 active site 641491006443 DNA binding site [nucleotide binding] 641491006444 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 641491006445 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 641491006446 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 641491006447 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 641491006448 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491006449 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 641491006450 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 641491006451 Outer membrane efflux protein; Region: OEP; pfam02321 641491006452 Outer membrane efflux protein; Region: OEP; pfam02321 641491006453 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491006454 dimerization interface [polypeptide binding]; other site 641491006455 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 641491006456 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 641491006457 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 641491006458 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 641491006459 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 641491006460 EamA-like transporter family; Region: EamA; pfam00892 641491006461 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 641491006462 EamA-like transporter family; Region: EamA; pfam00892 641491006463 SlyX; Region: SlyX; pfam04102 641491006464 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 641491006465 Right handed beta helix region; Region: Beta_helix; pfam13229 641491006466 SPRY domain-like in bacteria; Region: SPRY_like; cd12886 641491006467 Phage T7 tail fibre protein; Region: Phage_T7_tail; pfam03906 641491006468 hypothetical protein; Region: PHA00661 641491006469 hypothetical protein; Region: PHA00661 641491006470 hypothetical protein; Region: PHA00661 641491006471 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 641491006472 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 641491006473 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 641491006474 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 641491006475 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 641491006476 active site 641491006477 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 641491006478 potassium uptake protein; Region: kup; TIGR00794 641491006479 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 641491006480 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 641491006481 EamA-like transporter family; Region: EamA; pfam00892 641491006482 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 641491006483 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 641491006484 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 641491006485 Zn binding site [ion binding]; other site 641491006486 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 641491006487 PEP-CTERM motif; Region: VPEP; pfam07589 641491006488 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 641491006489 Ligand Binding Site [chemical binding]; other site 641491006490 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 641491006491 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 641491006492 FeS/SAM binding site; other site 641491006493 HemN C-terminal domain; Region: HemN_C; pfam06969 641491006494 Chromate transporter; Region: Chromate_transp; pfam02417 641491006495 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 641491006496 Chromate transporter; Region: Chromate_transp; pfam02417 641491006497 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 641491006498 dimerization interface [polypeptide binding]; other site 641491006499 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 641491006500 PAS domain; Region: PAS_9; pfam13426 641491006501 putative active site [active] 641491006502 heme pocket [chemical binding]; other site 641491006503 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491006504 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491006505 dimer interface [polypeptide binding]; other site 641491006506 putative CheW interface [polypeptide binding]; other site 641491006507 NAD-dependent deacetylase; Provisional; Region: PRK00481 641491006508 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 641491006509 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 641491006510 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 641491006511 Nitrogen regulatory protein P-II; Region: P-II; smart00938 641491006512 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 641491006513 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 641491006514 metal binding triad; other site 641491006515 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 641491006516 HD domain; Region: HD; pfam01966 641491006517 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 641491006518 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 641491006519 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 641491006520 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 641491006521 catalytic residues [active] 641491006522 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 641491006523 active site 641491006524 homotetramer interface [polypeptide binding]; other site 641491006525 homodimer interface [polypeptide binding]; other site 641491006526 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 641491006527 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 641491006528 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491006529 Zn2+ binding site [ion binding]; other site 641491006530 Mg2+ binding site [ion binding]; other site 641491006531 hypothetical protein; Region: PHA00662 641491006532 NusB family; Region: NusB; pfam01029 641491006533 putative RNA binding site [nucleotide binding]; other site 641491006534 ribosomal RNA small subunit methyltransferase RsmB; Region: rsmB; TIGR00563 641491006535 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 641491006536 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 641491006537 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 641491006538 molybdopterin cofactor binding site; other site 641491006539 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 641491006540 molybdopterin cofactor binding site; other site 641491006541 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491006542 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491006543 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 641491006544 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 641491006545 Acyltransferase family; Region: Acyl_transf_3; pfam01757 641491006546 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 641491006547 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 641491006548 dimer interface [polypeptide binding]; other site 641491006549 motif 1; other site 641491006550 active site 641491006551 motif 2; other site 641491006552 motif 3; other site 641491006553 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 641491006554 anticodon binding site; other site 641491006555 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 641491006556 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 641491006557 dimer interface [polypeptide binding]; other site 641491006558 anticodon binding site; other site 641491006559 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 641491006560 homodimer interface [polypeptide binding]; other site 641491006561 motif 1; other site 641491006562 active site 641491006563 motif 2; other site 641491006564 GAD domain; Region: GAD; pfam02938 641491006565 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 641491006566 active site 641491006567 motif 3; other site 641491006568 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 641491006569 active site 641491006570 catalytic residues [active] 641491006571 metal binding site [ion binding]; metal-binding site 641491006572 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 641491006573 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 641491006574 putative active site [active] 641491006575 substrate binding site [chemical binding]; other site 641491006576 putative cosubstrate binding site; other site 641491006577 catalytic site [active] 641491006578 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 641491006579 substrate binding site [chemical binding]; other site 641491006580 Protein of unknown function DUF116; Region: DUF116; pfam01976 641491006581 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 641491006582 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 641491006583 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 641491006584 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 641491006585 Protease prsW family; Region: PrsW-protease; pfam13367 641491006586 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 641491006587 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 641491006588 inhibitor-cofactor binding pocket; inhibition site 641491006589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491006590 catalytic residue [active] 641491006591 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491006592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491006593 metal binding site [ion binding]; metal-binding site 641491006594 active site 641491006595 I-site; other site 641491006596 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 641491006597 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 641491006598 active site 641491006599 phosphorylation site [posttranslational modification] 641491006600 intermolecular recognition site; other site 641491006601 dimerization interface [polypeptide binding]; other site 641491006602 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 641491006603 DNA binding site [nucleotide binding] 641491006604 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 641491006605 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 641491006606 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 641491006607 substrate binding pocket [chemical binding]; other site 641491006608 dimer interface [polypeptide binding]; other site 641491006609 inhibitor binding site; inhibition site 641491006610 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 641491006611 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 641491006612 B12 binding site [chemical binding]; other site 641491006613 cobalt ligand [ion binding]; other site 641491006614 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 641491006615 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 641491006616 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 641491006617 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 641491006618 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 641491006619 DNA binding residues [nucleotide binding] 641491006620 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491006621 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 641491006622 TPR motif; other site 641491006623 binding surface 641491006624 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 641491006625 binding surface 641491006626 TPR motif; other site 641491006627 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 641491006628 TPR motif; other site 641491006629 TPR repeat; Region: TPR_11; pfam13414 641491006630 binding surface 641491006631 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 641491006632 binding surface 641491006633 TPR motif; other site 641491006634 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 641491006635 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 641491006636 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 641491006637 TPP-binding site [chemical binding]; other site 641491006638 dimer interface [polypeptide binding]; other site 641491006639 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 641491006640 PYR/PP interface [polypeptide binding]; other site 641491006641 dimer interface [polypeptide binding]; other site 641491006642 TPP binding site [chemical binding]; other site 641491006643 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 641491006644 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 641491006645 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 641491006646 putative active site [active] 641491006647 PilZ domain; Region: PilZ; pfam07238 641491006648 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 641491006649 EamA-like transporter family; Region: EamA; pfam00892 641491006650 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491006651 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 641491006652 active site 641491006653 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 641491006654 Flagellin N-methylase; Region: FliB; pfam03692 641491006655 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 641491006656 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 641491006657 active site 641491006658 HIGH motif; other site 641491006659 nucleotide binding site [chemical binding]; other site 641491006660 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 641491006661 PAS fold; Region: PAS; pfam00989 641491006662 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 641491006663 putative active site [active] 641491006664 heme pocket [chemical binding]; other site 641491006665 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491006666 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491006667 Walker A motif; other site 641491006668 ATP binding site [chemical binding]; other site 641491006669 Walker B motif; other site 641491006670 arginine finger; other site 641491006671 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491006672 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 641491006673 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491006674 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 641491006675 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 641491006676 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 641491006677 active site 641491006678 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 641491006679 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 641491006680 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 641491006681 DctM-like transporters; Region: DctM; pfam06808 641491006682 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 641491006683 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 641491006684 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 641491006685 active site 641491006686 catalytic tetrad [active] 641491006687 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 641491006688 putative ADP-binding pocket [chemical binding]; other site 641491006689 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 641491006690 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 641491006691 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 641491006692 Radical SAM superfamily; Region: Radical_SAM; pfam04055 641491006693 FeS/SAM binding site; other site 641491006694 Tetratricopeptide repeat; Region: TPR_16; pfam13432 641491006695 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 641491006696 TPR motif; other site 641491006697 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 641491006698 NodB motif; other site 641491006699 putative active site [active] 641491006700 putative catalytic site [active] 641491006701 putative Zn binding site [ion binding]; other site 641491006702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491006703 Coenzyme A binding pocket [chemical binding]; other site 641491006704 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 641491006705 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 641491006706 EamA-like transporter family; Region: EamA; pfam00892 641491006707 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 641491006708 active site 641491006709 intersubunit interactions; other site 641491006710 catalytic residue [active] 641491006711 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 641491006712 active site 641491006713 putative homodimer interface [polypeptide binding]; other site 641491006714 SAM binding site [chemical binding]; other site 641491006715 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 641491006716 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 641491006717 S-adenosylmethionine binding site [chemical binding]; other site 641491006718 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491006719 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491006720 substrate binding pocket [chemical binding]; other site 641491006721 membrane-bound complex binding site; other site 641491006722 hinge residues; other site 641491006723 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 641491006724 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 641491006725 AMMECR1; Region: AMMECR1; pfam01871 641491006726 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 641491006727 Flagellar protein YcgR; Region: YcgR_2; pfam12945 641491006728 PilZ domain; Region: PilZ; pfam07238 641491006729 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 641491006730 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 641491006731 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491006732 Zn2+ binding site [ion binding]; other site 641491006733 Mg2+ binding site [ion binding]; other site 641491006734 Cysteine-rich small domain; Region: zf-like; cl00946 641491006735 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 641491006736 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 641491006737 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 641491006738 active site 641491006739 SAM binding site [chemical binding]; other site 641491006740 homodimer interface [polypeptide binding]; other site 641491006741 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 641491006742 active site 641491006743 catalytic site [active] 641491006744 substrate binding site [chemical binding]; other site 641491006745 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 641491006746 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 641491006747 active site 641491006748 substrate binding site [chemical binding]; other site 641491006749 cosubstrate binding site; other site 641491006750 catalytic site [active] 641491006751 Uncharacterized conserved protein [Function unknown]; Region: COG3422 641491006752 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 641491006753 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 641491006754 active site 641491006755 SAM binding site [chemical binding]; other site 641491006756 homodimer interface [polypeptide binding]; other site 641491006757 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 641491006758 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 641491006759 active site 641491006760 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 641491006761 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 641491006762 active site 641491006763 HIGH motif; other site 641491006764 nucleotide binding site [chemical binding]; other site 641491006765 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 641491006766 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 641491006767 active site 641491006768 KMSKS motif; other site 641491006769 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 641491006770 tRNA binding surface [nucleotide binding]; other site 641491006771 anticodon binding site; other site 641491006772 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 641491006773 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 641491006774 conserved cys residue [active] 641491006775 Protein of unknown function (DUF342); Region: DUF342; pfam03961 641491006776 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 641491006777 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 641491006778 dimerization interface 3.5A [polypeptide binding]; other site 641491006779 active site 641491006780 Uncharacterized conserved protein [Function unknown]; Region: COG3334 641491006781 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 641491006782 DNA polymerase IV; Validated; Region: PRK02406 641491006783 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 641491006784 active site 641491006785 DNA binding site [nucleotide binding] 641491006786 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 641491006787 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 641491006788 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 641491006789 catalytic triad [active] 641491006790 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 641491006791 binding surface 641491006792 TPR motif; other site 641491006793 TPR repeat; Region: TPR_11; pfam13414 641491006794 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 641491006795 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491006796 dimerization interface [polypeptide binding]; other site 641491006797 PAS domain S-box; Region: sensory_box; TIGR00229 641491006798 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 641491006799 putative active site [active] 641491006800 heme pocket [chemical binding]; other site 641491006801 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491006802 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491006803 metal binding site [ion binding]; metal-binding site 641491006804 active site 641491006805 I-site; other site 641491006806 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 641491006807 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 641491006808 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 641491006809 putative ligand binding site [chemical binding]; other site 641491006810 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 641491006811 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 641491006812 active site 641491006813 metal binding site [ion binding]; metal-binding site 641491006814 homotetramer interface [polypeptide binding]; other site 641491006815 VacJ like lipoprotein; Region: VacJ; cl01073 641491006816 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 641491006817 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 641491006818 mce related protein; Region: MCE; pfam02470 641491006819 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 641491006820 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 641491006821 Walker A/P-loop; other site 641491006822 ATP binding site [chemical binding]; other site 641491006823 Q-loop/lid; other site 641491006824 ABC transporter signature motif; other site 641491006825 Walker B; other site 641491006826 D-loop; other site 641491006827 H-loop/switch region; other site 641491006828 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 641491006829 Permease; Region: Permease; pfam02405 641491006830 HD domain; Region: HD_3; pfam13023 641491006831 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 641491006832 heterotetramer interface [polypeptide binding]; other site 641491006833 active site pocket [active] 641491006834 cleavage site 641491006835 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 641491006836 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 641491006837 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 641491006838 Walker A motif; other site 641491006839 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 641491006840 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 641491006841 dimer interface [polypeptide binding]; other site 641491006842 putative functional site; other site 641491006843 putative MPT binding site; other site 641491006844 PBP superfamily domain; Region: PBP_like_2; cl17296 641491006845 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 641491006846 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 641491006847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491006848 dimer interface [polypeptide binding]; other site 641491006849 conserved gate region; other site 641491006850 putative PBP binding loops; other site 641491006851 ABC-ATPase subunit interface; other site 641491006852 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 641491006853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491006854 dimer interface [polypeptide binding]; other site 641491006855 conserved gate region; other site 641491006856 putative PBP binding loops; other site 641491006857 ABC-ATPase subunit interface; other site 641491006858 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 641491006859 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491006860 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 641491006861 CoA binding domain; Region: CoA_binding_2; pfam13380 641491006862 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 641491006863 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 641491006864 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 641491006865 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 641491006866 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 641491006867 FOG: CBS domain [General function prediction only]; Region: COG0517 641491006868 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 641491006869 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 641491006870 TPR repeat; Region: TPR_11; pfam13414 641491006871 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 641491006872 binding surface 641491006873 TPR motif; other site 641491006874 TPR repeat; Region: TPR_11; pfam13414 641491006875 TPR repeat; Region: TPR_11; pfam13414 641491006876 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 641491006877 binding surface 641491006878 TPR motif; other site 641491006879 Terminase-like family; Region: Terminase_6; pfam03237 641491006880 large terminase protein; Provisional; Region: 17; PHA02533 641491006881 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 641491006882 Peptidase family U32; Region: Peptidase_U32; pfam01136 641491006883 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 641491006884 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 641491006885 active site 641491006886 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 641491006887 Uncharacterized conserved protein [Function unknown]; Region: COG2835 641491006888 Repair protein; Region: Repair_PSII; cl01535 641491006889 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 641491006890 Repair protein; Region: Repair_PSII; pfam04536 641491006891 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 641491006892 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 641491006893 hypothetical protein; Provisional; Region: PRK11568 641491006894 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 641491006895 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491006896 Zn2+ binding site [ion binding]; other site 641491006897 Mg2+ binding site [ion binding]; other site 641491006898 Lysine efflux permease [General function prediction only]; Region: COG1279 641491006899 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 641491006900 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491006901 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 641491006902 dimerization interface [polypeptide binding]; other site 641491006903 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 641491006904 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 641491006905 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 641491006906 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 641491006907 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 641491006908 Cytochrome c [Energy production and conversion]; Region: COG3258 641491006909 Cytochrome c; Region: Cytochrom_C; pfam00034 641491006910 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491006911 dimerization interface [polypeptide binding]; other site 641491006912 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491006913 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491006914 dimer interface [polypeptide binding]; other site 641491006915 putative CheW interface [polypeptide binding]; other site 641491006916 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491006917 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491006918 metal binding site [ion binding]; metal-binding site 641491006919 active site 641491006920 I-site; other site 641491006921 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 641491006922 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 641491006923 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 641491006924 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 641491006925 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 641491006926 GTP binding site; other site 641491006927 HDOD domain; Region: HDOD; pfam08668 641491006928 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491006929 Zn2+ binding site [ion binding]; other site 641491006930 Mg2+ binding site [ion binding]; other site 641491006931 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 641491006932 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 641491006933 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 641491006934 butyrate kinase; Provisional; Region: PRK03011 641491006935 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 641491006936 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 641491006937 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 641491006938 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 641491006939 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 641491006940 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 641491006941 transmembrane helices; other site 641491006942 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 641491006943 Ligand Binding Site [chemical binding]; other site 641491006944 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 641491006945 Protein export membrane protein; Region: SecD_SecF; cl14618 641491006946 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 641491006947 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 641491006948 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491006949 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 641491006950 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 641491006951 DNA binding site [nucleotide binding] 641491006952 catalytic residue [active] 641491006953 H2TH interface [polypeptide binding]; other site 641491006954 putative catalytic residues [active] 641491006955 turnover-facilitating residue; other site 641491006956 intercalation triad [nucleotide binding]; other site 641491006957 8OG recognition residue [nucleotide binding]; other site 641491006958 putative reading head residues; other site 641491006959 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 641491006960 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 641491006961 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 641491006962 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 641491006963 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 641491006964 Methyltransferase domain; Region: Methyltransf_26; pfam13659 641491006965 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 641491006966 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 641491006967 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491006968 AAA domain; Region: AAA_23; pfam13476 641491006969 Walker A/P-loop; other site 641491006970 ATP binding site [chemical binding]; other site 641491006971 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 641491006972 active site 641491006973 metal binding site [ion binding]; metal-binding site 641491006974 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 641491006975 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 641491006976 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 641491006977 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 641491006978 CoenzymeA binding site [chemical binding]; other site 641491006979 subunit interaction site [polypeptide binding]; other site 641491006980 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 641491006981 PHB binding site; other site 641491006982 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 641491006983 catalytic residues [active] 641491006984 cystathionine gamma-synthase; Provisional; Region: PRK08249 641491006985 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 641491006986 homodimer interface [polypeptide binding]; other site 641491006987 substrate-cofactor binding pocket; other site 641491006988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491006989 catalytic residue [active] 641491006990 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 641491006991 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 641491006992 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 641491006993 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 641491006994 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 641491006995 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 641491006996 NlpC/P60 family; Region: NLPC_P60; cl17555 641491006997 Helix-turn-helix domain; Region: HTH_17; cl17695 641491006998 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 641491006999 Catalytic site [active] 641491007000 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 641491007001 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 641491007002 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 641491007003 putative active site; other site 641491007004 catalytic residue [active] 641491007005 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 641491007006 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; cl00290 641491007007 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 641491007008 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 641491007009 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 641491007010 active site 641491007011 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 641491007012 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 641491007013 FeS/SAM binding site; other site 641491007014 PAS fold; Region: PAS_4; pfam08448 641491007015 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 641491007016 putative active site [active] 641491007017 heme pocket [chemical binding]; other site 641491007018 PAS domain; Region: PAS_9; pfam13426 641491007019 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491007020 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491007021 dimer interface [polypeptide binding]; other site 641491007022 phosphorylation site [posttranslational modification] 641491007023 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 641491007024 ATP binding site [chemical binding]; other site 641491007025 Mg2+ binding site [ion binding]; other site 641491007026 G-X-G motif; other site 641491007027 Response regulator receiver domain; Region: Response_reg; pfam00072 641491007028 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 641491007029 active site 641491007030 phosphorylation site [posttranslational modification] 641491007031 intermolecular recognition site; other site 641491007032 dimerization interface [polypeptide binding]; other site 641491007033 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 641491007034 putative binding surface; other site 641491007035 active site 641491007036 Response regulator receiver domain; Region: Response_reg; pfam00072 641491007037 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 641491007038 active site 641491007039 phosphorylation site [posttranslational modification] 641491007040 intermolecular recognition site; other site 641491007041 dimerization interface [polypeptide binding]; other site 641491007042 FOG: CBS domain [General function prediction only]; Region: COG0517 641491007043 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 641491007044 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 641491007045 PAS fold; Region: PAS_3; pfam08447 641491007046 putative active site [active] 641491007047 heme pocket [chemical binding]; other site 641491007048 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 641491007049 GAF domain; Region: GAF; cl17456 641491007050 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491007051 dimer interface [polypeptide binding]; other site 641491007052 phosphorylation site [posttranslational modification] 641491007053 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 641491007054 ATP binding site [chemical binding]; other site 641491007055 Mg2+ binding site [ion binding]; other site 641491007056 G-X-G motif; other site 641491007057 Response regulator receiver domain; Region: Response_reg; pfam00072 641491007058 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 641491007059 active site 641491007060 phosphorylation site [posttranslational modification] 641491007061 intermolecular recognition site; other site 641491007062 dimerization interface [polypeptide binding]; other site 641491007063 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 641491007064 TolQ protein; Region: tolQ; TIGR02796 641491007065 TolR protein; Region: tolR; TIGR02801 641491007066 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 641491007067 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 641491007068 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 641491007069 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491007070 putative active site [active] 641491007071 heme pocket [chemical binding]; other site 641491007072 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 641491007073 putative active site [active] 641491007074 heme pocket [chemical binding]; other site 641491007075 PAS domain S-box; Region: sensory_box; TIGR00229 641491007076 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 641491007077 putative active site [active] 641491007078 heme pocket [chemical binding]; other site 641491007079 PAS domain; Region: PAS_9; pfam13426 641491007080 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 641491007081 putative active site [active] 641491007082 heme pocket [chemical binding]; other site 641491007083 PAS domain S-box; Region: sensory_box; TIGR00229 641491007084 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 641491007085 putative active site [active] 641491007086 heme pocket [chemical binding]; other site 641491007087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 641491007088 Histidine kinase; Region: HisKA_3; pfam07730 641491007089 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 641491007090 ATP binding site [chemical binding]; other site 641491007091 Mg2+ binding site [ion binding]; other site 641491007092 G-X-G motif; other site 641491007093 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 641491007094 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 641491007095 active site 641491007096 phosphorylation site [posttranslational modification] 641491007097 intermolecular recognition site; other site 641491007098 dimerization interface [polypeptide binding]; other site 641491007099 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 641491007100 DNA binding residues [nucleotide binding] 641491007101 dimerization interface [polypeptide binding]; other site 641491007102 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 641491007103 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 641491007104 putative dimer interface [polypeptide binding]; other site 641491007105 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 641491007106 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 641491007107 putative dimer interface [polypeptide binding]; other site 641491007108 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 641491007109 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 641491007110 DNA-binding site [nucleotide binding]; DNA binding site 641491007111 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 641491007112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491007113 homodimer interface [polypeptide binding]; other site 641491007114 catalytic residue [active] 641491007115 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 641491007116 fumarate hydratase; Reviewed; Region: fumC; PRK00485 641491007117 Class II fumarases; Region: Fumarase_classII; cd01362 641491007118 active site 641491007119 tetramer interface [polypeptide binding]; other site 641491007120 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 641491007121 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 641491007122 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 641491007123 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 641491007124 N-acetyl-D-glucosamine binding site [chemical binding]; other site 641491007125 catalytic residue [active] 641491007126 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 641491007127 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 641491007128 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 641491007129 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 641491007130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491007131 Zn2+ binding site [ion binding]; other site 641491007132 Mg2+ binding site [ion binding]; other site 641491007133 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491007134 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491007135 substrate binding pocket [chemical binding]; other site 641491007136 membrane-bound complex binding site; other site 641491007137 hinge residues; other site 641491007138 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 641491007139 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 641491007140 active site 641491007141 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 641491007142 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 641491007143 Catalytic site; other site 641491007144 Staphylococcal nuclease homologue; Region: SNase; pfam00565 641491007145 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 641491007146 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 641491007147 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 641491007148 FMN binding site [chemical binding]; other site 641491007149 active site 641491007150 catalytic residues [active] 641491007151 substrate binding site [chemical binding]; other site 641491007152 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 641491007153 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 641491007154 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 641491007155 putative active site [active] 641491007156 heme pocket [chemical binding]; other site 641491007157 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491007158 dimer interface [polypeptide binding]; other site 641491007159 phosphorylation site [posttranslational modification] 641491007160 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 641491007161 ATP binding site [chemical binding]; other site 641491007162 Mg2+ binding site [ion binding]; other site 641491007163 G-X-G motif; other site 641491007164 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 641491007165 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 641491007166 putative active site [active] 641491007167 metal binding site [ion binding]; metal-binding site 641491007168 PAS domain S-box; Region: sensory_box; TIGR00229 641491007169 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 641491007170 putative active site [active] 641491007171 heme pocket [chemical binding]; other site 641491007172 PAS domain; Region: PAS_9; pfam13426 641491007173 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 641491007174 putative active site [active] 641491007175 heme pocket [chemical binding]; other site 641491007176 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491007177 dimer interface [polypeptide binding]; other site 641491007178 phosphorylation site [posttranslational modification] 641491007179 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 641491007180 ATP binding site [chemical binding]; other site 641491007181 Mg2+ binding site [ion binding]; other site 641491007182 G-X-G motif; other site 641491007183 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 641491007184 Response regulator receiver domain; Region: Response_reg; pfam00072 641491007185 active site 641491007186 phosphorylation site [posttranslational modification] 641491007187 intermolecular recognition site; other site 641491007188 dimerization interface [polypeptide binding]; other site 641491007189 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 641491007190 hypothetical protein; Provisional; Region: PRK10281 641491007191 hybrid cluster protein; Provisional; Region: PRK05290 641491007192 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491007193 ACS interaction site; other site 641491007194 CODH interaction site; other site 641491007195 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 641491007196 hybrid metal cluster; other site 641491007197 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 641491007198 GAF domain; Region: GAF_2; pfam13185 641491007199 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 641491007200 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491007201 Zn2+ binding site [ion binding]; other site 641491007202 Mg2+ binding site [ion binding]; other site 641491007203 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491007204 Zn2+ binding site [ion binding]; other site 641491007205 Mg2+ binding site [ion binding]; other site 641491007206 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 641491007207 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 641491007208 glutamate racemase; Provisional; Region: PRK00865 641491007209 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 641491007210 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 641491007211 ligand binding site [chemical binding]; other site 641491007212 flexible hinge region; other site 641491007213 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 641491007214 non-specific DNA interactions [nucleotide binding]; other site 641491007215 DNA binding site [nucleotide binding] 641491007216 sequence specific DNA binding site [nucleotide binding]; other site 641491007217 putative cAMP binding site [chemical binding]; other site 641491007218 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 641491007219 Sodium Bile acid symporter family; Region: SBF; cl17470 641491007220 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 641491007221 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491007222 acyl-activating enzyme (AAE) consensus motif; other site 641491007223 AMP binding site [chemical binding]; other site 641491007224 active site 641491007225 CoA binding site [chemical binding]; other site 641491007226 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 641491007227 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 641491007228 active site 641491007229 catalytic residues [active] 641491007230 DNA binding site [nucleotide binding] 641491007231 Int/Topo IB signature motif; other site 641491007232 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14336 641491007233 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 641491007234 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 641491007235 active site 641491007236 catalytic residues [active] 641491007237 Int/Topo IB signature motif; other site 641491007238 DNA binding site [nucleotide binding] 641491007239 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 641491007240 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 641491007241 non-specific DNA binding site [nucleotide binding]; other site 641491007242 salt bridge; other site 641491007243 sequence-specific DNA binding site [nucleotide binding]; other site 641491007244 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 641491007245 DNA methylase; Region: N6_N4_Mtase; pfam01555 641491007246 Protein of unknown function DUF45; Region: DUF45; pfam01863 641491007247 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 641491007248 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 641491007249 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 641491007250 ATP binding site [chemical binding]; other site 641491007251 putative Mg++ binding site [ion binding]; other site 641491007252 SEFIR domain; Region: SEFIR; pfam08357 641491007253 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 641491007254 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 641491007255 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 641491007256 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 641491007257 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 641491007258 Virulence protein [General function prediction only]; Region: COG3943 641491007259 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 641491007260 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 641491007261 HsdM N-terminal domain; Region: HsdM_N; pfam12161 641491007262 Methyltransferase domain; Region: Methyltransf_26; pfam13659 641491007263 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 641491007264 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 641491007265 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 641491007266 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 641491007267 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 641491007268 non-specific DNA binding site [nucleotide binding]; other site 641491007269 salt bridge; other site 641491007270 sequence-specific DNA binding site [nucleotide binding]; other site 641491007271 HipA N-terminal domain; Region: Couple_hipA; cl11853 641491007272 HipA-like N-terminal domain; Region: HipA_N; pfam07805 641491007273 HipA-like C-terminal domain; Region: HipA_C; pfam07804 641491007274 Predicted membrane protein [Function unknown]; Region: COG5373 641491007275 Predicted membrane protein [Function unknown]; Region: COG5373 641491007276 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 641491007277 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 641491007278 putative substrate translocation pore; other site 641491007279 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491007280 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491007281 substrate binding pocket [chemical binding]; other site 641491007282 membrane-bound complex binding site; other site 641491007283 hinge residues; other site 641491007284 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 641491007285 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 641491007286 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 641491007287 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 641491007288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491007289 Walker A/P-loop; other site 641491007290 ATP binding site [chemical binding]; other site 641491007291 Q-loop/lid; other site 641491007292 ABC transporter signature motif; other site 641491007293 Walker B; other site 641491007294 D-loop; other site 641491007295 H-loop/switch region; other site 641491007296 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 641491007297 Walker A/P-loop; other site 641491007298 ATP binding site [chemical binding]; other site 641491007299 Q-loop/lid; other site 641491007300 ABC transporter signature motif; other site 641491007301 Walker B; other site 641491007302 D-loop; other site 641491007303 H-loop/switch region; other site 641491007304 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 641491007305 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 641491007306 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 641491007307 E3 interaction surface; other site 641491007308 lipoyl attachment site [posttranslational modification]; other site 641491007309 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491007310 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491007311 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491007312 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 641491007313 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 641491007314 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 641491007315 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 641491007316 Soluble P-type ATPase [General function prediction only]; Region: COG4087 641491007317 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 641491007318 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 641491007319 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491007320 dimerization interface [polypeptide binding]; other site 641491007321 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491007322 dimer interface [polypeptide binding]; other site 641491007323 putative CheW interface [polypeptide binding]; other site 641491007324 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 641491007325 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 641491007326 zinc binding site [ion binding]; other site 641491007327 putative ligand binding site [chemical binding]; other site 641491007328 Cysteine-rich domain; Region: CCG; pfam02754 641491007329 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491007330 Cysteine-rich domain; Region: CCG; pfam02754 641491007331 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 641491007332 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 641491007333 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 641491007334 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 641491007335 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491007336 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 641491007337 putative active site [active] 641491007338 heme pocket [chemical binding]; other site 641491007339 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 641491007340 putative active site [active] 641491007341 heme pocket [chemical binding]; other site 641491007342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491007343 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491007344 dimer interface [polypeptide binding]; other site 641491007345 phosphorylation site [posttranslational modification] 641491007346 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 641491007347 ATP binding site [chemical binding]; other site 641491007348 Mg2+ binding site [ion binding]; other site 641491007349 G-X-G motif; other site 641491007350 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 641491007351 DEAD-like helicases superfamily; Region: DEXDc; smart00487 641491007352 ATP binding site [chemical binding]; other site 641491007353 Mg++ binding site [ion binding]; other site 641491007354 motif III; other site 641491007355 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 641491007356 nucleotide binding region [chemical binding]; other site 641491007357 ATP-binding site [chemical binding]; other site 641491007358 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 641491007359 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 641491007360 putative dimer interface [polypeptide binding]; other site 641491007361 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 641491007362 active site 641491007363 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 641491007364 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 641491007365 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 641491007366 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 641491007367 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 641491007368 trimer interface [polypeptide binding]; other site 641491007369 active site 641491007370 substrate binding site [chemical binding]; other site 641491007371 CoA binding site [chemical binding]; other site 641491007372 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 641491007373 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 641491007374 DNA-binding site [nucleotide binding]; DNA binding site 641491007375 UTRA domain; Region: UTRA; pfam07702 641491007376 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 641491007377 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 641491007378 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 641491007379 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 641491007380 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 641491007381 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 641491007382 Walker A/P-loop; other site 641491007383 ATP binding site [chemical binding]; other site 641491007384 Q-loop/lid; other site 641491007385 ABC transporter signature motif; other site 641491007386 Walker B; other site 641491007387 D-loop; other site 641491007388 H-loop/switch region; other site 641491007389 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 641491007390 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 641491007391 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491007392 Walker A/P-loop; other site 641491007393 ATP binding site [chemical binding]; other site 641491007394 Q-loop/lid; other site 641491007395 ABC transporter signature motif; other site 641491007396 Walker B; other site 641491007397 D-loop; other site 641491007398 H-loop/switch region; other site 641491007399 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 641491007400 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 641491007401 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 641491007402 active site 641491007403 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 641491007404 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 641491007405 Walker A/P-loop; other site 641491007406 ATP binding site [chemical binding]; other site 641491007407 Q-loop/lid; other site 641491007408 ABC transporter signature motif; other site 641491007409 Walker B; other site 641491007410 D-loop; other site 641491007411 H-loop/switch region; other site 641491007412 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 641491007413 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491007414 substrate binding pocket [chemical binding]; other site 641491007415 membrane-bound complex binding site; other site 641491007416 hinge residues; other site 641491007417 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 641491007418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491007419 dimer interface [polypeptide binding]; other site 641491007420 conserved gate region; other site 641491007421 putative PBP binding loops; other site 641491007422 ABC-ATPase subunit interface; other site 641491007423 Protein of unknown function (DUF429); Region: DUF429; cl12046 641491007424 Protein of unknown function, DUF399; Region: DUF399; pfam04187 641491007425 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 641491007426 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 641491007427 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 641491007428 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 641491007429 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491007430 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491007431 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491007432 WHG domain; Region: WHG; pfam13305 641491007433 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 641491007434 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491007435 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491007436 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 641491007437 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 641491007438 Protein of unknown function (DUF3431); Region: DUF3431; pfam11913 641491007439 Protein of unknown function DUF111; Region: DUF111; cl03398 641491007440 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 641491007441 AIR carboxylase; Region: AIRC; smart01001 641491007442 TIGR00268 family protein; Region: TIGR00268 641491007443 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 641491007444 Ligand Binding Site [chemical binding]; other site 641491007445 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 641491007446 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 641491007447 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 641491007448 MarR family; Region: MarR_2; pfam12802 641491007449 Helix-turn-helix domain; Region: HTH_17; pfam12728 641491007450 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 641491007451 6-phosphofructokinase; Region: PLN02884 641491007452 active site 641491007453 ADP/pyrophosphate binding site [chemical binding]; other site 641491007454 dimerization interface [polypeptide binding]; other site 641491007455 allosteric effector site; other site 641491007456 fructose-1,6-bisphosphate binding site; other site 641491007457 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 641491007458 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 641491007459 putative ribose interaction site [chemical binding]; other site 641491007460 putative ADP binding site [chemical binding]; other site 641491007461 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 641491007462 ParB-like nuclease domain; Region: ParBc; pfam02195 641491007463 KorB domain; Region: KorB; pfam08535 641491007464 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 641491007465 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 641491007466 P-loop; other site 641491007467 Magnesium ion binding site [ion binding]; other site 641491007468 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 641491007469 Magnesium ion binding site [ion binding]; other site 641491007470 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 641491007471 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 641491007472 putative NAD(P) binding site [chemical binding]; other site 641491007473 active site 641491007474 putative substrate binding site [chemical binding]; other site 641491007475 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 641491007476 Flavoprotein; Region: Flavoprotein; pfam02441 641491007477 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 641491007478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 641491007479 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 641491007480 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 641491007481 Ferredoxin [Energy production and conversion]; Region: COG1146 641491007482 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 641491007483 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 641491007484 dimer interface [polypeptide binding]; other site 641491007485 PYR/PP interface [polypeptide binding]; other site 641491007486 TPP binding site [chemical binding]; other site 641491007487 substrate binding site [chemical binding]; other site 641491007488 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 641491007489 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 641491007490 TPP-binding site [chemical binding]; other site 641491007491 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 641491007492 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 641491007493 Domain of unknown function DUF39; Region: DUF39; pfam01837 641491007494 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 641491007495 DnaA N-terminal domain; Region: DnaA_N; pfam11638 641491007496 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491007497 Walker A motif; other site 641491007498 ATP binding site [chemical binding]; other site 641491007499 Walker B motif; other site 641491007500 arginine finger; other site 641491007501 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 641491007502 DnaA box-binding interface [nucleotide binding]; other site 641491007503 DNA polymerase III subunit beta; Provisional; Region: PRK14947 641491007504 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 641491007505 putative DNA binding surface [nucleotide binding]; other site 641491007506 dimer interface [polypeptide binding]; other site 641491007507 beta-clamp/clamp loader binding surface; other site 641491007508 beta-clamp/translesion DNA polymerase binding surface; other site 641491007509 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 641491007510 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 641491007511 ATP binding site [chemical binding]; other site 641491007512 Mg2+ binding site [ion binding]; other site 641491007513 G-X-G motif; other site 641491007514 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 641491007515 anchoring element; other site 641491007516 dimer interface [polypeptide binding]; other site 641491007517 ATP binding site [chemical binding]; other site 641491007518 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 641491007519 active site 641491007520 putative metal-binding site [ion binding]; other site 641491007521 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 641491007522 DNA gyrase subunit A; Validated; Region: PRK05560 641491007523 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 641491007524 CAP-like domain; other site 641491007525 active site 641491007526 primary dimer interface [polypeptide binding]; other site 641491007527 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 641491007528 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 641491007529 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 641491007530 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 641491007531 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 641491007532 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 641491007533 TPR motif; other site 641491007534 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491007535 binding surface 641491007536 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491007537 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491007538 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 641491007539 catalytic core [active] 641491007540 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 641491007541 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 641491007542 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 641491007543 NAD binding site [chemical binding]; other site 641491007544 homotetramer interface [polypeptide binding]; other site 641491007545 homodimer interface [polypeptide binding]; other site 641491007546 substrate binding site [chemical binding]; other site 641491007547 active site 641491007548 Transcriptional regulator [Transcription]; Region: LysR; COG0583 641491007549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491007550 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 641491007551 dimerization interface [polypeptide binding]; other site 641491007552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 641491007553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491007554 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 641491007555 dimerization interface [polypeptide binding]; other site 641491007556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 641491007557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491007558 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 641491007559 dimerization interface [polypeptide binding]; other site 641491007560 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 641491007561 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 641491007562 FtsX-like permease family; Region: FtsX; pfam02687 641491007563 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 641491007564 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 641491007565 Walker A/P-loop; other site 641491007566 ATP binding site [chemical binding]; other site 641491007567 Q-loop/lid; other site 641491007568 ABC transporter signature motif; other site 641491007569 Walker B; other site 641491007570 D-loop; other site 641491007571 H-loop/switch region; other site 641491007572 Rubrerythrin [Energy production and conversion]; Region: COG1592 641491007573 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 641491007574 binuclear metal center [ion binding]; other site 641491007575 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 641491007576 iron binding site [ion binding]; other site 641491007577 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 641491007578 Aminotransferase class IV; Region: Aminotran_4; pfam01063 641491007579 substrate-cofactor binding pocket; other site 641491007580 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 641491007581 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 641491007582 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491007583 Walker A motif; other site 641491007584 ATP binding site [chemical binding]; other site 641491007585 Walker B motif; other site 641491007586 arginine finger; other site 641491007587 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 641491007588 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 641491007589 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491007590 dimer interface [polypeptide binding]; other site 641491007591 putative CheW interface [polypeptide binding]; other site 641491007592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491007593 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491007594 dimer interface [polypeptide binding]; other site 641491007595 phosphorylation site [posttranslational modification] 641491007596 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 641491007597 ATP binding site [chemical binding]; other site 641491007598 Mg2+ binding site [ion binding]; other site 641491007599 G-X-G motif; other site 641491007600 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 641491007601 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 641491007602 DNA binding residues [nucleotide binding] 641491007603 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 641491007604 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 641491007605 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 641491007606 MOSC domain; Region: MOSC; pfam03473 641491007607 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 641491007608 dimerization interface [polypeptide binding]; other site 641491007609 putative DNA binding site [nucleotide binding]; other site 641491007610 putative Zn2+ binding site [ion binding]; other site 641491007611 Predicted permeases [General function prediction only]; Region: COG0701 641491007612 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 641491007613 DGC domain; Region: DGC; pfam08859 641491007614 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 641491007615 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 641491007616 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 641491007617 Acyltransferase family; Region: Acyl_transf_3; pfam01757 641491007618 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491007619 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491007620 substrate binding pocket [chemical binding]; other site 641491007621 membrane-bound complex binding site; other site 641491007622 hinge residues; other site 641491007623 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 641491007624 Ligand Binding Site [chemical binding]; other site 641491007625 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 641491007626 AIR carboxylase; Region: AIRC; pfam00731 641491007627 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 641491007628 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 641491007629 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 641491007630 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 641491007631 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 641491007632 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 641491007633 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491007634 substrate binding pocket [chemical binding]; other site 641491007635 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491007636 membrane-bound complex binding site; other site 641491007637 hinge residues; other site 641491007638 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 641491007639 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 641491007640 N-acetyl-D-glucosamine binding site [chemical binding]; other site 641491007641 catalytic residue [active] 641491007642 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 641491007643 PAS fold; Region: PAS_3; pfam08447 641491007644 putative active site [active] 641491007645 heme pocket [chemical binding]; other site 641491007646 PAS domain; Region: PAS_9; pfam13426 641491007647 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 641491007648 putative active site [active] 641491007649 heme pocket [chemical binding]; other site 641491007650 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 641491007651 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 641491007652 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; cl17220 641491007653 putative DNA binding site [nucleotide binding]; other site 641491007654 putative Zn2+ binding site [ion binding]; other site 641491007655 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 641491007656 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 641491007657 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 641491007658 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 641491007659 P loop nucleotide binding; other site 641491007660 switch II; other site 641491007661 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 641491007662 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 641491007663 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 641491007664 switch II; other site 641491007665 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 641491007666 Uncharacterized conserved protein [Function unknown]; Region: COG1433 641491007667 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491007668 Predicted membrane protein [Function unknown]; Region: COG4125 641491007669 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 641491007670 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 641491007671 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 641491007672 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 641491007673 Chloramphenicol acetyltransferase; Region: CAT; smart01059 641491007674 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 641491007675 active site residue [active] 641491007676 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 641491007677 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 641491007678 catalytic residues [active] 641491007679 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 641491007680 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 641491007681 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 641491007682 4Fe-4S binding domain; Region: Fer4; pfam00037 641491007683 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cd00368 641491007684 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 641491007685 molybdopterin cofactor binding site; other site 641491007686 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 641491007687 molybdopterin cofactor binding site; other site 641491007688 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 641491007689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491007690 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491007691 dimerization interface [polypeptide binding]; other site 641491007692 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 641491007693 phosphorylation site [posttranslational modification] 641491007694 dimer interface [polypeptide binding]; other site 641491007695 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 641491007696 ATP binding site [chemical binding]; other site 641491007697 Mg2+ binding site [ion binding]; other site 641491007698 G-X-G motif; other site 641491007699 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 641491007700 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 641491007701 active site 641491007702 phosphorylation site [posttranslational modification] 641491007703 intermolecular recognition site; other site 641491007704 dimerization interface [polypeptide binding]; other site 641491007705 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 641491007706 DNA binding site [nucleotide binding] 641491007707 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 641491007708 active site 641491007709 catalytic residues [active] 641491007710 Int/Topo IB signature motif; other site 641491007711 DNA binding site [nucleotide binding] 641491007712 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 641491007713 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 641491007714 active site 641491007715 catalytic residues [active] 641491007716 DNA binding site [nucleotide binding] 641491007717 Int/Topo IB signature motif; other site 641491007718 phosphopentomutase; Provisional; Region: PRK05362 641491007719 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 641491007720 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 641491007721 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 641491007722 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 641491007723 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 641491007724 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 641491007725 intersubunit interface [polypeptide binding]; other site 641491007726 active site 641491007727 catalytic residue [active] 641491007728 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 641491007729 active site 641491007730 catalytic motif [active] 641491007731 Zn binding site [ion binding]; other site 641491007732 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491007733 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 641491007734 TM-ABC transporter signature motif; other site 641491007735 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491007736 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 641491007737 TM-ABC transporter signature motif; other site 641491007738 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 641491007739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491007740 Walker A/P-loop; other site 641491007741 ATP binding site [chemical binding]; other site 641491007742 Q-loop/lid; other site 641491007743 ABC transporter signature motif; other site 641491007744 Walker B; other site 641491007745 D-loop; other site 641491007746 H-loop/switch region; other site 641491007747 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 641491007748 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 641491007749 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 641491007750 ligand binding site [chemical binding]; other site 641491007751 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 641491007752 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 641491007753 ligand binding site [chemical binding]; other site 641491007754 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 641491007755 metal ion-dependent adhesion site (MIDAS); other site 641491007756 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 641491007757 metal ion-dependent adhesion site (MIDAS); other site 641491007758 Domain of unknown function (DUF389); Region: DUF389; pfam04087 641491007759 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 641491007760 TIR domain; Region: TIR_2; pfam13676 641491007761 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 641491007762 starch binding outer membrane protein SusD; Region: SusD; cl17845 641491007763 RyR domain; Region: RyR; pfam02026 641491007764 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 641491007765 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 641491007766 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 641491007767 4Fe-4S binding domain; Region: Fer4; cl02805 641491007768 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 641491007769 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491007770 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491007771 GAF domain; Region: GAF_3; pfam13492 641491007772 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491007773 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491007774 metal binding site [ion binding]; metal-binding site 641491007775 active site 641491007776 I-site; other site 641491007777 hypothetical protein; Region: PHA00670 641491007778 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 641491007779 putative protease; Region: PHA00666 641491007780 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 641491007781 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 641491007782 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 641491007783 ATP binding site [chemical binding]; other site 641491007784 substrate binding site [chemical binding]; other site 641491007785 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 641491007786 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 641491007787 CPxP motif; other site 641491007788 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 641491007789 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_C39A; cd02549 641491007790 putative active site [active] 641491007791 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 641491007792 TPR repeat; Region: TPR_11; pfam13414 641491007793 binding surface 641491007794 TPR motif; other site 641491007795 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 641491007796 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 641491007797 FeS/SAM binding site; other site 641491007798 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491007799 endonuclease IV; Provisional; Region: PRK01060 641491007800 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 641491007801 AP (apurinic/apyrimidinic) site pocket; other site 641491007802 DNA interaction; other site 641491007803 Metal-binding active site; metal-binding site 641491007804 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 641491007805 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 641491007806 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 641491007807 motif II; other site 641491007808 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 641491007809 Uncharacterized conserved protein [Function unknown]; Region: COG2006 641491007810 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491007811 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 641491007812 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 641491007813 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 641491007814 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 641491007815 MoaE interaction surface [polypeptide binding]; other site 641491007816 MoeB interaction surface [polypeptide binding]; other site 641491007817 thiocarboxylated glycine; other site 641491007818 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 641491007819 Flavoprotein; Region: Flavoprotein; pfam02441 641491007820 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 641491007821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 641491007822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491007823 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 641491007824 dimerization interface [polypeptide binding]; other site 641491007825 Major Facilitator Superfamily; Region: MFS_1; pfam07690 641491007826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 641491007827 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 641491007828 NAD(P) binding site [chemical binding]; other site 641491007829 active site 641491007830 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491007831 dimerization interface [polypeptide binding]; other site 641491007832 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491007833 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 641491007834 putative active site [active] 641491007835 heme pocket [chemical binding]; other site 641491007836 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491007837 dimer interface [polypeptide binding]; other site 641491007838 phosphorylation site [posttranslational modification] 641491007839 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 641491007840 ATP binding site [chemical binding]; other site 641491007841 Mg2+ binding site [ion binding]; other site 641491007842 G-X-G motif; other site 641491007843 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 641491007844 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 641491007845 Ligand Binding Site [chemical binding]; other site 641491007846 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 641491007847 Ligand Binding Site [chemical binding]; other site 641491007848 Uncharacterized conserved protein [Function unknown]; Region: COG2014 641491007849 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 641491007850 Domain of unknown function (DUF364); Region: DUF364; pfam04016 641491007851 O-methyltransferase; Region: Methyltransf_2; pfam00891 641491007852 Methyltransferase domain; Region: Methyltransf_23; pfam13489 641491007853 Periplasmic binding protein TroA_e. 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_e; cd01142 641491007854 putative ligand binding residues [chemical binding]; other site 641491007855 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 641491007856 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 641491007857 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 641491007858 Walker A/P-loop; other site 641491007859 ATP binding site [chemical binding]; other site 641491007860 Q-loop/lid; other site 641491007861 ABC transporter signature motif; other site 641491007862 Walker B; other site 641491007863 D-loop; other site 641491007864 H-loop/switch region; other site 641491007865 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 641491007866 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 641491007867 ABC-ATPase subunit interface; other site 641491007868 dimer interface [polypeptide binding]; other site 641491007869 putative PBP binding regions; other site 641491007870 Methyltransferase domain; Region: Methyltransf_31; pfam13847 641491007871 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 641491007872 S-adenosylmethionine binding site [chemical binding]; other site 641491007873 Dienelactone hydrolase family; Region: DLH; pfam01738 641491007874 peroxiredoxin; Region: AhpC; TIGR03137 641491007875 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 641491007876 dimer interface [polypeptide binding]; other site 641491007877 decamer (pentamer of dimers) interface [polypeptide binding]; other site 641491007878 catalytic triad [active] 641491007879 peroxidatic and resolving cysteines [active] 641491007880 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 641491007881 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 641491007882 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 641491007883 Peptidase M16C associated; Region: M16C_assoc; pfam08367 641491007884 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 641491007885 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 641491007886 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 641491007887 active site 641491007888 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 641491007889 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 641491007890 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 641491007891 S-adenosylmethionine binding site [chemical binding]; other site 641491007892 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 641491007893 Transcriptional regulators [Transcription]; Region: MarR; COG1846 641491007894 MarR family; Region: MarR; pfam01047 641491007895 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491007896 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 641491007897 active site 641491007898 phosphorylation site [posttranslational modification] 641491007899 intermolecular recognition site; other site 641491007900 dimerization interface [polypeptide binding]; other site 641491007901 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491007902 Walker A motif; other site 641491007903 ATP binding site [chemical binding]; other site 641491007904 Walker B motif; other site 641491007905 arginine finger; other site 641491007906 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491007907 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 641491007908 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 641491007909 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 641491007910 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 641491007911 NAD synthetase; Provisional; Region: PRK13981 641491007912 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 641491007913 multimer interface [polypeptide binding]; other site 641491007914 active site 641491007915 catalytic triad [active] 641491007916 protein interface 1 [polypeptide binding]; other site 641491007917 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 641491007918 homodimer interface [polypeptide binding]; other site 641491007919 NAD binding pocket [chemical binding]; other site 641491007920 ATP binding pocket [chemical binding]; other site 641491007921 Mg binding site [ion binding]; other site 641491007922 active-site loop [active] 641491007923 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; cl15377 641491007924 Radical SAM superfamily; Region: Radical_SAM; pfam04055 641491007925 FeS/SAM binding site; other site 641491007926 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 641491007927 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 641491007928 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 641491007929 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 641491007930 putative trimer interface [polypeptide binding]; other site 641491007931 putative active site [active] 641491007932 putative substrate binding site [chemical binding]; other site 641491007933 putative CoA binding site [chemical binding]; other site 641491007934 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 641491007935 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 641491007936 inhibitor-cofactor binding pocket; inhibition site 641491007937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491007938 catalytic residue [active] 641491007939 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 641491007940 active site 641491007941 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 641491007942 homodimer interface [polypeptide binding]; other site 641491007943 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 641491007944 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 641491007945 active site 641491007946 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 641491007947 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491007948 Methyltransferase domain; Region: Methyltransf_23; pfam13489 641491007949 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 641491007950 S-adenosylmethionine binding site [chemical binding]; other site 641491007951 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 641491007952 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 641491007953 inhibitor-cofactor binding pocket; inhibition site 641491007954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491007955 catalytic residue [active] 641491007956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 641491007957 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 641491007958 NAD(P) binding site [chemical binding]; other site 641491007959 active site 641491007960 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cd10585 641491007961 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 641491007962 ligand binding site; other site 641491007963 tetramer interface; other site 641491007964 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 641491007965 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 641491007966 active site 641491007967 metal binding site [ion binding]; metal-binding site 641491007968 homotetramer interface [polypeptide binding]; other site 641491007969 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 641491007970 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 641491007971 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 641491007972 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 641491007973 FeS/SAM binding site; other site 641491007974 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 641491007975 Methyltransferase domain; Region: Methyltransf_23; pfam13489 641491007976 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 641491007977 S-adenosylmethionine binding site [chemical binding]; other site 641491007978 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 641491007979 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 641491007980 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491007981 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 641491007982 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 641491007983 Amidohydrolase; Region: Amidohydro_4; pfam13147 641491007984 active site 641491007985 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 641491007986 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 641491007987 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 641491007988 dihydroorotase; Validated; Region: pyrC; PRK09357 641491007989 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 641491007990 active site 641491007991 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 641491007992 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491007993 Zn2+ binding site [ion binding]; other site 641491007994 Mg2+ binding site [ion binding]; other site 641491007995 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 641491007996 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 641491007997 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 641491007998 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 641491007999 homodimer interface [polypeptide binding]; other site 641491008000 NADP binding site [chemical binding]; other site 641491008001 substrate binding site [chemical binding]; other site 641491008002 enolase; Provisional; Region: eno; PRK00077 641491008003 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 641491008004 dimer interface [polypeptide binding]; other site 641491008005 metal binding site [ion binding]; metal-binding site 641491008006 substrate binding pocket [chemical binding]; other site 641491008007 PcfJ-like protein; Region: PcfJ; pfam14284 641491008008 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491008009 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 641491008010 Walker A motif; other site 641491008011 ATP binding site [chemical binding]; other site 641491008012 Walker B motif; other site 641491008013 arginine finger; other site 641491008014 HEAT repeats; Region: HEAT_2; pfam13646 641491008015 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 641491008016 metal ion-dependent adhesion site (MIDAS); other site 641491008017 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491008018 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491008019 Walker A motif; other site 641491008020 ATP binding site [chemical binding]; other site 641491008021 Walker B motif; other site 641491008022 arginine finger; other site 641491008023 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491008024 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491008025 Walker A motif; other site 641491008026 ATP binding site [chemical binding]; other site 641491008027 Walker B motif; other site 641491008028 arginine finger; other site 641491008029 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491008030 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491008031 Walker A motif; other site 641491008032 ATP binding site [chemical binding]; other site 641491008033 Walker B motif; other site 641491008034 arginine finger; other site 641491008035 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 641491008036 Part of AAA domain; Region: AAA_19; pfam13245 641491008037 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 641491008038 AAA domain; Region: AAA_12; pfam13087 641491008039 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 641491008040 putative active site [active] 641491008041 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 641491008042 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 641491008043 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 641491008044 N-acetyl-D-glucosamine binding site [chemical binding]; other site 641491008045 catalytic residue [active] 641491008046 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 641491008047 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 641491008048 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491008049 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491008050 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 641491008051 Walker A motif; other site 641491008052 ATP binding site [chemical binding]; other site 641491008053 Walker B motif; other site 641491008054 arginine finger; other site 641491008055 preprotein translocase, SecA subunit; Region: secA; TIGR00963 641491008056 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 641491008057 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 641491008058 active site 641491008059 HIGH motif; other site 641491008060 dimer interface [polypeptide binding]; other site 641491008061 KMSKS motif; other site 641491008062 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 641491008063 nucleotide binding site [chemical binding]; other site 641491008064 Type III pantothenate kinase; Region: Pan_kinase; cl17198 641491008065 HAMP domain; Region: HAMP; pfam00672 641491008066 dimerization interface [polypeptide binding]; other site 641491008067 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491008068 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491008069 dimer interface [polypeptide binding]; other site 641491008070 putative CheW interface [polypeptide binding]; other site 641491008071 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 641491008072 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 641491008073 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 641491008074 heme-binding residues [chemical binding]; other site 641491008075 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 641491008076 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 641491008077 PHP domain; Region: PHP; pfam02811 641491008078 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 641491008079 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491008080 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 641491008081 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 641491008082 Protein of unknown function, DUF606; Region: DUF606; pfam04657 641491008083 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 641491008084 UbiA prenyltransferase family; Region: UbiA; pfam01040 641491008085 Mechanosensitive ion channel; Region: MS_channel; pfam00924 641491008086 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 641491008087 active site residue [active] 641491008088 High-affinity nickel-transport protein; Region: NicO; cl00964 641491008089 Family description; Region: DsbD_2; pfam13386 641491008090 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 641491008091 MarR family; Region: MarR; pfam01047 641491008092 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 641491008093 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 641491008094 Methyltransferase domain; Region: Methyltransf_31; pfam13847 641491008095 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 641491008096 S-adenosylmethionine binding site [chemical binding]; other site 641491008097 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 641491008098 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 641491008099 inhibitor-cofactor binding pocket; inhibition site 641491008100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491008101 catalytic residue [active] 641491008102 PAS domain; Region: PAS_9; pfam13426 641491008103 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 641491008104 putative active site [active] 641491008105 heme pocket [chemical binding]; other site 641491008106 PAS domain S-box; Region: sensory_box; TIGR00229 641491008107 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 641491008108 putative active site [active] 641491008109 heme pocket [chemical binding]; other site 641491008110 PAS fold; Region: PAS_4; pfam08448 641491008111 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 641491008112 putative active site [active] 641491008113 heme pocket [chemical binding]; other site 641491008114 PAS domain S-box; Region: sensory_box; TIGR00229 641491008115 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 641491008116 putative active site [active] 641491008117 heme pocket [chemical binding]; other site 641491008118 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491008119 dimer interface [polypeptide binding]; other site 641491008120 phosphorylation site [posttranslational modification] 641491008121 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 641491008122 ATP binding site [chemical binding]; other site 641491008123 Mg2+ binding site [ion binding]; other site 641491008124 G-X-G motif; other site 641491008125 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491008126 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 641491008127 active site 641491008128 phosphorylation site [posttranslational modification] 641491008129 intermolecular recognition site; other site 641491008130 dimerization interface [polypeptide binding]; other site 641491008131 selenophosphate synthetase; Provisional; Region: PRK00943 641491008132 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 641491008133 dimerization interface [polypeptide binding]; other site 641491008134 putative ATP binding site [chemical binding]; other site 641491008135 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 641491008136 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 641491008137 CoA binding domain; Region: CoA_binding; pfam02629 641491008138 ATP synthase subunit C; Region: ATP-synt_C; cl00466 641491008139 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 641491008140 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 641491008141 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 641491008142 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 641491008143 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 641491008144 active site 641491008145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491008146 Coenzyme A binding pocket [chemical binding]; other site 641491008147 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 641491008148 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 641491008149 catalytic residues [active] 641491008150 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 641491008151 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 641491008152 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491008153 membrane-bound complex binding site; other site 641491008154 hinge residues; other site 641491008155 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 641491008156 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 641491008157 ligand binding site [chemical binding]; other site 641491008158 flexible hinge region; other site 641491008159 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 641491008160 non-specific DNA interactions [nucleotide binding]; other site 641491008161 DNA binding site [nucleotide binding] 641491008162 sequence specific DNA binding site [nucleotide binding]; other site 641491008163 putative cAMP binding site [chemical binding]; other site 641491008164 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 641491008165 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 641491008166 ACS interaction site; other site 641491008167 CODH interaction site; other site 641491008168 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 641491008169 cubane metal cluster (B-cluster) [ion binding]; other site 641491008170 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 641491008171 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 641491008172 P-loop; other site 641491008173 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 641491008174 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 641491008175 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491008176 dimerization interface [polypeptide binding]; other site 641491008177 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491008178 dimer interface [polypeptide binding]; other site 641491008179 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 641491008180 putative CheW interface [polypeptide binding]; other site 641491008181 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 641491008182 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 641491008183 DNA binding residues [nucleotide binding] 641491008184 dimerization interface [polypeptide binding]; other site 641491008185 PAS domain S-box; Region: sensory_box; TIGR00229 641491008186 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 641491008187 putative active site [active] 641491008188 heme pocket [chemical binding]; other site 641491008189 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 641491008190 PAS domain; Region: PAS_9; pfam13426 641491008191 putative active site [active] 641491008192 heme pocket [chemical binding]; other site 641491008193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491008194 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491008195 dimer interface [polypeptide binding]; other site 641491008196 phosphorylation site [posttranslational modification] 641491008197 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 641491008198 ATP binding site [chemical binding]; other site 641491008199 Mg2+ binding site [ion binding]; other site 641491008200 G-X-G motif; other site 641491008201 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 641491008202 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 641491008203 active site 641491008204 FMN binding site [chemical binding]; other site 641491008205 substrate binding site [chemical binding]; other site 641491008206 homotetramer interface [polypeptide binding]; other site 641491008207 catalytic residue [active] 641491008208 Cache domain; Region: Cache_1; pfam02743 641491008209 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491008210 dimerization interface [polypeptide binding]; other site 641491008211 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 641491008212 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491008213 dimer interface [polypeptide binding]; other site 641491008214 putative CheW interface [polypeptide binding]; other site 641491008215 Uncharacterized conserved protein [Function unknown]; Region: COG0432 641491008216 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 641491008217 spermidine synthase; Provisional; Region: PRK00811 641491008218 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 641491008219 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 641491008220 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 641491008221 RNA binding site [nucleotide binding]; other site 641491008222 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 641491008223 RNA binding site [nucleotide binding]; other site 641491008224 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 641491008225 RNA binding site [nucleotide binding]; other site 641491008226 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 641491008227 RNA binding site [nucleotide binding]; other site 641491008228 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 641491008229 RNA binding site [nucleotide binding]; other site 641491008230 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 641491008231 RNA binding site [nucleotide binding]; other site 641491008232 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 641491008233 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 641491008234 tandem repeat interface [polypeptide binding]; other site 641491008235 oligomer interface [polypeptide binding]; other site 641491008236 active site residues [active] 641491008237 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 641491008238 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 641491008239 active site 641491008240 Zn binding site [ion binding]; other site 641491008241 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 641491008242 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 641491008243 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 641491008244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 641491008245 NADH(P)-binding; Region: NAD_binding_10; pfam13460 641491008246 NAD(P) binding site [chemical binding]; other site 641491008247 active site 641491008248 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 641491008249 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491008250 Zn2+ binding site [ion binding]; other site 641491008251 Mg2+ binding site [ion binding]; other site 641491008252 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 641491008253 Cupin domain; Region: Cupin_2; cl17218 641491008254 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 641491008255 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491008256 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 641491008257 CHASE domain; Region: CHASE; cl01369 641491008258 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491008259 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 641491008260 putative active site [active] 641491008261 heme pocket [chemical binding]; other site 641491008262 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491008263 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 641491008264 putative active site [active] 641491008265 heme pocket [chemical binding]; other site 641491008266 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491008267 dimer interface [polypeptide binding]; other site 641491008268 phosphorylation site [posttranslational modification] 641491008269 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 641491008270 ATP binding site [chemical binding]; other site 641491008271 Mg2+ binding site [ion binding]; other site 641491008272 G-X-G motif; other site 641491008273 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 641491008274 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 641491008275 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 641491008276 putative FMN binding site [chemical binding]; other site 641491008277 Predicted transcriptional regulators [Transcription]; Region: COG1733 641491008278 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 641491008279 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 641491008280 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 641491008281 PhoU domain; Region: PhoU; pfam01895 641491008282 PhoU domain; Region: PhoU; pfam01895 641491008283 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 641491008284 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 641491008285 Walker A/P-loop; other site 641491008286 ATP binding site [chemical binding]; other site 641491008287 Q-loop/lid; other site 641491008288 ABC transporter signature motif; other site 641491008289 Walker B; other site 641491008290 D-loop; other site 641491008291 H-loop/switch region; other site 641491008292 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 641491008293 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491008294 CheD chemotactic sensory transduction; Region: CheD; cl00810 641491008295 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 641491008296 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491008297 putative active site [active] 641491008298 heme pocket [chemical binding]; other site 641491008299 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 641491008300 putative active site [active] 641491008301 heme pocket [chemical binding]; other site 641491008302 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491008303 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 641491008304 putative active site [active] 641491008305 heme pocket [chemical binding]; other site 641491008306 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 641491008307 ATP binding site [chemical binding]; other site 641491008308 Mg2+ binding site [ion binding]; other site 641491008309 G-X-G motif; other site 641491008310 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 641491008311 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 641491008312 active site 641491008313 phosphorylation site [posttranslational modification] 641491008314 intermolecular recognition site; other site 641491008315 dimerization interface [polypeptide binding]; other site 641491008316 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491008317 Zn2+ binding site [ion binding]; other site 641491008318 Mg2+ binding site [ion binding]; other site 641491008319 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 641491008320 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 641491008321 active site 641491008322 phosphorylation site [posttranslational modification] 641491008323 intermolecular recognition site; other site 641491008324 dimerization interface [polypeptide binding]; other site 641491008325 HD domain; Region: HD_5; pfam13487 641491008326 Response regulator receiver domain; Region: Response_reg; pfam00072 641491008327 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 641491008328 active site 641491008329 phosphorylation site [posttranslational modification] 641491008330 intermolecular recognition site; other site 641491008331 dimerization interface [polypeptide binding]; other site 641491008332 HDOD domain; Region: HDOD; pfam08668 641491008333 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491008334 Zn2+ binding site [ion binding]; other site 641491008335 Mg2+ binding site [ion binding]; other site 641491008336 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 641491008337 Major Facilitator Superfamily; Region: MFS_1; pfam07690 641491008338 Uncharacterized conserved protein [Function unknown]; Region: COG1683 641491008339 Protein of unknown function DUF45; Region: DUF45; pfam01863 641491008340 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 641491008341 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 641491008342 putative active site [active] 641491008343 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 641491008344 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 641491008345 gamma subunit interface [polypeptide binding]; other site 641491008346 epsilon subunit interface [polypeptide binding]; other site 641491008347 LBP interface [polypeptide binding]; other site 641491008348 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 641491008349 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 641491008350 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 641491008351 alpha subunit interaction interface [polypeptide binding]; other site 641491008352 Walker A motif; other site 641491008353 ATP binding site [chemical binding]; other site 641491008354 Walker B motif; other site 641491008355 inhibitor binding site; inhibition site 641491008356 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 641491008357 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 641491008358 core domain interface [polypeptide binding]; other site 641491008359 delta subunit interface [polypeptide binding]; other site 641491008360 epsilon subunit interface [polypeptide binding]; other site 641491008361 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 641491008362 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 641491008363 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 641491008364 beta subunit interaction interface [polypeptide binding]; other site 641491008365 Walker A motif; other site 641491008366 ATP binding site [chemical binding]; other site 641491008367 Walker B motif; other site 641491008368 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 641491008369 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 641491008370 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 641491008371 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 641491008372 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 641491008373 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 641491008374 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 641491008375 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 641491008376 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 641491008377 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 641491008378 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 641491008379 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 641491008380 rod shape-determining protein MreC; Provisional; Region: PRK13922 641491008381 rod shape-determining protein MreC; Region: MreC; pfam04085 641491008382 rod shape-determining protein MreB; Provisional; Region: PRK13927 641491008383 MreB and similar proteins; Region: MreB_like; cd10225 641491008384 nucleotide binding site [chemical binding]; other site 641491008385 Mg binding site [ion binding]; other site 641491008386 putative protofilament interaction site [polypeptide binding]; other site 641491008387 RodZ interaction site [polypeptide binding]; other site 641491008388 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 641491008389 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 641491008390 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 641491008391 DNA binding site [nucleotide binding] 641491008392 active site 641491008393 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 641491008394 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 641491008395 metal-binding site [ion binding] 641491008396 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 641491008397 metal-binding site [ion binding] 641491008398 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 641491008399 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 641491008400 metal-binding site [ion binding] 641491008401 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 641491008402 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 641491008403 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 641491008404 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 641491008405 ATP binding site [chemical binding]; other site 641491008406 putative Mg++ binding site [ion binding]; other site 641491008407 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 641491008408 nucleotide binding region [chemical binding]; other site 641491008409 ATP-binding site [chemical binding]; other site 641491008410 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 641491008411 HRDC domain; Region: HRDC; pfam00570 641491008412 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 641491008413 Major Facilitator Superfamily; Region: MFS_1; pfam07690 641491008414 putative substrate translocation pore; other site 641491008415 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 641491008416 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 641491008417 FAD binding pocket [chemical binding]; other site 641491008418 FAD binding motif [chemical binding]; other site 641491008419 phosphate binding motif [ion binding]; other site 641491008420 beta-alpha-beta structure motif; other site 641491008421 NAD binding pocket [chemical binding]; other site 641491008422 Iron coordination center [ion binding]; other site 641491008423 putative oxidoreductase; Provisional; Region: PRK12831 641491008424 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491008425 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 641491008426 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 641491008427 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 641491008428 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 641491008429 active site 641491008430 phosphorylation site [posttranslational modification] 641491008431 intermolecular recognition site; other site 641491008432 LytTr DNA-binding domain; Region: LytTR; smart00850 641491008433 acetyl-CoA synthetase; Provisional; Region: PRK00174 641491008434 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 641491008435 active site 641491008436 CoA binding site [chemical binding]; other site 641491008437 acyl-activating enzyme (AAE) consensus motif; other site 641491008438 AMP binding site [chemical binding]; other site 641491008439 acetate binding site [chemical binding]; other site 641491008440 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 641491008441 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 641491008442 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 641491008443 active site 641491008444 metal binding site [ion binding]; metal-binding site 641491008445 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 641491008446 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491008447 ligand binding site [chemical binding]; other site 641491008448 FecR protein; Region: FecR; pfam04773 641491008449 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 641491008450 thiosulfate reductase PhsA; Provisional; Region: PRK15488 641491008451 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 641491008452 putative [Fe4-S4] binding site [ion binding]; other site 641491008453 putative molybdopterin cofactor binding site [chemical binding]; other site 641491008454 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 641491008455 putative molybdopterin cofactor binding site; other site 641491008456 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 641491008457 4Fe-4S binding domain; Region: Fer4; pfam00037 641491008458 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 641491008459 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 641491008460 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 641491008461 active site residue [active] 641491008462 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 641491008463 active site residue [active] 641491008464 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 641491008465 active site residue [active] 641491008466 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 641491008467 active site residue [active] 641491008468 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 641491008469 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 641491008470 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 641491008471 putative homodimer interface [polypeptide binding]; other site 641491008472 putative homotetramer interface [polypeptide binding]; other site 641491008473 putative allosteric switch controlling residues; other site 641491008474 putative metal binding site [ion binding]; other site 641491008475 putative homodimer-homodimer interface [polypeptide binding]; other site 641491008476 Ca2+ binding site [ion binding]; other site 641491008477 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 641491008478 GTPase Era; Reviewed; Region: era; PRK00089 641491008479 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 641491008480 G1 box; other site 641491008481 GTP/Mg2+ binding site [chemical binding]; other site 641491008482 Switch I region; other site 641491008483 G2 box; other site 641491008484 Switch II region; other site 641491008485 G3 box; other site 641491008486 G4 box; other site 641491008487 G5 box; other site 641491008488 KH domain; Region: KH_2; pfam07650 641491008489 G-X-X-G motif; other site 641491008490 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 641491008491 3D domain; Region: 3D; cl01439 641491008492 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 641491008493 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 641491008494 catalytic triad [active] 641491008495 Peptidase family M48; Region: Peptidase_M48; pfam01435 641491008496 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 641491008497 TPR motif; other site 641491008498 Tetratricopeptide repeat; Region: TPR_16; pfam13432 641491008499 binding surface 641491008500 Uncharacterized conserved protein [Function unknown]; Region: COG2006 641491008501 Domain of unknown function (DUF362); Region: DUF362; pfam04015 641491008502 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 641491008503 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 641491008504 active site 641491008505 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 641491008506 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 641491008507 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 641491008508 active site 641491008509 dimer interface [polypeptide binding]; other site 641491008510 effector binding site; other site 641491008511 TSCPD domain; Region: TSCPD; pfam12637 641491008512 aspartate aminotransferase; Provisional; Region: PRK05764 641491008513 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 641491008514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491008515 homodimer interface [polypeptide binding]; other site 641491008516 catalytic residue [active] 641491008517 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491008518 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 641491008519 active site 641491008520 phosphorylation site [posttranslational modification] 641491008521 intermolecular recognition site; other site 641491008522 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491008523 Walker A motif; other site 641491008524 ATP binding site [chemical binding]; other site 641491008525 Walker B motif; other site 641491008526 arginine finger; other site 641491008527 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491008528 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 641491008529 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 641491008530 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491008531 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491008532 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 641491008533 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 641491008534 active site 641491008535 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 641491008536 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 641491008537 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 641491008538 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 641491008539 Walker A/P-loop; other site 641491008540 ATP binding site [chemical binding]; other site 641491008541 Q-loop/lid; other site 641491008542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491008543 ABC transporter signature motif; other site 641491008544 Walker B; other site 641491008545 D-loop; other site 641491008546 H-loop/switch region; other site 641491008547 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 641491008548 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491008549 dimerization interface [polypeptide binding]; other site 641491008550 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 641491008551 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 641491008552 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 641491008553 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 641491008554 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 641491008555 anti sigma factor interaction site; other site 641491008556 regulatory phosphorylation site [posttranslational modification]; other site 641491008557 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 641491008558 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 641491008559 Catalytic site [active] 641491008560 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 641491008561 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 641491008562 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 641491008563 DctM-like transporters; Region: DctM; pfam06808 641491008564 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 641491008565 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 641491008566 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 641491008567 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 641491008568 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 641491008569 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 641491008570 active site 641491008571 ADP/pyrophosphate binding site [chemical binding]; other site 641491008572 dimerization interface [polypeptide binding]; other site 641491008573 allosteric effector site; other site 641491008574 fructose-1,6-bisphosphate binding site; other site 641491008575 Peptidase family M48; Region: Peptidase_M48; cl12018 641491008576 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 641491008577 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 641491008578 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 641491008579 protein binding site [polypeptide binding]; other site 641491008580 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 641491008581 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 641491008582 S-adenosylmethionine binding site [chemical binding]; other site 641491008583 periplasmic folding chaperone; Provisional; Region: PRK10788 641491008584 SurA N-terminal domain; Region: SurA_N_3; cl07813 641491008585 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 641491008586 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 641491008587 aconitate hydratase; Validated; Region: PRK07229 641491008588 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 641491008589 substrate binding site [chemical binding]; other site 641491008590 ligand binding site [chemical binding]; other site 641491008591 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 641491008592 substrate binding site [chemical binding]; other site 641491008593 Chorismate mutase type II; Region: CM_2; smart00830 641491008594 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 641491008595 putative active site [active] 641491008596 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 641491008597 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 641491008598 EamA-like transporter family; Region: EamA; pfam00892 641491008599 EamA-like transporter family; Region: EamA; pfam00892 641491008600 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 641491008601 TPR motif; other site 641491008602 TPR repeat; Region: TPR_11; pfam13414 641491008603 binding surface 641491008604 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 641491008605 ATP-sulfurylase; Region: ATPS; cd00517 641491008606 active site 641491008607 HXXH motif; other site 641491008608 flexible loop; other site 641491008609 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 641491008610 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491008611 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 641491008612 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 641491008613 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 641491008614 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 641491008615 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491008616 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 641491008617 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 641491008618 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 641491008619 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 641491008620 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 641491008621 malonic semialdehyde reductase; Provisional; Region: PRK10538 641491008622 putative NAD(P) binding site [chemical binding]; other site 641491008623 homotetramer interface [polypeptide binding]; other site 641491008624 homodimer interface [polypeptide binding]; other site 641491008625 active site 641491008626 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 641491008627 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 641491008628 Walker A/P-loop; other site 641491008629 ATP binding site [chemical binding]; other site 641491008630 Q-loop/lid; other site 641491008631 ABC transporter signature motif; other site 641491008632 Walker B; other site 641491008633 D-loop; other site 641491008634 H-loop/switch region; other site 641491008635 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 641491008636 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 641491008637 dimerization interface [polypeptide binding]; other site 641491008638 ligand binding site [chemical binding]; other site 641491008639 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491008640 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 641491008641 TM-ABC transporter signature motif; other site 641491008642 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 641491008643 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 641491008644 TM-ABC transporter signature motif; other site 641491008645 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 641491008646 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 641491008647 Walker A/P-loop; other site 641491008648 ATP binding site [chemical binding]; other site 641491008649 Q-loop/lid; other site 641491008650 ABC transporter signature motif; other site 641491008651 Walker B; other site 641491008652 D-loop; other site 641491008653 H-loop/switch region; other site 641491008654 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 641491008655 Ligand Binding Site [chemical binding]; other site 641491008656 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 641491008657 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 641491008658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491008659 homodimer interface [polypeptide binding]; other site 641491008660 catalytic residue [active] 641491008661 cytidylate kinase; Provisional; Region: cmk; PRK00023 641491008662 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 641491008663 CMP-binding site; other site 641491008664 The sites determining sugar specificity; other site 641491008665 seryl-tRNA synthetase; Provisional; Region: PRK05431 641491008666 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 641491008667 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 641491008668 dimer interface [polypeptide binding]; other site 641491008669 active site 641491008670 motif 1; other site 641491008671 motif 2; other site 641491008672 motif 3; other site 641491008673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 641491008674 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 641491008675 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 641491008676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491008677 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 641491008678 DNA binding site [nucleotide binding] 641491008679 active site 641491008680 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 641491008681 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491008682 dimer interface [polypeptide binding]; other site 641491008683 phosphorylation site [posttranslational modification] 641491008684 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 641491008685 ATP binding site [chemical binding]; other site 641491008686 Mg2+ binding site [ion binding]; other site 641491008687 G-X-G motif; other site 641491008688 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 641491008689 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 641491008690 dimer interface [polypeptide binding]; other site 641491008691 active site 641491008692 DNA repair protein RadA; Provisional; Region: PRK11823 641491008693 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 641491008694 Walker A motif; other site 641491008695 ATP binding site [chemical binding]; other site 641491008696 Walker B motif; other site 641491008697 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 641491008698 AzlC protein; Region: AzlC; cl00570 641491008699 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 641491008700 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 641491008701 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 641491008702 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 641491008703 putative NAD(P) binding site [chemical binding]; other site 641491008704 putative active site [active] 641491008705 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 641491008706 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 641491008707 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 641491008708 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 641491008709 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 641491008710 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 641491008711 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 641491008712 inhibitor-cofactor binding pocket; inhibition site 641491008713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491008714 catalytic residue [active] 641491008715 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 641491008716 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 641491008717 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 641491008718 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 641491008719 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 641491008720 active site 641491008721 SAM binding site [chemical binding]; other site 641491008722 homodimer interface [polypeptide binding]; other site 641491008723 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491008724 heme-binding residues [chemical binding]; other site 641491008725 Uncharacterized conserved protein [Function unknown]; Region: COG0397 641491008726 hypothetical protein; Validated; Region: PRK00029 641491008727 Phosphotransferase enzyme family; Region: APH; pfam01636 641491008728 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 641491008729 active site 641491008730 ATP binding site [chemical binding]; other site 641491008731 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 641491008732 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 641491008733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491008734 homodimer interface [polypeptide binding]; other site 641491008735 catalytic residue [active] 641491008736 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491008737 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 641491008738 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 641491008739 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 641491008740 TrkA-N domain; Region: TrkA_N; pfam02254 641491008741 Ion channel; Region: Ion_trans_2; pfam07885 641491008742 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 641491008743 signal recognition particle protein; Provisional; Region: PRK10867 641491008744 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 641491008745 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 641491008746 P loop; other site 641491008747 GTP binding site [chemical binding]; other site 641491008748 Signal peptide binding domain; Region: SRP_SPB; pfam02978 641491008749 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 641491008750 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 641491008751 hypothetical protein; Provisional; Region: PRK00468 641491008752 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 641491008753 RimM N-terminal domain; Region: RimM; pfam01782 641491008754 PRC-barrel domain; Region: PRC; pfam05239 641491008755 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 641491008756 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 641491008757 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 641491008758 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 641491008759 RNA/DNA hybrid binding site [nucleotide binding]; other site 641491008760 active site 641491008761 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 641491008762 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 641491008763 SmpB-tmRNA interface; other site 641491008764 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 641491008765 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 641491008766 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 641491008767 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 641491008768 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 641491008769 dimerization domain swap beta strand [polypeptide binding]; other site 641491008770 regulatory protein interface [polypeptide binding]; other site 641491008771 active site 641491008772 regulatory phosphorylation site [posttranslational modification]; other site 641491008773 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 641491008774 BioY family; Region: BioY; pfam02632 641491008775 BioY family; Region: BioY; pfam02632 641491008776 biotin synthase; Region: bioB; TIGR00433 641491008777 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 641491008778 FeS/SAM binding site; other site 641491008779 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 641491008780 Predicted methyltransferases [General function prediction only]; Region: COG0313 641491008781 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 641491008782 putative SAM binding site [chemical binding]; other site 641491008783 putative homodimer interface [polypeptide binding]; other site 641491008784 hypothetical protein; Reviewed; Region: PRK12497 641491008785 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 641491008786 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 641491008787 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 641491008788 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 641491008789 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 641491008790 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 641491008791 Walker A/P-loop; other site 641491008792 ATP binding site [chemical binding]; other site 641491008793 Q-loop/lid; other site 641491008794 ABC transporter signature motif; other site 641491008795 Walker B; other site 641491008796 D-loop; other site 641491008797 H-loop/switch region; other site 641491008798 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008799 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 641491008800 binding surface 641491008801 TPR motif; other site 641491008802 TPR repeat; Region: TPR_11; pfam13414 641491008803 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 641491008804 non-specific DNA binding site [nucleotide binding]; other site 641491008805 salt bridge; other site 641491008806 sequence-specific DNA binding site [nucleotide binding]; other site 641491008807 Cupin domain; Region: Cupin_2; pfam07883 641491008808 AMP-binding domain protein; Validated; Region: PRK08315 641491008809 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491008810 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 641491008811 acyl-activating enzyme (AAE) consensus motif; other site 641491008812 putative AMP binding site [chemical binding]; other site 641491008813 putative active site [active] 641491008814 putative CoA binding site [chemical binding]; other site 641491008815 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 641491008816 non-specific DNA binding site [nucleotide binding]; other site 641491008817 salt bridge; other site 641491008818 sequence-specific DNA binding site [nucleotide binding]; other site 641491008819 Cupin domain; Region: Cupin_2; pfam07883 641491008820 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491008821 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 641491008822 acyl-activating enzyme (AAE) consensus motif; other site 641491008823 AMP binding site [chemical binding]; other site 641491008824 active site 641491008825 CoA binding site [chemical binding]; other site 641491008826 manganese transport protein MntH; Reviewed; Region: PRK00701 641491008827 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 641491008828 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 641491008829 Ligand Binding Site [chemical binding]; other site 641491008830 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 641491008831 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 641491008832 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 641491008833 active site 641491008834 metal binding site [ion binding]; metal-binding site 641491008835 Archaeal ATPase; Region: Arch_ATPase; pfam01637 641491008836 AAA domain; Region: AAA_32; pfam13654 641491008837 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 641491008838 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 641491008839 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 641491008840 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 641491008841 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 641491008842 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 641491008843 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 641491008844 flagellar motor switch protein; Validated; Region: fliN; PRK05698 641491008845 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 641491008846 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 641491008847 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 641491008848 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491008849 ligand binding site [chemical binding]; other site 641491008850 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 641491008851 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 641491008852 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491008853 ligand binding site [chemical binding]; other site 641491008854 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 641491008855 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 641491008856 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 641491008857 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 641491008858 catalytic residue [active] 641491008859 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 641491008860 DNA topoisomerase I; Validated; Region: PRK06599 641491008861 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 641491008862 active site 641491008863 interdomain interaction site; other site 641491008864 putative metal-binding site [ion binding]; other site 641491008865 nucleotide binding site [chemical binding]; other site 641491008866 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 641491008867 domain I; other site 641491008868 DNA binding groove [nucleotide binding] 641491008869 phosphate binding site [ion binding]; other site 641491008870 domain II; other site 641491008871 domain III; other site 641491008872 nucleotide binding site [chemical binding]; other site 641491008873 catalytic site [active] 641491008874 domain IV; other site 641491008875 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 641491008876 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 641491008877 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 641491008878 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 641491008879 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 641491008880 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 641491008881 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 641491008882 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 641491008883 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 641491008884 active site 641491008885 HIGH motif; other site 641491008886 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 641491008887 KMSKS motif; other site 641491008888 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 641491008889 tRNA binding surface [nucleotide binding]; other site 641491008890 anticodon binding site; other site 641491008891 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 641491008892 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 641491008893 substrate binding site; other site 641491008894 dimer interface; other site 641491008895 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 641491008896 homotrimer interaction site [polypeptide binding]; other site 641491008897 zinc binding site [ion binding]; other site 641491008898 CDP-binding sites; other site 641491008899 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 641491008900 Putative zinc ribbon domain; Region: DUF164; pfam02591 641491008901 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 641491008902 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 641491008903 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_5; cd13145 641491008904 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 641491008905 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 641491008906 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491008907 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 641491008908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 641491008909 Proline dehydrogenase; Region: Pro_dh; cl03282 641491008910 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 641491008911 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 641491008912 DRTGG domain; Region: DRTGG; pfam07085 641491008913 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 641491008914 CoA binding domain; Region: CoA_binding_2; pfam13380 641491008915 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 641491008916 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 641491008917 ribonuclease III; Reviewed; Region: rnc; PRK00102 641491008918 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 641491008919 dimerization interface [polypeptide binding]; other site 641491008920 active site 641491008921 metal binding site [ion binding]; metal-binding site 641491008922 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 641491008923 dsRNA binding site [nucleotide binding]; other site 641491008924 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 641491008925 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 641491008926 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 641491008927 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 641491008928 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 641491008929 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 641491008930 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 641491008931 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 641491008932 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 641491008933 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 641491008934 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 641491008935 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 641491008936 putative active site [active] 641491008937 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 641491008938 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 641491008939 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 641491008940 Cache domain; Region: Cache_1; pfam02743 641491008941 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491008942 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491008943 metal binding site [ion binding]; metal-binding site 641491008944 active site 641491008945 I-site; other site 641491008946 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 641491008947 putative active site [active] 641491008948 dimerization interface [polypeptide binding]; other site 641491008949 putative tRNAtyr binding site [nucleotide binding]; other site 641491008950 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 641491008951 active site 641491008952 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 641491008953 homodimer interface [polypeptide binding]; other site 641491008954 chemical substrate binding site [chemical binding]; other site 641491008955 oligomer interface [polypeptide binding]; other site 641491008956 metal binding site [ion binding]; metal-binding site 641491008957 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 641491008958 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 641491008959 active site 641491008960 PHP Thumb interface [polypeptide binding]; other site 641491008961 metal binding site [ion binding]; metal-binding site 641491008962 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 641491008963 generic binding surface II; other site 641491008964 generic binding surface I; other site 641491008965 AAA ATPase domain; Region: AAA_16; pfam13191 641491008966 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008967 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008968 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 641491008969 binding surface 641491008970 TPR motif; other site 641491008971 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008972 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008973 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 641491008974 binding surface 641491008975 TPR motif; other site 641491008976 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008977 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 641491008978 binding surface 641491008979 TPR motif; other site 641491008980 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008981 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008982 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 641491008983 TPR motif; other site 641491008984 binding surface 641491008985 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008986 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008987 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491008988 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 641491008989 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 641491008990 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 641491008991 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 641491008992 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 641491008993 Amidinotransferase; Region: Amidinotransf; pfam02274 641491008994 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 641491008995 SdiA-regulated; Region: SdiA-regulated; cd09971 641491008996 AsmA family; Region: AsmA; pfam05170 641491008997 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 641491008998 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 641491008999 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 641491009000 PGAP1-like protein; Region: PGAP1; pfam07819 641491009001 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 641491009002 HEAT repeats; Region: HEAT_2; pfam13646 641491009003 HEAT repeats; Region: HEAT_2; pfam13646 641491009004 HEAT repeats; Region: HEAT_2; pfam13646 641491009005 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 641491009006 Response regulator receiver domain; Region: Response_reg; pfam00072 641491009007 active site 641491009008 phosphorylation site [posttranslational modification] 641491009009 intermolecular recognition site; other site 641491009010 dimerization interface [polypeptide binding]; other site 641491009011 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 641491009012 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 641491009013 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 641491009014 Membrane transport protein; Region: Mem_trans; cl09117 641491009015 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; cl10015 641491009016 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 641491009017 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 641491009018 putative Zn2+ binding site [ion binding]; other site 641491009019 putative DNA binding site [nucleotide binding]; other site 641491009020 Isochorismatase family; Region: Isochorismatase; pfam00857 641491009021 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 641491009022 catalytic triad [active] 641491009023 conserved cis-peptide bond; other site 641491009024 Protein of unknown function (DUF554); Region: DUF554; pfam04474 641491009025 LrgB-like family; Region: LrgB; pfam04172 641491009026 LrgA family; Region: LrgA; pfam03788 641491009027 Transcriptional regulator [Transcription]; Region: LysR; COG0583 641491009028 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491009029 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 641491009030 putative dimerization interface [polypeptide binding]; other site 641491009031 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 641491009032 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 641491009033 NAD binding site [chemical binding]; other site 641491009034 catalytic residues [active] 641491009035 substrate binding site [chemical binding]; other site 641491009036 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 641491009037 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 641491009038 heterodimer interface [polypeptide binding]; other site 641491009039 active site 641491009040 FMN binding site [chemical binding]; other site 641491009041 homodimer interface [polypeptide binding]; other site 641491009042 substrate binding site [chemical binding]; other site 641491009043 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 641491009044 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 641491009045 FAD binding pocket [chemical binding]; other site 641491009046 FAD binding motif [chemical binding]; other site 641491009047 phosphate binding motif [ion binding]; other site 641491009048 beta-alpha-beta structure motif; other site 641491009049 NAD binding pocket [chemical binding]; other site 641491009050 Iron coordination center [ion binding]; other site 641491009051 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 641491009052 active site 641491009053 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 641491009054 active site 641491009055 substrate binding pocket [chemical binding]; other site 641491009056 dimer interface [polypeptide binding]; other site 641491009057 allantoate amidohydrolase; Reviewed; Region: PRK09290 641491009058 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 641491009059 active site 641491009060 metal binding site [ion binding]; metal-binding site 641491009061 dimer interface [polypeptide binding]; other site 641491009062 DctM-like transporters; Region: DctM; pfam06808 641491009063 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 641491009064 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 641491009065 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 641491009066 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 641491009067 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 641491009068 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 641491009069 non-specific DNA binding site [nucleotide binding]; other site 641491009070 salt bridge; other site 641491009071 sequence-specific DNA binding site [nucleotide binding]; other site 641491009072 Uncharacterized conserved protein [Function unknown]; Region: COG1433 641491009073 Domain of unknown function (DUF336); Region: DUF336; pfam03928 641491009074 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 641491009075 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 641491009076 putative metal binding residues [ion binding]; other site 641491009077 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 641491009078 metal binding site 2 [ion binding]; metal-binding site 641491009079 putative DNA binding helix; other site 641491009080 metal binding site 1 [ion binding]; metal-binding site 641491009081 dimer interface [polypeptide binding]; other site 641491009082 structural Zn2+ binding site [ion binding]; other site 641491009083 Flagellin N-methylase; Region: FliB; cl00497 641491009084 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 641491009085 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 641491009086 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 641491009087 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 641491009088 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 641491009089 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 641491009090 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 641491009091 catalytic triad [active] 641491009092 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 641491009093 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 641491009094 inhibitor-cofactor binding pocket; inhibition site 641491009095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491009096 catalytic residue [active] 641491009097 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 641491009098 substrate binding site [chemical binding]; other site 641491009099 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 641491009100 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 641491009101 Walker A/P-loop; other site 641491009102 ATP binding site [chemical binding]; other site 641491009103 Q-loop/lid; other site 641491009104 ABC transporter signature motif; other site 641491009105 Walker B; other site 641491009106 D-loop; other site 641491009107 H-loop/switch region; other site 641491009108 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 641491009109 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 641491009110 Walker A/P-loop; other site 641491009111 ATP binding site [chemical binding]; other site 641491009112 Q-loop/lid; other site 641491009113 ABC transporter signature motif; other site 641491009114 Walker B; other site 641491009115 D-loop; other site 641491009116 H-loop/switch region; other site 641491009117 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 641491009118 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 641491009119 TM-ABC transporter signature motif; other site 641491009120 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491009121 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 641491009122 TM-ABC transporter signature motif; other site 641491009123 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 641491009124 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 641491009125 putative ligand binding site [chemical binding]; other site 641491009126 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 641491009127 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 641491009128 acyl-activating enzyme (AAE) consensus motif; other site 641491009129 putative AMP binding site [chemical binding]; other site 641491009130 putative active site [active] 641491009131 putative CoA binding site [chemical binding]; other site 641491009132 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 641491009133 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 641491009134 NeuB family; Region: NeuB; pfam03102 641491009135 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 641491009136 NeuB binding interface [polypeptide binding]; other site 641491009137 putative substrate binding site [chemical binding]; other site 641491009138 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 641491009139 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491009140 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 641491009141 active site 641491009142 phosphorylation site [posttranslational modification] 641491009143 intermolecular recognition site; other site 641491009144 dimerization interface [polypeptide binding]; other site 641491009145 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 641491009146 Right handed beta helix region; Region: Beta_helix; pfam13229 641491009147 Right handed beta helix region; Region: Beta_helix; pfam13229 641491009148 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 641491009149 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 641491009150 ring oligomerisation interface [polypeptide binding]; other site 641491009151 ATP/Mg binding site [chemical binding]; other site 641491009152 stacking interactions; other site 641491009153 hinge regions; other site 641491009154 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 641491009155 oligomerisation interface [polypeptide binding]; other site 641491009156 mobile loop; other site 641491009157 roof hairpin; other site 641491009158 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 641491009159 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 641491009160 active site 641491009161 homotetramer interface [polypeptide binding]; other site 641491009162 Domain of unknown function (DUF697); Region: DUF697; cl12064 641491009163 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 641491009164 NlpC/P60 family; Region: NLPC_P60; pfam00877 641491009165 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 641491009166 BON domain; Region: BON; pfam04972 641491009167 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 641491009168 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 641491009169 RNA binding surface [nucleotide binding]; other site 641491009170 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 641491009171 active site 641491009172 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 641491009173 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 641491009174 Dicarboxylate transport; Region: DctA-YdbH; cl14674 641491009175 DctM-like transporters; Region: DctM; pfam06808 641491009176 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 641491009177 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 641491009178 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 641491009179 Family description; Region: VCBS; pfam13517 641491009180 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 641491009181 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 641491009182 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 641491009183 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491009184 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 641491009185 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 641491009186 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 641491009187 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 641491009188 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 641491009189 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 641491009190 FeS/SAM binding site; other site 641491009191 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 641491009192 putative MPT binding site; other site 641491009193 GTPase RsgA; Reviewed; Region: PRK01889 641491009194 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 641491009195 RNA binding site [nucleotide binding]; other site 641491009196 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 641491009197 GTPase/Zn-binding domain interface [polypeptide binding]; other site 641491009198 GTP/Mg2+ binding site [chemical binding]; other site 641491009199 G4 box; other site 641491009200 G5 box; other site 641491009201 G1 box; other site 641491009202 Switch I region; other site 641491009203 G2 box; other site 641491009204 G3 box; other site 641491009205 Switch II region; other site 641491009206 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 641491009207 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491009208 substrate binding pocket [chemical binding]; other site 641491009209 membrane-bound complex binding site; other site 641491009210 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 641491009211 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491009212 dimer interface [polypeptide binding]; other site 641491009213 conserved gate region; other site 641491009214 putative PBP binding loops; other site 641491009215 ABC-ATPase subunit interface; other site 641491009216 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 641491009217 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 641491009218 Walker A/P-loop; other site 641491009219 ATP binding site [chemical binding]; other site 641491009220 Q-loop/lid; other site 641491009221 ABC transporter signature motif; other site 641491009222 Walker B; other site 641491009223 D-loop; other site 641491009224 H-loop/switch region; other site 641491009225 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 641491009226 Protein export membrane protein; Region: SecD_SecF; cl14618 641491009227 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 641491009228 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 641491009229 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491009230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491009231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491009232 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 641491009233 Domain of unknown function DUF87; Region: DUF87; pfam01935 641491009234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 641491009235 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 641491009236 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 641491009237 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 641491009238 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 641491009239 dimer interface [polypeptide binding]; other site 641491009240 PYR/PP interface [polypeptide binding]; other site 641491009241 TPP binding site [chemical binding]; other site 641491009242 substrate binding site [chemical binding]; other site 641491009243 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 641491009244 Domain of unknown function; Region: EKR; pfam10371 641491009245 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491009246 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 641491009247 TPP-binding site [chemical binding]; other site 641491009248 dimer interface [polypeptide binding]; other site 641491009249 phosphate acetyltransferase; Reviewed; Region: PRK05632 641491009250 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 641491009251 DRTGG domain; Region: DRTGG; pfam07085 641491009252 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 641491009253 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 641491009254 4Fe-4S binding domain; Region: Fer4; pfam00037 641491009255 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 641491009256 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 641491009257 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 641491009258 electron transport complex RsxE subunit; Provisional; Region: PRK12405 641491009259 FMN-binding domain; Region: FMN_bind; cl01081 641491009260 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 641491009261 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 641491009262 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 641491009263 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 641491009264 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491009265 heme-binding residues [chemical binding]; other site 641491009266 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491009267 heme-binding residues [chemical binding]; other site 641491009268 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491009269 heme-binding residues [chemical binding]; other site 641491009270 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 641491009271 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 641491009272 transmembrane helices; other site 641491009273 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 641491009274 Malic enzyme, N-terminal domain; Region: malic; pfam00390 641491009275 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 641491009276 putative NAD(P) binding site [chemical binding]; other site 641491009277 Fumarase C-terminus; Region: Fumerase_C; cl00795 641491009278 fumarate hydratase; Provisional; Region: PRK06246 641491009279 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 641491009280 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 641491009281 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 641491009282 L-aspartate oxidase; Provisional; Region: PRK06175 641491009283 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 641491009284 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; 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:quinone...; Region: QFR_TypeB_TM; cd00581 641491009285 Iron-sulfur protein interface; other site 641491009286 proximal heme binding site [chemical binding]; other site 641491009287 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 641491009288 distal heme binding site [chemical binding]; other site 641491009289 dimer interface [polypeptide binding]; other site 641491009290 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491009291 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 641491009292 active site 641491009293 phosphorylation site [posttranslational modification] 641491009294 intermolecular recognition site; other site 641491009295 dimerization interface [polypeptide binding]; other site 641491009296 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491009297 Walker A motif; other site 641491009298 ATP binding site [chemical binding]; other site 641491009299 Walker B motif; other site 641491009300 arginine finger; other site 641491009301 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491009302 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 641491009303 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491009304 dimer interface [polypeptide binding]; other site 641491009305 phosphorylation site [posttranslational modification] 641491009306 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 641491009307 ATP binding site [chemical binding]; other site 641491009308 Mg2+ binding site [ion binding]; other site 641491009309 G-X-G motif; other site 641491009310 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 641491009311 putative substrate translocation pore; other site 641491009312 Major Facilitator Superfamily; Region: MFS_1; pfam07690 641491009313 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 641491009314 ApbE family; Region: ApbE; pfam02424 641491009315 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 641491009316 ATP-NAD kinase; Region: NAD_kinase; pfam01513 641491009317 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 641491009318 active site clefts [active] 641491009319 zinc binding site [ion binding]; other site 641491009320 dimer interface [polypeptide binding]; other site 641491009321 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 641491009322 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 641491009323 FAD binding domain; Region: FAD_binding_4; pfam01565 641491009324 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491009325 YceI-like domain; Region: YceI; smart00867 641491009326 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 641491009327 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 641491009328 oligomer interface [polypeptide binding]; other site 641491009329 metal binding site [ion binding]; metal-binding site 641491009330 metal binding site [ion binding]; metal-binding site 641491009331 Cl binding site [ion binding]; other site 641491009332 aspartate ring; other site 641491009333 basic sphincter; other site 641491009334 putative hydrophobic gate; other site 641491009335 periplasmic entrance; other site 641491009336 Mechanosensitive ion channel; Region: MS_channel; pfam00924 641491009337 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 641491009338 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 641491009339 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 641491009340 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 641491009341 putative active site [active] 641491009342 Zn binding site [ion binding]; other site 641491009343 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 641491009344 RimK-like ATP-grasp domain; Region: RimK; pfam08443 641491009345 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 641491009346 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 641491009347 TrkA-C domain; Region: TrkA_C; pfam02080 641491009348 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 641491009349 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 641491009350 PAS domain S-box; Region: sensory_box; TIGR00229 641491009351 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 641491009352 putative active site [active] 641491009353 heme pocket [chemical binding]; other site 641491009354 PAS fold; Region: PAS_3; pfam08447 641491009355 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 641491009356 putative active site [active] 641491009357 heme pocket [chemical binding]; other site 641491009358 PAS domain S-box; Region: sensory_box; TIGR00229 641491009359 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 641491009360 putative active site [active] 641491009361 heme pocket [chemical binding]; other site 641491009362 PAS domain S-box; Region: sensory_box; TIGR00229 641491009363 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 641491009364 putative active site [active] 641491009365 heme pocket [chemical binding]; other site 641491009366 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491009367 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 641491009368 putative active site [active] 641491009369 heme pocket [chemical binding]; other site 641491009370 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491009371 dimer interface [polypeptide binding]; other site 641491009372 phosphorylation site [posttranslational modification] 641491009373 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 641491009374 ATP binding site [chemical binding]; other site 641491009375 Mg2+ binding site [ion binding]; other site 641491009376 G-X-G motif; other site 641491009377 Response regulator receiver domain; Region: Response_reg; pfam00072 641491009378 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 641491009379 active site 641491009380 phosphorylation site [posttranslational modification] 641491009381 intermolecular recognition site; other site 641491009382 dimerization interface [polypeptide binding]; other site 641491009383 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 641491009384 TMAO reductase system periplasmic protein TorT; Region: TMAO_TorT; TIGR02955 641491009385 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 641491009386 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 641491009387 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491009388 dimerization interface [polypeptide binding]; other site 641491009389 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491009390 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491009391 dimer interface [polypeptide binding]; other site 641491009392 phosphorylation site [posttranslational modification] 641491009393 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 641491009394 ATP binding site [chemical binding]; other site 641491009395 Mg2+ binding site [ion binding]; other site 641491009396 G-X-G motif; other site 641491009397 Response regulator receiver domain; Region: Response_reg; pfam00072 641491009398 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 641491009399 active site 641491009400 phosphorylation site [posttranslational modification] 641491009401 intermolecular recognition site; other site 641491009402 dimerization interface [polypeptide binding]; other site 641491009403 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491009404 dimer interface [polypeptide binding]; other site 641491009405 phosphorylation site [posttranslational modification] 641491009406 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 641491009407 ATP binding site [chemical binding]; other site 641491009408 Mg2+ binding site [ion binding]; other site 641491009409 G-X-G motif; other site 641491009410 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491009411 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 641491009412 TM-ABC transporter signature motif; other site 641491009413 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 641491009414 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491009415 TM-ABC transporter signature motif; other site 641491009416 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 641491009417 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 641491009418 Walker A/P-loop; other site 641491009419 ATP binding site [chemical binding]; other site 641491009420 Q-loop/lid; other site 641491009421 ABC transporter signature motif; other site 641491009422 Walker B; other site 641491009423 D-loop; other site 641491009424 H-loop/switch region; other site 641491009425 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 641491009426 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 641491009427 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 641491009428 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 641491009429 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 641491009430 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 641491009431 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 641491009432 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 641491009433 active site 641491009434 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 641491009435 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 641491009436 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 641491009437 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 641491009438 Mechanosensitive ion channel; Region: MS_channel; pfam00924 641491009439 Caspase domain; Region: Peptidase_C14; pfam00656 641491009440 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 641491009441 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 641491009442 Caspase domain; Region: Peptidase_C14; pfam00656 641491009443 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 641491009444 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 641491009445 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491009446 ligand binding site [chemical binding]; other site 641491009447 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491009448 dimerization interface [polypeptide binding]; other site 641491009449 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 641491009450 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 641491009451 Caspase domain; Region: Peptidase_C14; pfam00656 641491009452 amphi-Trp domain; Region: amphi-Trp; TIGR04354 641491009453 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 641491009454 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 641491009455 P-loop; other site 641491009456 Magnesium ion binding site [ion binding]; other site 641491009457 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 641491009458 Magnesium ion binding site [ion binding]; other site 641491009459 amphi-Trp domain; Region: amphi-Trp; TIGR04354 641491009460 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 641491009461 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 641491009462 phosphate binding site [ion binding]; other site 641491009463 putative substrate binding pocket [chemical binding]; other site 641491009464 dimer interface [polypeptide binding]; other site 641491009465 HprK-related kinase B; Region: HprK_rel_B; TIGR04355 641491009466 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 641491009467 active site 641491009468 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 641491009469 ATP-grasp domain; Region: ATP-grasp_4; cl17255 641491009470 PhoU domain; Region: PhoU; pfam01895 641491009471 PhoU domain; Region: PhoU; pfam01895 641491009472 amphi-Trp domain; Region: amphi-Trp; TIGR04354 641491009473 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 641491009474 XXXCH domain; Region: XXXCH_domain; TIGR04358 641491009475 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 641491009476 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 641491009477 active site 641491009478 metal binding site [ion binding]; metal-binding site 641491009479 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 641491009480 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 641491009481 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 641491009482 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 641491009483 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 641491009484 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 641491009485 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 641491009486 dimer interface [polypeptide binding]; other site 641491009487 active site 641491009488 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 641491009489 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 641491009490 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 641491009491 Transcriptional regulators [Transcription]; Region: PurR; COG1609 641491009492 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 641491009493 DNA binding site [nucleotide binding] 641491009494 domain linker motif; other site 641491009495 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 641491009496 dimerization interface [polypeptide binding]; other site 641491009497 ligand binding site [chemical binding]; other site 641491009498 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 641491009499 active site 641491009500 catalytic residues [active] 641491009501 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 641491009502 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 641491009503 Walker A/P-loop; other site 641491009504 ATP binding site [chemical binding]; other site 641491009505 Q-loop/lid; other site 641491009506 ABC transporter signature motif; other site 641491009507 Walker B; other site 641491009508 D-loop; other site 641491009509 H-loop/switch region; other site 641491009510 TOBE domain; Region: TOBE_2; pfam08402 641491009511 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 641491009512 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 641491009513 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 641491009514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491009515 conserved gate region; other site 641491009516 putative PBP binding loops; other site 641491009517 ABC-ATPase subunit interface; other site 641491009518 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 641491009519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491009520 dimer interface [polypeptide binding]; other site 641491009521 conserved gate region; other site 641491009522 putative PBP binding loops; other site 641491009523 ABC-ATPase subunit interface; other site 641491009524 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 641491009525 binding surface 641491009526 TPR repeat; Region: TPR_11; pfam13414 641491009527 TPR motif; other site 641491009528 TPR repeat; Region: TPR_11; pfam13414 641491009529 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 641491009530 TadE-like protein; Region: TadE; pfam07811 641491009531 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 641491009532 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 641491009533 TadE-like protein; Region: TadE; pfam07811 641491009534 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491009535 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 641491009536 active site 641491009537 phosphorylation site [posttranslational modification] 641491009538 intermolecular recognition site; other site 641491009539 dimerization interface [polypeptide binding]; other site 641491009540 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491009541 Walker A motif; other site 641491009542 ATP binding site [chemical binding]; other site 641491009543 Walker B motif; other site 641491009544 arginine finger; other site 641491009545 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491009546 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 641491009547 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 641491009548 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 641491009549 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 641491009550 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 641491009551 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 641491009552 AAA domain; Region: AAA_31; pfam13614 641491009553 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 641491009554 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 641491009555 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 641491009556 ATP binding site [chemical binding]; other site 641491009557 Walker A motif; other site 641491009558 hexamer interface [polypeptide binding]; other site 641491009559 Walker B motif; other site 641491009560 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 641491009561 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 641491009562 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 641491009563 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 641491009564 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 641491009565 TPR motif; other site 641491009566 TPR repeat; Region: TPR_11; pfam13414 641491009567 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 641491009568 binding surface 641491009569 TPR motif; other site 641491009570 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491009571 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 641491009572 binding surface 641491009573 TPR motif; other site 641491009574 TPR repeat; Region: TPR_11; pfam13414 641491009575 Sporulation related domain; Region: SPOR; cl10051 641491009576 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 641491009577 active site 641491009578 phosphorylation site [posttranslational modification] 641491009579 intermolecular recognition site; other site 641491009580 dimerization interface [polypeptide binding]; other site 641491009581 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 641491009582 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 641491009583 putative active site [active] 641491009584 heme pocket [chemical binding]; other site 641491009585 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491009586 dimer interface [polypeptide binding]; other site 641491009587 phosphorylation site [posttranslational modification] 641491009588 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 641491009589 ATP binding site [chemical binding]; other site 641491009590 Mg2+ binding site [ion binding]; other site 641491009591 G-X-G motif; other site 641491009592 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491009593 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 641491009594 active site 641491009595 phosphorylation site [posttranslational modification] 641491009596 intermolecular recognition site; other site 641491009597 dimerization interface [polypeptide binding]; other site 641491009598 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 641491009599 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 641491009600 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 641491009601 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 641491009602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491009603 Walker A/P-loop; other site 641491009604 ATP binding site [chemical binding]; other site 641491009605 Q-loop/lid; other site 641491009606 ABC transporter signature motif; other site 641491009607 Walker B; other site 641491009608 D-loop; other site 641491009609 H-loop/switch region; other site 641491009610 TOBE domain; Region: TOBE_2; pfam08402 641491009611 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 641491009612 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491009613 dimer interface [polypeptide binding]; other site 641491009614 conserved gate region; other site 641491009615 putative PBP binding loops; other site 641491009616 ABC-ATPase subunit interface; other site 641491009617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491009618 dimer interface [polypeptide binding]; other site 641491009619 conserved gate region; other site 641491009620 putative PBP binding loops; other site 641491009621 ABC-ATPase subunit interface; other site 641491009622 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 641491009623 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 641491009624 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491009625 Zn2+ binding site [ion binding]; other site 641491009626 Mg2+ binding site [ion binding]; other site 641491009627 Short C-terminal domain; Region: SHOCT; pfam09851 641491009628 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 641491009629 dimer interface [polypeptide binding]; other site 641491009630 glucosamine-fructose-6-phosphate aminotransferase; Provisional; Region: PTZ00394 641491009631 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 641491009632 active site 641491009633 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 641491009634 dimer interface [polypeptide binding]; other site 641491009635 active site 641491009636 Response regulator receiver domain; Region: Response_reg; pfam00072 641491009637 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 641491009638 active site 641491009639 phosphorylation site [posttranslational modification] 641491009640 intermolecular recognition site; other site 641491009641 dimerization interface [polypeptide binding]; other site 641491009642 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 641491009643 GAF domain; Region: GAF_3; pfam13492 641491009644 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491009645 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 641491009646 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 641491009647 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491009648 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 641491009649 active site 641491009650 phosphorylation site [posttranslational modification] 641491009651 intermolecular recognition site; other site 641491009652 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 641491009653 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 641491009654 active site 641491009655 phosphorylation site [posttranslational modification] 641491009656 intermolecular recognition site; other site 641491009657 dimerization interface [polypeptide binding]; other site 641491009658 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491009659 Walker A motif; other site 641491009660 ATP binding site [chemical binding]; other site 641491009661 Walker B motif; other site 641491009662 arginine finger; other site 641491009663 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491009664 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 641491009665 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491009666 dimer interface [polypeptide binding]; other site 641491009667 phosphorylation site [posttranslational modification] 641491009668 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 641491009669 ATP binding site [chemical binding]; other site 641491009670 Mg2+ binding site [ion binding]; other site 641491009671 G-X-G motif; other site 641491009672 Acylphosphatase; Region: Acylphosphatase; pfam00708 641491009673 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 641491009674 adenylosuccinate lyase; Provisional; Region: PRK07492 641491009675 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 641491009676 tetramer interface [polypeptide binding]; other site 641491009677 active site 641491009678 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 641491009679 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 641491009680 SnoaL-like domain; Region: SnoaL_3; pfam13474 641491009681 SnoaL-like domain; Region: SnoaL_2; pfam12680 641491009682 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 641491009683 active site 641491009684 Zn binding site [ion binding]; other site 641491009685 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 641491009686 active site 641491009687 glyoxylate reductase; Reviewed; Region: PRK13243 641491009688 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 641491009689 dimerization interface [polypeptide binding]; other site 641491009690 ligand binding site [chemical binding]; other site 641491009691 NADP binding site [chemical binding]; other site 641491009692 catalytic site [active] 641491009693 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 641491009694 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 641491009695 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 641491009696 Active Sites [active] 641491009697 hydrogenase 4 subunit D; Validated; Region: PRK06525 641491009698 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 641491009699 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 641491009700 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 641491009701 NADH dehydrogenase; Region: NADHdh; cl00469 641491009702 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 641491009703 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 641491009704 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 641491009705 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 641491009706 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 641491009707 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 641491009708 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 641491009709 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 641491009710 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 641491009711 Walker A/P-loop; other site 641491009712 ATP binding site [chemical binding]; other site 641491009713 Q-loop/lid; other site 641491009714 ABC transporter signature motif; other site 641491009715 Walker B; other site 641491009716 D-loop; other site 641491009717 H-loop/switch region; other site 641491009718 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 641491009719 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 641491009720 ABC-ATPase subunit interface; other site 641491009721 dimer interface [polypeptide binding]; other site 641491009722 putative PBP binding regions; other site 641491009723 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 641491009724 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 641491009725 putative metal binding site [ion binding]; other site 641491009726 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 641491009727 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 641491009728 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 641491009729 prolyl-tRNA synthetase; Provisional; Region: PRK09194 641491009730 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 641491009731 dimer interface [polypeptide binding]; other site 641491009732 motif 1; other site 641491009733 active site 641491009734 motif 2; other site 641491009735 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 641491009736 putative deacylase active site [active] 641491009737 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 641491009738 active site 641491009739 motif 3; other site 641491009740 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 641491009741 anticodon binding site; other site 641491009742 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 641491009743 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 641491009744 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 641491009745 generic binding surface II; other site 641491009746 generic binding surface I; other site 641491009747 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 641491009748 Peptidase family M23; Region: Peptidase_M23; pfam01551 641491009749 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 641491009750 Peptidase family M23; Region: Peptidase_M23; pfam01551 641491009751 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 641491009752 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 641491009753 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 641491009754 substrate binding pocket [chemical binding]; other site 641491009755 chain length determination region; other site 641491009756 substrate-Mg2+ binding site; other site 641491009757 catalytic residues [active] 641491009758 aspartate-rich region 1; other site 641491009759 active site lid residues [active] 641491009760 aspartate-rich region 2; other site 641491009761 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 641491009762 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 641491009763 TPP-binding site; other site 641491009764 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 641491009765 PYR/PP interface [polypeptide binding]; other site 641491009766 dimer interface [polypeptide binding]; other site 641491009767 TPP binding site [chemical binding]; other site 641491009768 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 641491009769 Methyltransferase domain; Region: Methyltransf_24; pfam13578 641491009770 SEC-C motif; Region: SEC-C; pfam02810 641491009771 hypothetical protein; Provisional; Region: PRK04233 641491009772 hypothetical protein; Provisional; Region: PRK09256 641491009773 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 641491009774 AAA domain; Region: AAA_17; pfam13207 641491009775 AAA domain; Region: AAA_18; pfam13238 641491009776 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 641491009777 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 641491009778 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 641491009779 catalytic site [active] 641491009780 putative active site [active] 641491009781 putative substrate binding site [chemical binding]; other site 641491009782 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 641491009783 binding surface 641491009784 TPR motif; other site 641491009785 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 641491009786 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 641491009787 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 641491009788 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491009789 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491009790 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 641491009791 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 641491009792 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 641491009793 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; cl00399 641491009794 active site residues [active] 641491009795 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 641491009796 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 641491009797 FeS/SAM binding site; other site 641491009798 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 641491009799 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 641491009800 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 641491009801 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 641491009802 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 641491009803 Cell division protein ZapA; Region: ZapA; cl01146 641491009804 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491009805 dimer interface [polypeptide binding]; other site 641491009806 phosphorylation site [posttranslational modification] 641491009807 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 641491009808 ATP binding site [chemical binding]; other site 641491009809 Mg2+ binding site [ion binding]; other site 641491009810 G-X-G motif; other site 641491009811 Response regulator receiver domain; Region: Response_reg; pfam00072 641491009812 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 641491009813 active site 641491009814 phosphorylation site [posttranslational modification] 641491009815 intermolecular recognition site; other site 641491009816 dimerization interface [polypeptide binding]; other site 641491009817 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 641491009818 active site 641491009819 phosphorylation site [posttranslational modification] 641491009820 intermolecular recognition site; other site 641491009821 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 641491009822 Response regulator receiver domain; Region: Response_reg; pfam00072 641491009823 active site 641491009824 phosphorylation site [posttranslational modification] 641491009825 intermolecular recognition site; other site 641491009826 dimerization interface [polypeptide binding]; other site 641491009827 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 641491009828 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 641491009829 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491009830 heme-binding residues [chemical binding]; other site 641491009831 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 641491009832 Cysteine-rich domain; Region: CCG; pfam02754 641491009833 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 641491009834 FOG: WD40 repeat [General function prediction only]; Region: COG2319 641491009835 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 641491009836 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 641491009837 dimerization interface [polypeptide binding]; other site 641491009838 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 641491009839 dimer interface [polypeptide binding]; other site 641491009840 putative CheW interface [polypeptide binding]; other site 641491009841 Cytochrome c; Region: Cytochrom_C; cl11414 641491009842 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 641491009843 Cu(I) binding site [ion binding]; other site 641491009844 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 641491009845 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 641491009846 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 641491009847 Subunit I/III interface [polypeptide binding]; other site 641491009848 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 641491009849 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 641491009850 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 641491009851 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 641491009852 Cytochrome c; Region: Cytochrom_C; pfam00034 641491009853 Cytochrome c; Region: Cytochrom_C; pfam00034 641491009854 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 641491009855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 641491009856 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 641491009857 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 641491009858 catalytic residues [active] 641491009859 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 641491009860 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 641491009861 dimer interface [polypeptide binding]; other site 641491009862 catalytic triad [active] 641491009863 Response regulator receiver domain; Region: Response_reg; pfam00072 641491009864 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 641491009865 active site 641491009866 phosphorylation site [posttranslational modification] 641491009867 intermolecular recognition site; other site 641491009868 dimerization interface [polypeptide binding]; other site 641491009869 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 641491009870 anti sigma factor interaction site; other site 641491009871 regulatory phosphorylation site [posttranslational modification]; other site 641491009872 HAMP domain; Region: HAMP; pfam00672 641491009873 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 641491009874 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 641491009875 putative active site [active] 641491009876 heme pocket [chemical binding]; other site 641491009877 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491009878 dimer interface [polypeptide binding]; other site 641491009879 phosphorylation site [posttranslational modification] 641491009880 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 641491009881 ATP binding site [chemical binding]; other site 641491009882 Mg2+ binding site [ion binding]; other site 641491009883 G-X-G motif; other site 641491009884 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 641491009885 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 641491009886 putative ligand binding site [chemical binding]; other site 641491009887 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 641491009888 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 641491009889 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 641491009890 [4Fe-4S] binding site [ion binding]; other site 641491009891 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 641491009892 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 641491009893 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 641491009894 molybdopterin cofactor binding site; other site 641491009895 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 641491009896 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 641491009897 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 641491009898 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 641491009899 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 641491009900 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 641491009901 EF-hand domain pair; Region: EF_hand_5; pfam13499 641491009902 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 641491009903 Ca2+ binding site [ion binding]; other site 641491009904 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 641491009905 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 641491009906 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 641491009907 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 641491009908 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 641491009909 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 641491009910 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 641491009911 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 641491009912 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 641491009913 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 641491009914 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 641491009915 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 641491009916 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 641491009917 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 641491009918 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 641491009919 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 641491009920 DNA binding residues [nucleotide binding] 641491009921 flagellin; Provisional; Region: PRK12802 641491009922 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 641491009923 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 641491009924 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 641491009925 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 641491009926 active site 641491009927 phosphorylation site [posttranslational modification] 641491009928 intermolecular recognition site; other site 641491009929 dimerization interface [polypeptide binding]; other site 641491009930 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 641491009931 DNA binding site [nucleotide binding] 641491009932 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 641491009933 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 641491009934 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 641491009935 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 641491009936 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 641491009937 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491009938 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491009939 phosphorylation site [posttranslational modification] 641491009940 dimer interface [polypeptide binding]; other site 641491009941 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 641491009942 ATP binding site [chemical binding]; other site 641491009943 Mg2+ binding site [ion binding]; other site 641491009944 G-X-G motif; other site 641491009945 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 641491009946 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 641491009947 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491009948 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 641491009949 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491009950 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 641491009951 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 641491009952 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 641491009953 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 641491009954 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491009955 dimer interface [polypeptide binding]; other site 641491009956 conserved gate region; other site 641491009957 putative PBP binding loops; other site 641491009958 ABC-ATPase subunit interface; other site 641491009959 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 641491009960 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491009961 dimer interface [polypeptide binding]; other site 641491009962 conserved gate region; other site 641491009963 putative PBP binding loops; other site 641491009964 ABC-ATPase subunit interface; other site 641491009965 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 641491009966 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 641491009967 Walker A/P-loop; other site 641491009968 ATP binding site [chemical binding]; other site 641491009969 Q-loop/lid; other site 641491009970 ABC transporter signature motif; other site 641491009971 Walker B; other site 641491009972 D-loop; other site 641491009973 H-loop/switch region; other site 641491009974 TOBE domain; Region: TOBE_2; pfam08402 641491009975 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 641491009976 SET domain; Region: SET; pfam00856 641491009977 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 641491009978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491009979 Coenzyme A binding pocket [chemical binding]; other site 641491009980 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 641491009981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 641491009982 active site 641491009983 dimerization interface [polypeptide binding]; other site 641491009984 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 641491009985 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491009986 ATP binding site [chemical binding]; other site 641491009987 Walker B motif; other site 641491009988 arginine finger; other site 641491009989 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 641491009990 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491009991 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 641491009992 Glycogen synthase; Region: Glycogen_syn; pfam05693 641491009993 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 641491009994 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 641491009995 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 641491009996 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 641491009997 putative active site [active] 641491009998 catalytic site [active] 641491009999 glycogen/starch synthase, ADP-glucose type; Region: glgA; TIGR02095 641491010000 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 641491010001 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491010002 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 641491010003 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 641491010004 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 641491010005 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491010006 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491010007 substrate binding pocket [chemical binding]; other site 641491010008 membrane-bound complex binding site; other site 641491010009 hinge residues; other site 641491010010 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491010011 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 641491010012 putative active site [active] 641491010013 heme pocket [chemical binding]; other site 641491010014 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 641491010015 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491010016 dimer interface [polypeptide binding]; other site 641491010017 phosphorylation site [posttranslational modification] 641491010018 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 641491010019 ATP binding site [chemical binding]; other site 641491010020 Mg2+ binding site [ion binding]; other site 641491010021 G-X-G motif; other site 641491010022 Response regulator receiver domain; Region: Response_reg; pfam00072 641491010023 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 641491010024 active site 641491010025 phosphorylation site [posttranslational modification] 641491010026 intermolecular recognition site; other site 641491010027 dimerization interface [polypeptide binding]; other site 641491010028 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 641491010029 Protein export membrane protein; Region: SecD_SecF; cl14618 641491010030 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 641491010031 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 641491010032 HlyD family secretion protein; Region: HlyD_3; pfam13437 641491010033 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 641491010034 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 641491010035 ligand binding site [chemical binding]; other site 641491010036 flexible hinge region; other site 641491010037 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 641491010038 putative switch regulator; other site 641491010039 non-specific DNA interactions [nucleotide binding]; other site 641491010040 DNA binding site [nucleotide binding] 641491010041 sequence specific DNA binding site [nucleotide binding]; other site 641491010042 putative cAMP binding site [chemical binding]; other site 641491010043 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 641491010044 4Fe-4S binding domain; Region: Fer4; cl02805 641491010045 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 641491010046 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 641491010047 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 641491010048 heme-binding residues [chemical binding]; other site 641491010049 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 641491010050 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 641491010051 PAS domain; Region: PAS; smart00091 641491010052 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 641491010053 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 641491010054 DNA binding residues [nucleotide binding] 641491010055 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 641491010056 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 641491010057 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 641491010058 putative [4Fe-4S] binding site [ion binding]; other site 641491010059 putative molybdopterin cofactor binding site [chemical binding]; other site 641491010060 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 641491010061 molybdopterin cofactor binding site; other site 641491010062 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 641491010063 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 641491010064 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 641491010065 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 641491010066 PAS domain; Region: PAS; smart00091 641491010067 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491010068 Walker A motif; other site 641491010069 ATP binding site [chemical binding]; other site 641491010070 Walker B motif; other site 641491010071 arginine finger; other site 641491010072 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 641491010073 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 641491010074 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 641491010075 E3 interaction surface; other site 641491010076 lipoyl attachment site [posttranslational modification]; other site 641491010077 e3 binding domain; Region: E3_binding; pfam02817 641491010078 e3 binding domain; Region: E3_binding; pfam02817 641491010079 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 641491010080 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 641491010081 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 641491010082 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 641491010083 tetramer interface [polypeptide binding]; other site 641491010084 TPP-binding site [chemical binding]; other site 641491010085 heterodimer interface [polypeptide binding]; other site 641491010086 phosphorylation loop region [posttranslational modification] 641491010087 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 641491010088 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 641491010089 alpha subunit interface [polypeptide binding]; other site 641491010090 TPP binding site [chemical binding]; other site 641491010091 heterodimer interface [polypeptide binding]; other site 641491010092 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 641491010093 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 641491010094 ATP-NAD kinase; Region: NAD_kinase; pfam01513 641491010095 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 641491010096 CoenzymeA binding site [chemical binding]; other site 641491010097 subunit interaction site [polypeptide binding]; other site 641491010098 PHB binding site; other site 641491010099 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 641491010100 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 641491010101 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 641491010102 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 641491010103 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 641491010104 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 641491010105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 641491010106 Histidine kinase; Region: HisKA_3; pfam07730 641491010107 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 641491010108 ATP binding site [chemical binding]; other site 641491010109 Mg2+ binding site [ion binding]; other site 641491010110 G-X-G motif; other site 641491010111 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 641491010112 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 641491010113 active site 641491010114 phosphorylation site [posttranslational modification] 641491010115 intermolecular recognition site; other site 641491010116 dimerization interface [polypeptide binding]; other site 641491010117 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 641491010118 DNA binding residues [nucleotide binding] 641491010119 dimerization interface [polypeptide binding]; other site 641491010120 tetrathionate reductase subunit B; Provisional; Region: PRK14993 641491010121 4Fe-4S binding domain; Region: Fer4; pfam00037 641491010122 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 641491010123 tetrathionate reductase subunit A; Provisional; Region: PRK14991 641491010124 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 641491010125 putative [Fe4-S4] binding site [ion binding]; other site 641491010126 putative molybdopterin cofactor binding site [chemical binding]; other site 641491010127 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 641491010128 molybdopterin cofactor binding site; other site 641491010129 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 641491010130 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 641491010131 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 641491010132 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 641491010133 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 641491010134 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 641491010135 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 641491010136 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 641491010137 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 641491010138 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 641491010139 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 641491010140 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 641491010141 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 641491010142 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 641491010143 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 641491010144 active site 641491010145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 641491010146 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 641491010147 Uncharacterized conserved protein [Function unknown]; Region: COG2308 641491010148 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 641491010149 ATP binding site [chemical binding]; other site 641491010150 substrate interface [chemical binding]; other site 641491010151 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 641491010152 Ligand Binding Site [chemical binding]; other site 641491010153 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 641491010154 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 641491010155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491010156 homodimer interface [polypeptide binding]; other site 641491010157 catalytic residue [active] 641491010158 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 641491010159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 641491010160 dimer interface [polypeptide binding]; other site 641491010161 conserved gate region; other site 641491010162 putative PBP binding loops; other site 641491010163 ABC-ATPase subunit interface; other site 641491010164 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 641491010165 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 641491010166 Walker A/P-loop; other site 641491010167 ATP binding site [chemical binding]; other site 641491010168 Q-loop/lid; other site 641491010169 ABC transporter signature motif; other site 641491010170 Walker B; other site 641491010171 D-loop; other site 641491010172 H-loop/switch region; other site 641491010173 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 641491010174 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 641491010175 substrate binding pocket [chemical binding]; other site 641491010176 membrane-bound complex binding site; other site 641491010177 hinge residues; other site 641491010178 AroM protein; Region: AroM; cl17601 641491010179 imidazolonepropionase; Validated; Region: PRK09356 641491010180 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 641491010181 active site 641491010182 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 641491010183 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 641491010184 DNA-binding site [nucleotide binding]; DNA binding site 641491010185 FCD domain; Region: FCD; pfam07729 641491010186 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 641491010187 trimer interface [polypeptide binding]; other site 641491010188 active site 641491010189 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 641491010190 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 641491010191 active site 641491010192 catalytic residues [active] 641491010193 DNA binding site [nucleotide binding] 641491010194 Int/Topo IB signature motif; other site 641491010195 Helix-turn-helix domain; Region: HTH_17; pfam12728 641491010196 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 641491010197 active site 641491010198 DNA binding site [nucleotide binding] 641491010199 Int/Topo IB signature motif; other site 641491010200 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 641491010201 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 641491010202 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 641491010203 GIY-YIG motif/motif A; other site 641491010204 putative active site [active] 641491010205 putative metal binding site [ion binding]; other site 641491010206 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 641491010207 HsdM N-terminal domain; Region: HsdM_N; pfam12161 641491010208 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 641491010209 Methyltransferase domain; Region: Methyltransf_26; pfam13659 641491010210 AAA domain; Region: AAA_13; pfam13166 641491010211 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 641491010212 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 641491010213 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 641491010214 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 641491010215 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 641491010216 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 641491010217 ATP binding site [chemical binding]; other site 641491010218 putative Mg++ binding site [ion binding]; other site 641491010219 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 641491010220 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 641491010221 PAS fold; Region: PAS_3; pfam08447 641491010222 putative active site [active] 641491010223 heme pocket [chemical binding]; other site 641491010224 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 641491010225 GAF domain; Region: GAF; pfam01590 641491010226 PAS domain S-box; Region: sensory_box; TIGR00229 641491010227 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491010228 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491010229 dimer interface [polypeptide binding]; other site 641491010230 phosphorylation site [posttranslational modification] 641491010231 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 641491010232 ATP binding site [chemical binding]; other site 641491010233 Mg2+ binding site [ion binding]; other site 641491010234 G-X-G motif; other site 641491010235 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 641491010236 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 641491010237 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 641491010238 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 641491010239 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 641491010240 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 641491010241 Mechanosensitive ion channel; Region: MS_channel; pfam00924 641491010242 RNA polymerase Rpb2, domain 4; Region: RNA_pol_Rpb2_4; pfam04566 641491010243 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 641491010244 CoA binding domain; Region: CoA_binding_2; pfam13380 641491010245 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 641491010246 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 641491010247 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 641491010248 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; cd00491 641491010249 active site 1 [active] 641491010250 dimer interface [polypeptide binding]; other site 641491010251 hexamer interface [polypeptide binding]; other site 641491010252 active site 2 [active] 641491010253 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491010254 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491010255 phosphorylation site [posttranslational modification] 641491010256 dimer interface [polypeptide binding]; other site 641491010257 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 641491010258 ATP binding site [chemical binding]; other site 641491010259 Mg2+ binding site [ion binding]; other site 641491010260 G-X-G motif; other site 641491010261 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 641491010262 agmatinase; Region: agmatinase; TIGR01230 641491010263 putative active site [active] 641491010264 Mn binding site [ion binding]; other site 641491010265 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 641491010266 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491010267 Walker A motif; other site 641491010268 ATP binding site [chemical binding]; other site 641491010269 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 641491010270 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 641491010271 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 641491010272 active site 641491010273 HslU subunit interaction site [polypeptide binding]; other site 641491010274 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 641491010275 putative ADP-ribose binding site [chemical binding]; other site 641491010276 putative active site [active] 641491010277 Response regulator receiver domain; Region: Response_reg; pfam00072 641491010278 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 641491010279 active site 641491010280 phosphorylation site [posttranslational modification] 641491010281 intermolecular recognition site; other site 641491010282 dimerization interface [polypeptide binding]; other site 641491010283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491010284 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491010285 dimer interface [polypeptide binding]; other site 641491010286 phosphorylation site [posttranslational modification] 641491010287 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 641491010288 ATP binding site [chemical binding]; other site 641491010289 Mg2+ binding site [ion binding]; other site 641491010290 G-X-G motif; other site 641491010291 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 641491010292 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 641491010293 Cl- selectivity filter; other site 641491010294 Cl- binding residues [ion binding]; other site 641491010295 pore gating glutamate residue; other site 641491010296 dimer interface [polypeptide binding]; other site 641491010297 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 641491010298 FOG: CBS domain [General function prediction only]; Region: COG0517 641491010299 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 641491010300 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 641491010301 active site 641491010302 Riboflavin kinase; Region: Flavokinase; pfam01687 641491010303 Peptidase family M48; Region: Peptidase_M48; cl12018 641491010304 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 641491010305 binding surface 641491010306 TPR motif; other site 641491010307 TPR repeat; Region: TPR_11; pfam13414 641491010308 transcription termination factor Rho; Provisional; Region: rho; PRK09376 641491010309 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 641491010310 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 641491010311 RNA binding site [nucleotide binding]; other site 641491010312 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 641491010313 multimer interface [polypeptide binding]; other site 641491010314 Walker A motif; other site 641491010315 ATP binding site [chemical binding]; other site 641491010316 Walker B motif; other site 641491010317 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 641491010318 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 641491010319 putative active site [active] 641491010320 catalytic residue [active] 641491010321 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 641491010322 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 641491010323 5S rRNA interface [nucleotide binding]; other site 641491010324 CTC domain interface [polypeptide binding]; other site 641491010325 L16 interface [polypeptide binding]; other site 641491010326 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 641491010327 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 641491010328 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 641491010329 active site 641491010330 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 641491010331 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 641491010332 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 641491010333 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 641491010334 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 641491010335 protein binding site [polypeptide binding]; other site 641491010336 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 641491010337 protein binding site [polypeptide binding]; other site 641491010338 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 641491010339 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 641491010340 putative active site [active] 641491010341 heme pocket [chemical binding]; other site 641491010342 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 641491010343 putative active site [active] 641491010344 heme pocket [chemical binding]; other site 641491010345 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 641491010346 PAS fold; Region: PAS_3; pfam08447 641491010347 putative active site [active] 641491010348 heme pocket [chemical binding]; other site 641491010349 PAS domain S-box; Region: sensory_box; TIGR00229 641491010350 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 641491010351 putative active site [active] 641491010352 heme pocket [chemical binding]; other site 641491010353 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 641491010354 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 641491010355 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491010356 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491010357 dimer interface [polypeptide binding]; other site 641491010358 phosphorylation site [posttranslational modification] 641491010359 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 641491010360 ATP binding site [chemical binding]; other site 641491010361 Mg2+ binding site [ion binding]; other site 641491010362 G-X-G motif; other site 641491010363 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 641491010364 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 641491010365 ATP binding site [chemical binding]; other site 641491010366 Mg++ binding site [ion binding]; other site 641491010367 motif III; other site 641491010368 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 641491010369 nucleotide binding region [chemical binding]; other site 641491010370 ATP-binding site [chemical binding]; other site 641491010371 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 641491010372 RNA binding site [nucleotide binding]; other site 641491010373 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 641491010374 rRNA binding site [nucleotide binding]; other site 641491010375 predicted 30S ribosome binding site; other site 641491010376 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 641491010377 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 641491010378 Asp-box motif; other site 641491010379 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 641491010380 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 641491010381 acyl-activating enzyme (AAE) consensus motif; other site 641491010382 AMP binding site [chemical binding]; other site 641491010383 active site 641491010384 CoA binding site [chemical binding]; other site 641491010385 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 641491010386 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 641491010387 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 641491010388 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 641491010389 BON domain; Region: BON; pfam04972 641491010390 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 641491010391 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 641491010392 S-adenosylmethionine binding site [chemical binding]; other site 641491010393 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 641491010394 substrate binding site [chemical binding]; other site 641491010395 active site 641491010396 catalytic residues [active] 641491010397 heterodimer interface [polypeptide binding]; other site 641491010398 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 641491010399 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 641491010400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491010401 catalytic residue [active] 641491010402 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 641491010403 active site 641491010404 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 641491010405 active site 641491010406 ribulose/triose binding site [chemical binding]; other site 641491010407 phosphate binding site [ion binding]; other site 641491010408 substrate (anthranilate) binding pocket [chemical binding]; other site 641491010409 product (indole) binding pocket [chemical binding]; other site 641491010410 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 641491010411 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 641491010412 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 641491010413 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 641491010414 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 641491010415 glutamine binding [chemical binding]; other site 641491010416 catalytic triad [active] 641491010417 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 641491010418 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 641491010419 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 641491010420 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 641491010421 prephenate dehydrogenase; Provisional; Region: PRK06444 641491010422 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 641491010423 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 641491010424 hinge; other site 641491010425 active site 641491010426 Chorismate mutase type II; Region: CM_2; pfam01817 641491010427 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 641491010428 Prephenate dehydratase; Region: PDT; pfam00800 641491010429 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 641491010430 putative L-Phe binding site [chemical binding]; other site 641491010431 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 641491010432 3-dehydroquinate synthase; Provisional; Region: PRK02290 641491010433 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 641491010434 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 641491010435 putative active site; other site 641491010436 catalytic residue [active] 641491010437 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 641491010438 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 641491010439 Nitrogen regulatory protein P-II; Region: P-II; smart00938 641491010440 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 641491010441 S-adenosylmethionine synthetase; Validated; Region: PRK05250 641491010442 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 641491010443 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 641491010444 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 641491010445 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 641491010446 tetramerization interface [polypeptide binding]; other site 641491010447 active site 641491010448 pantoate--beta-alanine ligase; Region: panC; TIGR00018 641491010449 Pantoate-beta-alanine ligase; Region: PanC; cd00560 641491010450 active site 641491010451 ATP-binding site [chemical binding]; other site 641491010452 pantoate-binding site; other site 641491010453 HXXH motif; other site 641491010454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491010455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491010456 metal binding site [ion binding]; metal-binding site 641491010457 active site 641491010458 I-site; other site 641491010459 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 641491010460 TPR motif; other site 641491010461 binding surface 641491010462 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 641491010463 TPR motif; other site 641491010464 binding surface 641491010465 Peptidase family M48; Region: Peptidase_M48; pfam01435 641491010466 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 641491010467 TPR motif; other site 641491010468 binding surface 641491010469 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 641491010470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491010471 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 641491010472 dimerization interface [polypeptide binding]; other site 641491010473 substrate binding pocket [chemical binding]; other site 641491010474 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 641491010475 pentamer interface [polypeptide binding]; other site 641491010476 dodecaamer interface [polypeptide binding]; other site 641491010477 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 641491010478 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 641491010479 ring oligomerisation interface [polypeptide binding]; other site 641491010480 ATP/Mg binding site [chemical binding]; other site 641491010481 stacking interactions; other site 641491010482 hinge regions; other site 641491010483 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 641491010484 oligomerisation interface [polypeptide binding]; other site 641491010485 mobile loop; other site 641491010486 roof hairpin; other site 641491010487 Hemerythrin; Region: Hemerythrin; cd12107 641491010488 Fe binding site [ion binding]; other site 641491010489 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 641491010490 putative acyl-acceptor binding pocket; other site 641491010491 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 641491010492 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 641491010493 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 641491010494 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 641491010495 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 641491010496 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 641491010497 tetramer interface [polypeptide binding]; other site 641491010498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491010499 catalytic residue [active] 641491010500 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 641491010501 active site 641491010502 catalytic triad [active] 641491010503 oxyanion hole [active] 641491010504 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 641491010505 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 641491010506 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 641491010507 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 641491010508 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 641491010509 trmE is a tRNA modification GTPase; Region: trmE; cd04164 641491010510 G1 box; other site 641491010511 G1 box; other site 641491010512 GTP/Mg2+ binding site [chemical binding]; other site 641491010513 GTP/Mg2+ binding site [chemical binding]; other site 641491010514 Switch I region; other site 641491010515 G2 box; other site 641491010516 Switch II region; other site 641491010517 G3 box; other site 641491010518 G4 box; other site 641491010519 G5 box; other site 641491010520 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 641491010521 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 641491010522 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 641491010523 G-X-X-G motif; other site 641491010524 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 641491010525 RxxxH motif; other site 641491010526 membrane protein insertase; Provisional; Region: PRK01318 641491010527 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 641491010528 Haemolytic domain; Region: Haemolytic; pfam01809 641491010529 Ribonuclease P; Region: Ribonuclease_P; pfam00825 641491010530 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 641491010531 hypothetical protein; Provisional; Region: PRK04334 641491010532 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 641491010533 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 641491010534 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 641491010535 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 641491010536 ligand binding site [chemical binding]; other site 641491010537 flexible hinge region; other site 641491010538 PAS domain S-box; Region: sensory_box; TIGR00229 641491010539 PAS domain; Region: PAS; smart00091 641491010540 PAS domain S-box; Region: sensory_box; TIGR00229 641491010541 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 641491010542 putative active site [active] 641491010543 heme pocket [chemical binding]; other site 641491010544 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 641491010545 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 641491010546 metal binding site [ion binding]; metal-binding site 641491010547 active site 641491010548 I-site; other site 641491010549 Domain of unknown function DUF77; Region: DUF77; pfam01910 641491010550 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 641491010551 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 641491010552 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 641491010553 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 641491010554 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 641491010555 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 641491010556 HupF/HypC family; Region: HupF_HypC; pfam01455 641491010557 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 641491010558 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 641491010559 putative substrate-binding site; other site 641491010560 nickel binding site [ion binding]; other site 641491010561 Methyltransferase domain; Region: Methyltransf_23; pfam13489 641491010562 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 641491010563 S-adenosylmethionine binding site [chemical binding]; other site 641491010564 hypothetical protein; Validated; Region: PRK07586 641491010565 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 641491010566 PYR/PP interface [polypeptide binding]; other site 641491010567 dimer interface [polypeptide binding]; other site 641491010568 TPP binding site [chemical binding]; other site 641491010569 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 641491010570 TPP-binding site [chemical binding]; other site 641491010571 dimer interface [polypeptide binding]; other site 641491010572 isocitrate dehydrogenase; Validated; Region: PRK06451 641491010573 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 641491010574 NAD-dependent deacetylase; Provisional; Region: PRK00481 641491010575 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 which...; Region: SIRT5_Af1_CobB; cd01412 641491010576 NAD+ binding site [chemical binding]; other site 641491010577 substrate binding site [chemical binding]; other site 641491010578 Zn binding site [ion binding]; other site 641491010579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 641491010580 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 641491010581 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 641491010582 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 641491010583 catalytic residue [active] 641491010584 META domain; Region: META; cl01245 641491010585 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 641491010586 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 641491010587 Rhomboid family; Region: Rhomboid; cl11446 641491010588 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 641491010589 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 641491010590 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 641491010591 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 641491010592 ABC-ATPase subunit interface; other site 641491010593 dimer interface [polypeptide binding]; other site 641491010594 putative PBP binding regions; other site 641491010595 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 641491010596 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 641491010597 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 641491010598 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 641491010599 putative active site [active] 641491010600 putative substrate binding site [chemical binding]; other site 641491010601 putative cosubstrate binding site; other site 641491010602 catalytic site [active] 641491010603 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 641491010604 dimer interface [polypeptide binding]; other site 641491010605 active site 641491010606 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 641491010607 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 641491010608 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 641491010609 catalytic residues [active] 641491010610 AAA domain; Region: AAA_31; pfam13614 641491010611 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 641491010612 P-loop; other site 641491010613 Magnesium ion binding site [ion binding]; other site 641491010614 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 641491010615 Magnesium ion binding site [ion binding]; other site 641491010616 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 641491010617 ATP cone domain; Region: ATP-cone; pfam03477 641491010618 Class III ribonucleotide reductase; Region: RNR_III; cd01675 641491010619 effector binding site; other site 641491010620 active site 641491010621 Zn binding site [ion binding]; other site 641491010622 glycine loop; other site 641491010623 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 641491010624 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 641491010625 FeS/SAM binding site; other site 641491010626 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 641491010627 Mechanosensitive ion channel; Region: MS_channel; pfam00924 641491010628 phosphodiesterase YaeI; Provisional; Region: PRK11340 641491010629 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 641491010630 putative active site [active] 641491010631 putative metal binding site [ion binding]; other site 641491010632 histidine-histamine antiporter; Region: his_histam_anti; TIGR04298 641491010633 Transcriptional regulators [Transcription]; Region: FadR; COG2186 641491010634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 641491010635 DNA-binding site [nucleotide binding]; DNA binding site 641491010636 FCD domain; Region: FCD; pfam07729 641491010637 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 641491010638 active site 641491010639 substrate binding site [chemical binding]; other site 641491010640 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 641491010641 FMN binding site [chemical binding]; other site 641491010642 putative catalytic residues [active] 641491010643 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 641491010644 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 641491010645 active site 641491010646 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 641491010647 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 641491010648 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 641491010649 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 641491010650 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 641491010651 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 641491010652 BON domain; Region: BON; cl02771 641491010653 BON domain; Region: BON; pfam04972 641491010654 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 641491010655 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 641491010656 active site 641491010657 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 641491010658 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 641491010659 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 641491010660 dimer interface [polypeptide binding]; other site 641491010661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 641491010662 catalytic residue [active] 641491010663 Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: CysS; COG0215 641491010664 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 641491010665 anticodon binding site; other site 641491010666 tRNA binding surface [nucleotide binding]; other site 641491010667 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 641491010668 SelR domain; Region: SelR; pfam01641 641491010669 methionine sulfoxide reductase B; Provisional; Region: PRK00222 641491010670 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 641491010671 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 641491010672 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491010673 Walker A motif; other site 641491010674 ATP binding site [chemical binding]; other site 641491010675 Walker B motif; other site 641491010676 arginine finger; other site 641491010677 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 641491010678 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 641491010679 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 641491010680 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 641491010681 dimer interface [polypeptide binding]; other site 641491010682 PYR/PP interface [polypeptide binding]; other site 641491010683 TPP binding site [chemical binding]; other site 641491010684 substrate binding site [chemical binding]; other site 641491010685 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 641491010686 TPP-binding site; other site 641491010687 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 641491010688 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 641491010689 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 641491010690 putative catalytic cysteine [active] 641491010691 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 641491010692 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 641491010693 active site 641491010694 (T/H)XGH motif; other site 641491010695 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 641491010696 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 641491010697 putative active site [active] 641491010698 Domain of unknown function DUF21; Region: DUF21; pfam01595 641491010699 FOG: CBS domain [General function prediction only]; Region: COG0517 641491010700 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 641491010701 CcmE; Region: CcmE; cl00994 641491010702 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 641491010703 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 641491010704 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491010705 Walker A/P-loop; other site 641491010706 ATP binding site [chemical binding]; other site 641491010707 ABC transporter signature motif; other site 641491010708 Walker B; other site 641491010709 D-loop; other site 641491010710 H-loop/switch region; other site 641491010711 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 641491010712 TPR repeat; Region: TPR_11; pfam13414 641491010713 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 641491010714 binding surface 641491010715 TPR motif; other site 641491010716 TPR repeat; Region: TPR_11; pfam13414 641491010717 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 641491010718 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 641491010719 dimerization interface [polypeptide binding]; other site 641491010720 ligand binding site [chemical binding]; other site 641491010721 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 641491010722 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 641491010723 TM-ABC transporter signature motif; other site 641491010724 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 641491010725 TM-ABC transporter signature motif; other site 641491010726 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 641491010727 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 641491010728 Walker A/P-loop; other site 641491010729 ATP binding site [chemical binding]; other site 641491010730 Q-loop/lid; other site 641491010731 ABC transporter signature motif; other site 641491010732 Walker B; other site 641491010733 D-loop; other site 641491010734 H-loop/switch region; other site 641491010735 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 641491010736 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 641491010737 Walker A/P-loop; other site 641491010738 ATP binding site [chemical binding]; other site 641491010739 Q-loop/lid; other site 641491010740 ABC transporter signature motif; other site 641491010741 Walker B; other site 641491010742 D-loop; other site 641491010743 H-loop/switch region; other site 641491010744 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 641491010745 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 641491010746 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 641491010747 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 641491010748 active site 641491010749 GMP synthase; Reviewed; Region: guaA; PRK00074 641491010750 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 641491010751 AMP/PPi binding site [chemical binding]; other site 641491010752 candidate oxyanion hole; other site 641491010753 catalytic triad [active] 641491010754 potential glutamine specificity residues [chemical binding]; other site 641491010755 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 641491010756 ATP Binding subdomain [chemical binding]; other site 641491010757 Ligand Binding sites [chemical binding]; other site 641491010758 Dimerization subdomain; other site 641491010759 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 641491010760 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 641491010761 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 641491010762 putative active site pocket [active] 641491010763 4-fold oligomerization interface [polypeptide binding]; other site 641491010764 metal binding residues [ion binding]; metal-binding site 641491010765 3-fold/trimer interface [polypeptide binding]; other site 641491010766 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 641491010767 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 641491010768 catalytic residues [active] 641491010769 Conserved TM helix; Region: TM_helix; pfam05552 641491010770 Mechanosensitive ion channel; Region: MS_channel; pfam00924 641491010771 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 641491010772 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 641491010773 putative metal binding site; other site 641491010774 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 641491010775 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 641491010776 active site 641491010777 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 641491010778 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 641491010779 RNA binding surface [nucleotide binding]; other site 641491010780 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 641491010781 active site 641491010782 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 641491010783 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 641491010784 CoA-binding site [chemical binding]; other site 641491010785 ATP-binding [chemical binding]; other site 641491010786 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 641491010787 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 641491010788 active site 641491010789 nucleotide binding site [chemical binding]; other site 641491010790 HIGH motif; other site 641491010791 KMSKS motif; other site 641491010792 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 641491010793 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 641491010794 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 641491010795 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 641491010796 active site 641491010797 PHP-associated; Region: PHP_C; pfam13263 641491010798 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 641491010799 BON domain; Region: BON; pfam04972 641491010800 chaperone protein DnaJ; Provisional; Region: PRK14299 641491010801 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 641491010802 HSP70 interaction site [polypeptide binding]; other site 641491010803 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 641491010804 substrate binding site [polypeptide binding]; other site 641491010805 dimer interface [polypeptide binding]; other site 641491010806 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 641491010807 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 641491010808 Clp amino terminal domain; Region: Clp_N; pfam02861 641491010809 Clp amino terminal domain; Region: Clp_N; pfam02861 641491010810 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491010811 Walker A motif; other site 641491010812 ATP binding site [chemical binding]; other site 641491010813 Walker B motif; other site 641491010814 arginine finger; other site 641491010815 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 641491010816 Walker A motif; other site 641491010817 ATP binding site [chemical binding]; other site 641491010818 Walker B motif; other site 641491010819 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 641491010820 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 641491010821 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 641491010822 putative substrate translocation pore; other site 641491010823 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 641491010824 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 641491010825 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 641491010826 Tetratricopeptide repeat; Region: TPR_16; pfam13432 641491010827 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 641491010828 TPR motif; other site 641491010829 binding surface 641491010830 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 641491010831 TPR motif; other site 641491010832 TPR repeat; Region: TPR_11; pfam13414 641491010833 binding surface 641491010834 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 641491010835 binding surface 641491010836 TPR motif; other site 641491010837 GrpE; Region: GrpE; pfam01025 641491010838 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 641491010839 dimer interface [polypeptide binding]; other site 641491010840 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 641491010841 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 641491010842 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 641491010843 nucleotide binding site [chemical binding]; other site 641491010844 NEF interaction site [polypeptide binding]; other site 641491010845 SBD interface [polypeptide binding]; other site 641491010846 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 641491010847 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 641491010848 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 641491010849 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 641491010850 Peptidase family C69; Region: Peptidase_C69; cl17793 641491010851 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 641491010852 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 641491010853 Ligand Binding Site [chemical binding]; other site 641491010854 TPR repeat; Region: TPR_11; pfam13414 641491010855 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 641491010856 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 641491010857 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 641491010858 FeS/SAM binding site; other site 641491010859 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 641491010860 hypothetical protein; Provisional; Region: PRK11820 641491010861 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 641491010862 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 641491010863 hypothetical protein; Provisional; Region: PRK04323 641491010864 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 641491010865 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 641491010866 catalytic site [active] 641491010867 G-X2-G-X-G-K; other site 641491010868 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 641491010869 active site 641491010870 dimer interface [polypeptide binding]; other site 641491010871 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491010872 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 641491010873 binding surface 641491010874 TPR motif; other site 641491010875 Tetratricopeptide repeat; Region: TPR_12; pfam13424 641491010876 HDOD domain; Region: HDOD; pfam08668 641491010877 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491010878 Zn2+ binding site [ion binding]; other site 641491010879 Mg2+ binding site [ion binding]; other site 641491010880 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 641491010881 DHH family; Region: DHH; pfam01368 641491010882 DHHA1 domain; Region: DHHA1; pfam02272 641491010883 lipoyl synthase; Provisional; Region: PRK05481 641491010884 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 641491010885 FeS/SAM binding site; other site 641491010886 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 641491010887 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 641491010888 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 641491010889 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 641491010890 catalytic loop [active] 641491010891 iron binding site [ion binding]; other site 641491010892 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 641491010893 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 641491010894 TAP-like protein; Region: Abhydrolase_4; pfam08386 641491010895 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 641491010896 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 641491010897 active site 641491010898 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 641491010899 active site 641491010900 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 641491010901 active site 641491010902 SAM binding site [chemical binding]; other site 641491010903 homodimer interface [polypeptide binding]; other site 641491010904 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 641491010905 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 641491010906 intersubunit interface [polypeptide binding]; other site 641491010907 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 641491010908 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 641491010909 Walker A/P-loop; other site 641491010910 ATP binding site [chemical binding]; other site 641491010911 Q-loop/lid; other site 641491010912 ABC transporter signature motif; other site 641491010913 Walker B; other site 641491010914 D-loop; other site 641491010915 H-loop/switch region; other site 641491010916 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 641491010917 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 641491010918 dimer interface [polypeptide binding]; other site 641491010919 putative PBP binding regions; other site 641491010920 ABC-ATPase subunit interface; other site 641491010921 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 641491010922 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 641491010923 active site 641491010924 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 641491010925 active site 641491010926 N-terminal domain interface [polypeptide binding]; other site 641491010927 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 641491010928 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 641491010929 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 641491010930 ATP binding site [chemical binding]; other site 641491010931 Mg2+ binding site [ion binding]; other site 641491010932 G-X-G motif; other site 641491010933 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 641491010934 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 641491010935 putative binding surface; other site 641491010936 active site 641491010937 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 641491010938 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 641491010939 Response regulator receiver domain; Region: Response_reg; pfam00072 641491010940 active site 641491010941 phosphorylation site [posttranslational modification] 641491010942 intermolecular recognition site; other site 641491010943 dimerization interface [polypeptide binding]; other site 641491010944 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 641491010945 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 641491010946 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 641491010947 nudix motif; other site 641491010948 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 641491010949 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 641491010950 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 641491010951 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 641491010952 active site 641491010953 motif I; other site 641491010954 motif II; other site 641491010955 TPR repeat; Region: TPR_11; pfam13414 641491010956 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 641491010957 TPR motif; other site 641491010958 TPR repeat; Region: TPR_11; pfam13414 641491010959 binding surface 641491010960 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 641491010961 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 641491010962 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 641491010963 catalytic site [active] 641491010964 subunit interface [polypeptide binding]; other site 641491010965 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 641491010966 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 641491010967 Ligand binding site; other site 641491010968 oligomer interface; other site 641491010969 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 641491010970 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 641491010971 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 641491010972 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 641491010973 ATP-grasp domain; Region: ATP-grasp_4; cl17255 641491010974 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 641491010975 Zn2+ binding site [ion binding]; other site 641491010976 Mg2+ binding site [ion binding]; other site 641491010977 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 641491010978 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 641491010979 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 641491010980 dimerization interface [polypeptide binding]; other site 641491010981 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 641491010982 ATP binding site [chemical binding]; other site 641491010983 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 641491010984 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 641491010985 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 641491010986 active site 641491010987 phosphorylation site [posttranslational modification] 641491010988 intermolecular recognition site; other site 641491010989 dimerization interface [polypeptide binding]; other site 641491010990 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 641491010991 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 641491010992 FMN binding site [chemical binding]; other site 641491010993 active site 641491010994 catalytic residues [active] 641491010995 substrate binding site [chemical binding]; other site 641491010996 elongation factor Tu; Reviewed; Region: PRK00049 641491010997 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 641491010998 G1 box; other site 641491010999 GEF interaction site [polypeptide binding]; other site 641491011000 GTP/Mg2+ binding site [chemical binding]; other site 641491011001 Switch I region; other site 641491011002 G2 box; other site 641491011003 G3 box; other site 641491011004 Switch II region; other site 641491011005 G4 box; other site 641491011006 G5 box; other site 641491011007 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 641491011008 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 641491011009 Antibiotic Binding Site [chemical binding]; other site 641491011010 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 641491011011 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 641491011012 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 641491011013 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 641491011014 putative homodimer interface [polypeptide binding]; other site 641491011015 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 641491011016 heterodimer interface [polypeptide binding]; other site 641491011017 homodimer interface [polypeptide binding]; other site 641491011018 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 641491011019 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 641491011020 23S rRNA interface [nucleotide binding]; other site 641491011021 L7/L12 interface [polypeptide binding]; other site 641491011022 putative thiostrepton binding site; other site 641491011023 L25 interface [polypeptide binding]; other site 641491011024 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 641491011025 mRNA/rRNA interface [nucleotide binding]; other site 641491011026 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 641491011027 23S rRNA interface [nucleotide binding]; other site 641491011028 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 641491011029 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 641491011030 core dimer interface [polypeptide binding]; other site 641491011031 peripheral dimer interface [polypeptide binding]; other site 641491011032 L10 interface [polypeptide binding]; other site 641491011033 L11 interface [polypeptide binding]; other site 641491011034 putative EF-Tu interaction site [polypeptide binding]; other site 641491011035 putative EF-G interaction site [polypeptide binding]; other site 641491011036 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 641491011037 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 641491011038 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 641491011039 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 641491011040 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 641491011041 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 641491011042 RPB12 interaction site [polypeptide binding]; other site 641491011043 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 641491011044 RPB3 interaction site [polypeptide binding]; other site 641491011045 RPB1 interaction site [polypeptide binding]; other site 641491011046 RPB11 interaction site [polypeptide binding]; other site 641491011047 RPB10 interaction site [polypeptide binding]; other site 641491011048 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 641491011049 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 641491011050 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 641491011051 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 641491011052 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 641491011053 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 641491011054 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 641491011055 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 641491011056 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 641491011057 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 641491011058 DNA binding site [nucleotide binding] 641491011059 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 641491011060 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 641491011061 S17 interaction site [polypeptide binding]; other site 641491011062 S8 interaction site; other site 641491011063 16S rRNA interaction site [nucleotide binding]; other site 641491011064 streptomycin interaction site [chemical binding]; other site 641491011065 23S rRNA interaction site [nucleotide binding]; other site 641491011066 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 641491011067 30S ribosomal protein S7; Validated; Region: PRK05302 641491011068 elongation factor G; Reviewed; Region: PRK00007 641491011069 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 641491011070 G1 box; other site 641491011071 putative GEF interaction site [polypeptide binding]; other site 641491011072 GTP/Mg2+ binding site [chemical binding]; other site 641491011073 Switch I region; other site 641491011074 G2 box; other site 641491011075 G3 box; other site 641491011076 Switch II region; other site 641491011077 G4 box; other site 641491011078 G5 box; other site 641491011079 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 641491011080 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 641491011081 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 641491011082 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 641491011083 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 641491011084 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 641491011085 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 641491011086 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 641491011087 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 641491011088 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 641491011089 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 641491011090 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 641491011091 putative translocon binding site; other site 641491011092 protein-rRNA interface [nucleotide binding]; other site 641491011093 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 641491011094 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 641491011095 G-X-X-G motif; other site 641491011096 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 641491011097 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 641491011098 23S rRNA interface [nucleotide binding]; other site 641491011099 5S rRNA interface [nucleotide binding]; other site 641491011100 putative antibiotic binding site [chemical binding]; other site 641491011101 L25 interface [polypeptide binding]; other site 641491011102 L27 interface [polypeptide binding]; other site 641491011103 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 641491011104 23S rRNA interface [nucleotide binding]; other site 641491011105 putative translocon interaction site; other site 641491011106 signal recognition particle (SRP54) interaction site; other site 641491011107 L23 interface [polypeptide binding]; other site 641491011108 trigger factor interaction site; other site 641491011109 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 641491011110 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 641491011111 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 641491011112 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 641491011113 RNA binding site [nucleotide binding]; other site 641491011114 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 641491011115 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 641491011116 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 641491011117 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 641491011118 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 641491011119 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 641491011120 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 641491011121 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 641491011122 23S rRNA interface [nucleotide binding]; other site 641491011123 L21e interface [polypeptide binding]; other site 641491011124 5S rRNA interface [nucleotide binding]; other site 641491011125 L27 interface [polypeptide binding]; other site 641491011126 L5 interface [polypeptide binding]; other site 641491011127 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 641491011128 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 641491011129 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 641491011130 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 641491011131 23S rRNA binding site [nucleotide binding]; other site 641491011132 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 641491011133 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 641491011134 SecY translocase; Region: SecY; pfam00344 641491011135 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 641491011136 active site 641491011137 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 641491011138 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 641491011139 30S ribosomal protein S13; Region: bact_S13; TIGR03631 641491011140 30S ribosomal protein S11; Validated; Region: PRK05309 641491011141 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 641491011142 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 641491011143 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 641491011144 RNA binding surface [nucleotide binding]; other site 641491011145 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 641491011146 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 641491011147 alphaNTD homodimer interface [polypeptide binding]; other site 641491011148 alphaNTD - beta interaction site [polypeptide binding]; other site 641491011149 alphaNTD - beta' interaction site [polypeptide binding]; other site 641491011150 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 641491011151 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 641491011152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 641491011153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 641491011154 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 641491011155 putative dimerization interface [polypeptide binding]; other site 641491011156 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 641491011157 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 641491011158 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 641491011159 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491011160 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491011161 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 641491011162 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 641491011163 EamA-like transporter family; Region: EamA; pfam00892 641491011164 EamA-like transporter family; Region: EamA; pfam00892 641491011165 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 641491011166 Protein of unknown function (DUF615); Region: DUF615; pfam04751 641491011167 Protein of unknown function (DUF330); Region: DUF330; cl01135 641491011168 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 641491011169 mce related protein; Region: MCE; pfam02470 641491011170 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 641491011171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491011172 Walker A/P-loop; other site 641491011173 ATP binding site [chemical binding]; other site 641491011174 Q-loop/lid; other site 641491011175 ABC transporter signature motif; other site 641491011176 Walker B; other site 641491011177 D-loop; other site 641491011178 H-loop/switch region; other site 641491011179 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 641491011180 anti sigma factor interaction site; other site 641491011181 regulatory phosphorylation site [posttranslational modification]; other site 641491011182 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 641491011183 Permease; Region: Permease; pfam02405 641491011184 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 641491011185 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 641491011186 putative DNA binding site [nucleotide binding]; other site 641491011187 putative Zn2+ binding site [ion binding]; other site 641491011188 AsnC family; Region: AsnC_trans_reg; pfam01037 641491011189 Proline dehydrogenase; Region: Pro_dh; cl03282 641491011190 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 641491011191 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 641491011192 Glutamate binding site [chemical binding]; other site 641491011193 homodimer interface [polypeptide binding]; other site 641491011194 NAD binding site [chemical binding]; other site 641491011195 catalytic residues [active] 641491011196 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 641491011197 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 641491011198 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 641491011199 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 641491011200 Sulfate transporter family; Region: Sulfate_transp; pfam00916 641491011201 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 641491011202 Sulfate transporter family; Region: Sulfate_transp; pfam00916 641491011203 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 641491011204 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 641491011205 Response regulator receiver domain; Region: Response_reg; pfam00072 641491011206 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 641491011207 active site 641491011208 phosphorylation site [posttranslational modification] 641491011209 intermolecular recognition site; other site 641491011210 dimerization interface [polypeptide binding]; other site 641491011211 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 641491011212 dimer interface [polypeptide binding]; other site 641491011213 phosphorylation site [posttranslational modification] 641491011214 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 641491011215 ATP binding site [chemical binding]; other site 641491011216 Mg2+ binding site [ion binding]; other site 641491011217 G-X-G motif; other site 641491011218 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 641491011219 active site 641491011220 phosphorylation site [posttranslational modification] 641491011221 intermolecular recognition site; other site 641491011222 dimerization interface [polypeptide binding]; other site 641491011223 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 641491011224 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 641491011225 dimer interface [polypeptide binding]; other site 641491011226 phosphorylation site [posttranslational modification] 641491011227 Response regulator receiver domain; Region: Response_reg; pfam00072 641491011228 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 641491011229 active site 641491011230 phosphorylation site [posttranslational modification] 641491011231 intermolecular recognition site; other site 641491011232 dimerization interface [polypeptide binding]; other site 641491011233 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 641491011234 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 641491011235 Coenzyme A binding pocket [chemical binding]; other site 641491011236 ABC transporter ATPase component; Reviewed; Region: PRK11147 641491011237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 641491011238 Walker A/P-loop; other site 641491011239 ATP binding site [chemical binding]; other site 641491011240 Q-loop/lid; other site 641491011241 ABC transporter signature motif; other site 641491011242 Walker B; other site 641491011243 D-loop; other site 641491011244 H-loop/switch region; other site 641491011245 ABC transporter; Region: ABC_tran_2; pfam12848 641491011246 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 641491011247 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 641491011248 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 641491011249 substrate binding site [chemical binding]; other site 641491011250 hexamer interface [polypeptide binding]; other site 641491011251 metal binding site [ion binding]; metal-binding site 641491011252 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 641491011253 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 641491011254 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 641491011255 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 641491011256 FeS/SAM binding site; other site 641491011257 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 641491011258 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; cd00384 641491011259 dimer interface [polypeptide binding]; other site 641491011260 active site 641491011261 Schiff base residues; other site 641491011262 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 641491011263 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 641491011264 FeS/SAM binding site; other site 641491011265 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 641491011266 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 641491011267 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 641491011268 ligand binding site [chemical binding]; other site 641491011269 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 641491011270 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG2881 641491011271 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 641491011272 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 641491011273 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 641491011274 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 641491011275 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 641491011276 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 641491011277 flagellin; Provisional; Region: PRK12804 641491011278 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 641491011279 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 641491011280 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 641491011281 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 641491011282 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847